Past Journal Club

5/30/17 -

Colby Samstag -

Cytosolic proteostasis through importing of misfolded proteins into mitochondria.
Linhao Ruan, Chuankai Zhou, Erli Jin, Andrei Kucharavy, Ying Zhang, Zhihui Wen, Laurence Florens & Rong Li

5/23/17 -

Jason Klein
Chen, Capellini, et al. Heads, Shoulders, Elbows, Knees, and Toes: Modular Gdf5 Enhancers Control Different Joints in the Vertebrate Skeleton. PLOS Genetics.

Phil Green
Tomasetti C et al. (2017) Stem cell divisions, somatic mutations, cancer etiology, and cancer prevention. Science 355 : 1330-1334.

5/16/17 -

Greg Findlay
Erlich, Y., Zielinski, D.  DNA Fountain enables a robust and efficient storage architectureScience 355 (6328), 950-954.

Seungsoo Kim
Takahashi et al. (2017) Integration of CpG-free DNA induces de novo methylation of CpG islands in pluripotent stem cells. Science 356: 503-508.

5/9/17 -

Eliah Overbey
Castro-Wallace et al. Nanopore DNA Sequencing and Genome Assembly on the International Space Station. bioRxiv (2016).
http://biorxiv.org/content/early/2016/09/27/077651

5/2/17 -

Max Dougherty
Saleheen et al. 2007. Human knockouts and phenotypic analysis in a cohort with a high rate of consanguinity. Nature https://www.ncbi.nlm.nih.gov/pubmed/28406212

Steven Lee
Dongjun Chung, et al. graph-GPA: A graphical model for prioritizing GWAS results and investigating pleiotropic architecture. PLOS Computational Biology.

4/25/17 -

Vijay Ramani
Zhao, Wang, Beadell et al, "m6A-dependent maternal mRNA clearance facilitates zebrafish maternal-to-zygotic transition," Nature (2017)

4/18/17 -

Anne Clark
Li D, Azoulay P, and Sampat BN (2017). The applied value of public investments in biomedical researchScience 356:78-81.

Andy Lin
Sattar SA, et al. Decontamination of indoor air to reduce the risk of airborne infections: Studies on survival and inactivation of airborne pathogens using an aerobiology chamber. Am J Infect Control. 2016 Oct 1;44(10):e177-e182. doi: 10.1016/j.ajic.2016.03.067. Epub 2016 Jun 30.

Sattar SA, et al. Airborne pathogens inside automobiles for domestic use: Assessing in-car air decontamination devices using Staphylococcus aureus as the challenge. Applied and Environmental Microbiology.

4/11/17 -

Emily Killingbeck
CD32a is a marker of a CD4 T-cell HIV reservoir harbouring replication-competent proviruses. Descours, B. et al. Nature 543, 564–567 (2017).

Brian Searle
Structures of the cyanobacterial circadian oscillator frozen in a fully assembled state. Snijder J, Schuller JM, Wiegard A, Lössl P, Schmelling N, Axmann IM, Plitzko JM, Förster F, Heck AJ. Science. 2017 Mar 17;355(6330):1181-1184. doi: 10.1126/science.aag3218.

4/4/17 -

Alex Eng
Thomou, Thomas, et al. "Adipose-derived circulating miRNAs regulate gene expression in other tissues." Nature (2017).

John Lazar
Teves, Sheila S., et al. "A dynamic mode of mitotic bookmarking by transcription factors." Elife 5 (2016): e22280.

3/28/17 -

Claudia Espinoza
Bachner-Melman R, Dina C, Zohar AH, Constantini N, Lerer E, et al. (2005) AVPR1a and SLC6A4 Gene Polymorphisms Are Associated with Creative Dance Performance. PLOS Genetics 1(3): e42. doi: 10.1371/journal.pgen.0010042

Madeleine Geisheker
Rogers RL & Slatkin M. (2017). Excess of genomic defects in a wooly mammoth on Wrangel island. PLOS Genet 13(3): e1006601. doi:10.1371/journal.pgen.1006601.

Juhye Lee
Reid, N. M. The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish. Science 354, 2016.

3/7/17 -

Jim Bruce
Vinothkumar, KR, et al. “Structure of the mitochondrial ATP synthase from Pichia angusta determined by electron cryo-microscopy”. Proceedings of the National Academy of Sciences, November 8, 2016, vol. 113, 12709–12714.

Andrew Hill

Hannah Pliner
Halpern, KB, et al., Singe-cell spatial reconstruction reveals global division of labour in the mammalian liver, Nature 542, 352–356 (16 February 2017)

2/28/17 -

Molly Gasperini
Fulco, C. P., Munschauer, M., Anyoha, R., Munson, G., Sharon, R., Perez, E. M., … Jesse, M. (2016). Supplementary Materials for Systematic mapping of functional enhancer - promoter connections with. Science, 354(6313), 769–773. http://doi.org/10.1126/science.aag2445

2/21/17 -

Serena Liu
Zheng, J.H. et al. "Two-step enhanced cancer immunotherapy with engineered Salmonella typhimurium secreting heterologous flagellin." Sci. Transl. Med. 9, eaak9537 (2017).

Leo Pallanck
Elimination of paternal mitochondria in mouse embryos occurs through autophagic degradation dependent on PARKIN and MUL1.
Rojansky R, Cha MY, Chan DC. Elife. 2016 Nov 17;5. pii: e17896.

2/14/17 -

Sarah Hilton
Cognition-mediated evolution of low-quality floral nectars. Vladislav Nachev, Kai Petra Stich, Clemens Winter, Alan Bond, Alan Kamil and York Winter (January 5, 2017). Science 355 (6320), 75-78. [doi: 10.1126/science.aah4219]

Xiaojie Qiu
Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens

A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response

Dissecting Immune Circuits by Linking CRISPR- Pooled Screens with Single-Cell RNA-Seq

2/7/17 -

Ken Chen
Wu, J. et al. Interspecies Chimerism with Mammalian Pluripotent Stem Cells. Cell 168, 473–486.e15 (2017).

Mike Doud
Structured States of Disordered Proteins from Genomic Sequences Toth-Petroczy, Agnes et al. Cell, Volume 167 , Issue 1 , 158 - 170.e12
http://dx.doi.org/10.1016/j.cell.2016.09.010

1/31/17 -

Khrystyna Dilai
Loh et al.,"Mapping the Pairwise Choices Leading from Pluripotency to Human Bone, Heart, and Other Mesoderm Cell Types." Cell 166.2 (2016): 451-67.

Evan Eichler
Ju XC, Hou QQ, Sheng AL, et al. The hominoid-specific gene TBC1D3 promotes generation of basal neural progenitors and induces cortical folding in mice. Elife. 2016 Aug 9;5. pii: e18197. doi: 10.7554/eLife.18197.

1/24/17 -

Debbie Nickerson
Astle WJ, Elding H, Jiang T et al. The Allelic Landscape of Human Blood Cell Trait Variation and Links to Common Complex Disease. Cell. 2016 Nov 17;167(5):1415-1429.e19. doi: 10.1016/j.cell.2016.10.042.

Chen, L., Ge, B. et al. Genetic Drivers of Epigenetic and Transcriptional Variation in Human Immune Cells. Cell. 2016 Nov 17;167(5):1398-1414.e24. doi: 10.1016/j.cell.2016.10.026.

Tim Durham
Lu, C. P., L. Polak, B. E. Keyes, and E. Fuchs. “Spatiotemporal Antagonism in Mesenchymal-Epithelial Signaling in Sweat versus Hair Fate Decision.” Science 354, no. 6319 (December 23, 2016): aah6102-aah6102. doi:10.1126/science.aah6102.

1/17/17 -

Jolie Carlisle
William H. Hudson, Bradley R. Kossmann, Ian Mitchelle S. de Vera, Shih-Wei Chuo, Emily R. Weikum, Geeta N. Eick, Joseph W. Thornton, Ivaylo N. Ivanov, Douglas J. Kojetin, and Eric A. Ortlund. "Distal substitutions drive divergent DNA specificity among paralogous transcription factors 
through subdivision of conformational space"
. PNAS 2016 113 (2) 326-331; published ahead of print December 29, 2015, 
doi:10.1073/pnas.1518960113

Heather Machkovech
Swart, E. C., Serra, V., Petroni, G., & Nowacki, M. (2016). Genetic Codes with No Dedicated Stop Codon: Context-Dependent Translation Termination. Cell, 166(3), 691–702.

1/10/17 -

Colin McNally
Hackett et al. Systems-level analysis of mechanisms regulating yeast metabolic flux. Science, 2016.

Cecilia Noecker
Worobey et al. (2016). 1970s and “Patient 0” HIV-1 genomes illuminate early HIV/AIDS history in North America. Nature.

1/3/17 -

Anja Ollodart
"The escalatory Red Queen: Population extinction and replacement following arms-race dynamics in poplar rust
A. Persoons, K. J. Hayden, B. Fabre, P. Frey, S. De Mita, A. Tellier and F. Halkett. Molecular Ecology Dec 2016 

Jonathan Packer
Berry DC, Jiang Y, Arpke RW, Close EL, Uchida A, Reading D, Berglund ED, Kyba M, Graff JM. Cellular Aging Contributes to Failure of Cold-Induced Beige Adipocyte Formation in Old Mice and Humans. Cell Metabolism 25 (2016): 1-16.

12/6/16 -

Willie Swanson
Maria Chikina, Joseph D. Robinson, Nathan L. Clark Hundreds of Genes Experienced Convergent Shifts in Selective Pressure in Marine Mammals Mol Biol Evol (2016) 33 (9): 2182-2192 first published online June 21, 2016 doi:10.1093/molbev/msw112

11/29/16 -

Mary-Claire King
Chatterjee S, Kapoor A, Akiyama JA, Auer DR, Lee D, Gabriel S, Berrios C, Pennacchio LA, Chakravarti A. Enhancer Variants Synergistically Drive Dysfunction of a Gene Regulatory Network in Hirschsprung Disease. Cell 167(2):355-368, 2016

Abigail Keller
Chakrabortee, S., Byers, J. S., Jones, S., Garcia, D. M., Bhullar, B., Chang, A., et al. (2016). Intrinsically Disordered Proteins Drive Emergence and Inheritance of Biological Traits. Cell167(2), 369–381.e12. http://doi.org/10.1016/j.cell.2016.09.017

 

11/22/16 -

Mike MacCoss
Nixon-Abell J, Obara CJ, Weigel AV, Li D, Legant WR, Xu CS, Pasolli HA, Harvey K, Hess HF, Betzig E, Blackstone C, Lippincott-Schwartz J. Increased spatiotemporal resolution reveals highly dynamic dense tubular matrices in the peripheral ER. Science. 2016 Oct 28;354(6311).

Amanda Watts
de Keijser et al. "Differential reporting of mixed DNA profiles and its impact on jurists' evaluation of evidence. An international analysis". Forensic Sci Int Genet, 2016.

Gill P. "Analysis and implications of the miscarriages of justice of Amanda Knox and Raffaele Sollecito." Forensic Sci Int Genet, 2016

11/15/16 -

Katherine Xue
Natarajan et al. Predictable convergence in hemoglobin function has unpredictable molecular underpinnings. Science, 2016.

Aaron Wolf
Genetic Ancestry and Natural Selection Drive Population Differences in Immune Responses to Pathogens. Yohann Nédélec, Joaquín Sanz, Golshid Baharian, Zachary A. Szpiech, Alain Pacis, Anne Dumaine, Jean-Christophe Grenier, Andrew Freiman, Aaron J. Sams, Steven Hebert, Ariane Pagé Sabourin, Francesca Luca, Ran Blekhman, Ryan D. Hernandez, Roger Pique-Regi, Jenny Tung, Vania Yotova, Luis B. Barreiro. Cell , Volume 167 , Issue 3 , 657 - 669.e21

11/8/16 -

Muehlhausen, Stefanie, et al. "A novel nuclear genetic code alteration in yeasts and the evolution of codon reassignment in eukaryotes." Genome Research, 2016.

11/1/16 -

Aaron Seo
Asprosin, a Fasting-Induced Glucogenic Protein Hormone. Romere, Chase et al. Cell , Volume 165 , Issue 3 , 566 - 579

10/25/16 -

Stan Fields
Accurate design of megadalton-scale two-component icosahedral protein complexes. Bale JB, Gonen S, Liu Y, Sheffler W, Ellis D, Thomas C, Cascio D, Yeates TO, Gonen T, King NP, Baker D. Science. 2016 353:389-94

10/18/16 -

Ken Jean-Baptiste
Nolan T, Borja-Tabora C, Lopez P, Weckx L, Ulloa-Gutierrez R, Lazcano-Ponce E, et al. Prevalence and incidence of respiratory syncytial virus and other respiratory viral infections in children 6 months to 10 years of age with influenza-like illness enrolled in a randomized trial. Clin Infect Dis. (2015) 60 (11): e80-e89.doi:10.1093/cid/civ065

Taylor S, et al., Respiratory viruses and influenza-like illness: Epidemiology and outcomes in children aged 6 months to 10 years in a multi-country population sample, J Infect (2016)

10/11/16 -

Damon May
Leah R. Jager, Jeffrey T. Leek. An estimate of the science-wise false discovery rate and application to the top medical literature. Biostatistics.

Lindsay Pino
Glendon J. Parker et al. Demonstration of Protein-Based Human Identification Using the Hair Shaft Proteome. PLOS One. September 7, 2016

10/4/16 -

Melissa Chiasson
Asymmetric partitioning of transfected DNA during mammalian cell division. Wang, X., Le, N., Denoth-Lippuner, A., Barral, Y., & Kroschewski, R. (2016). Proceedings of the National Academy of Sciences, 113(26).

5/31/16 -

Eliah Overbey
Tachibana, M. et al (2013). Human Embryonic Stem Cells Derived by Somatic Cell Nuclear Transfer. Cell, 154(2), 465-466. doi:10.1016/j.cell.2013.06.042

Jonathan Packer
Sarah J. Hatsell, Vincent Idone, et al. ACVR1(R206H) receptor mutation causes fibrodysplasia ossificans progressiva by imparting responsiveness to activin A. Science Translational Medicine 02 Sep 2015:
Vol. 7, Issue 303, pp. 303ra137

5/24/16 -

Steven Lee
Sara Sheehan and Yun S. Song. “Deep Learning for Population Genetic Inference
PLOS Computational Biology | DOI:10.1371/journal.pcbi.1004845. March 28, 2016

Andy Lin
Cobaugh KL, Schaeffer SM, DeBruyn JM. Functional and Structural Succession of Soil Microbial Communities below Decomposing Human Cadavers. PLoS One. 2015 Jun 12;10(6):e0130201.

5/17/16 -

Ken Jean-Baptiste
Jiang, W., et al. Degradation of Phage Transcripts by CRISPR-Associated RNases Enables Type III CRISPR-Cas Immunity. Cell 164.4 (2016): 710–721.

Juhye Lee
Liu, Gaowen et al. Gene Essentiality Is a Quantitative Property Linked to Cellular Evolvability. Cell , Volume 163 , Issue 6 , 1388 - 1399

5/10/16 -

Khrystyna Dilai
Satija, R., Farrell, J. A., Gennert, D., Schier, A. F., & Regev, A. (2015). Spatial reconstruction of single-cell gene expression data. Nat Biotech, 33(5), 495–502.

Sarah Hilton
Berg, Russell D. et al. Lysosomal Disorders Drive Susceptibility to Tuberculosis by Compromising Macrophage Migration. Cell , Volume 165 , Issue 1 , 139 - 152

5/3/16 -

Jolie Carlisle
Linnen, Catherine R., et al. "Adaptive Evolution of Multiple Traits Through Multiple Mutations at a Single Gene." Science VOL 339 (2003): 1312-1316.

Jacob Schreiber
Song, et al. Simultaneous single-molecule epigenetic imaging of DNA methylation and hydroxymethylation. PNAS. doi: 10.1073/pnas.1600223113

4/26/16 -

Bryan Andrews
Charbonneau, Mark R., et al. "Sialylated Milk Oligosaccharides Promote Microbiota-Dependent Growth in Models of Infant Undernutrition." Cell 164.5 (2016): 859-871.

Abigail Keller
Wallbank, R. W. R., Baxter, S. W., Pardo-Diaz, C., Hanly, J. J., Martin, S. H., Mallet, J., et al. (2016). Evolutionary Novelty in a Butterfly Wing Pattern through Enhancer Shuffling. PLoS Biology, 14(1), e1002353.

4/19/16 -

Xiaojie Qiu
Kim S, Kim N, et al. Dynamics of HSPC repopulation in nonhuman primates revealed by a decade-long clonal-tracking study. Cell Stem Cell. 2014 Apr 3;14(4):473-85. doi: 10.1016/j.stem.2013.12.012.

Sidhartha Goyal, et al. Mechanisms of blood homeostasis: lineage tracking and a neutral model of cell populations in rhesus macaques. BMC Biology 2015 13:85

Colby Samstag
Lee C, Zeng J, Drew BG, Sallam T, Martin-Montalvo A, Wan J, et al. The Mitochondrial-Derived Peptide MOTS-c Promotes Metabolic Homeostasis and Reduces Obesity and Insulin Resistance. Cell Metabolism. 2015;21: 443–454. doi:10.1016/j.cmet.2015.02.009

4/12/16 -

Aaron Seo
Westermann, A. J. et al. Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions. Nature 529, 496–501 (2016).

Han-Yin Yang
TARANIS Functions with Cyclin A and Cdk1 in a Novel Arousal Center to Control Sleep in Drosophila. Current Biology, 29 June 2015

4/5/16 -

Serena Liu
"Transcriptional regulators form diverse groups with context-dependent regulatory functions." Gerald Stampfel, Tomáš Kazmar, Olga Frank, Sebastian Wienerroither, Franziska Reiter & Alexander Stark. Nature (2015) doi:10.1038/nature15545

Aaron McKenna
Hnisz et. al. Activation of proto-oncogenes by disruption of chromosome neighborhoods. Science  03 Mar 2016. DOI: 10.1126/science.aad9024

3/29/16 -

Joe Felsenstein
Guy Karlebach and Ron Shamir.  2008.  Modelling and analysis of gene regulatory networks. Nature Reviews Molecular Cell Biology 9, 770-780 (October 2008) doi:10.1038/nrm2503

Greg Findlay
Korkmaz, Gozde, et al. "Functional genetic screens for enhancer elements in the human genome using CRISPR-Cas9." Nature biotechnology (2016).

3/8/16 -

Mike Doud
Aakre, Christopher D., et al. "Evolving New Protein-Protein Interaction Specificity through Promiscuous Intermediates." Cell 163.3 (2015): 594-606.

John Lazar
Silver, David, et al. "Mastering the game of Go with deep neural networks and tree search." Nature (2016).

3/1/16 -

Alex Eng
"Re-engineering the zinc fingers of PRDM9 reverses hybrid sterility in mice." Davies, Benjamin et al,Nature 2016

Colin McNally
Burri, R. et al. Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers. Genome Res. 25, 1656–1665 (2015).

2/23/16 -

Daniel Chee
Genomic insights into the Ixodes scapularis tick vector of Lyme disease. Monika Gulia-Nuss et al. Nature Communications 7, Article number: 10507 doi:10.1038/ncomms10507

Vijay Ramani
Sharma, Conine et al, "Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals," Science (2016)

2/16/16 -

Heather Machkovech
Delong, T., Wiles, T. A., Baker, R. L., Bradley, B., Barbour, G., Reisdorph, R., Haskins, K. (2016). Pathogenic CD4 T cells in type 1 diabetes recognize epitopes formed by peptide fusion. Science, 351(6274), 1–5.

Joshua Schraiber
Variation in the molecular clock of primates. Priya Moorjani, Carlos Eduardo G. Amorim, Peter F. Arndt, Molly Przeworski
bioRxiv doi: http://dx.doi.org/10.1101/036434

2/9/16 -

Maitreya Dunham
Dave W Anderson, Alesia N McKeown, Joseph W Thornton. Intermolecular epistasis shaped the function and evolution of an ancient transcription factor and its DNA binding sites. eLife. June 15, 2015.

Emily Killingbeck
Complex archaea that bridge the gap between prokaryotes and eukaryotes. Anja Spang, et al. Nature 521, 173–179 (14 May 2015) doi:10.1038/nature14447.

2/2/16 -

Max Dougherty
Prescott et al., 2015. Enhancer Divergence and cis-Regulatory Evolution in the Human and Chimp Neural Crest. Cell 163 (1), 68-83.

Cecilia Noecker
Patalano et al. (2015). Molecular signatures of plastic phenotypes in two eusocial insect species with simple societies. PNAS doi:10.1073/pnas.1515937112

Kapheim, Pan, et al. (2015). Genomic signatures of evolutionary transitions from solitary to group living. Science doi:10.1126/science.aaa4788

1/26/16 -

Jason Klein
Ida Donkin, Soetkin Versteyhe, et al. Obesity and Bariatric Surgery Drive Epigenetic Variation of Spermatozoa in Humans
Cell Metabolism.

Hannah Pliner
Evolving New Skeletal Traits by cis-Regulatory Changes in Bone Morphogenetic Proteins
Indjeian VB, Kingman GA, Jones FC, Guenther CA, Grimwood J, Schmutz J, Myers RM, Kingsley DM. Cell. 2016 Jan 14;164(1-2):45-56. doi: 10.1016/j.cell.2015.12.007. Epub 2016 Jan 7

1/19/16 -

Damon May
David Zeevi, Tal Korem, et al. Personalized Nutrition by Prediction of Glycemic Responses. Cell. Volume 163, Issue 5, p1079–1094, 19 November 2015

Molly Gasperini
Tabebordbar, M., Zhu, K., Cheng, J. K. W., Chew, W. L., Widrick, J. J., Yan, W. X., … Wagers, A. J. (2015). In vivo gene editing in dystrophic mouse muscle and muscle stem cells. Science, 5177(DECEMBER), 1–9. http://doi.org/10.1126/science.aad5177

Liang, P., Xu, Y., Zhang, X., Ding, C., Huang, R., Zhang, Z., … Huang, J. (2015). CRISPR/Cas9-mediated gene editing in human tripronuclear zygotes. Protein & Cell, 6(5), 363–72. http://doi.org/10.1007/s13238-015-0153-5

1/12/16 -

Madeleine Geisheker
Highly efficient Cas9-mediated gene drive for population modification of the malaria vector mosquito Anopheles stephensi. (2015). Gantz et al. PNAS.

Amanda Watts
Ando et al. Engineering modular viral scaffolds for targeted bacterial population editing. Cell Systems (2015)

1/5/15 -

Tim Durham
Emmons-Bell, Maya, Fallon Durant, Jennifer Hammelman, Nicholas Bessonov, Vitaly Volpert, Junji Morokuma, Kaylinnette Pinet, et al. “Gap Junctional Blockade Stochastically Induces Different Species-Specific Head Anatomies in Genetically Wild-Type Girardia Dorotocephala Flatworms.” International Journal of Molecular Sciences 16, no. 11 (November 24, 2015): 27865–96. doi:10.3390/ijms161126065.

Aaron Wolf
Jacob Tennessen, Andre Theron, Melanie Marine, Jan-Ying Yeh, Anne Rognon, Michael Blouin. "Hyperdiverse Gene Cluster in Snail Host Conveys Resistance to Human Schistosome Parasites" PLOS Genetics. 2015.

12/8/15 -

Melissa Chiasson
Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions. (2015). Lupiáñez et al. Cell, 161(5). http://doi.org/10.1016/j.cell.2015.04.004

Vanessa Gray
Somatic mutation in single human neurons tracks developmental and transcriptional history. (2015). Science 350(6256), 94–98. http://doi.org/10.1126/science.aab1785

12/1/15 -

Clara Amorosi
Enright, Jennifer M., et al. "Cyp27c1 Red-Shifts the Spectral Sensitivity of Photoreceptors by Converting Vitamin A1 into A2." Current Biology (2015).

Claudia Espinoza
Transgenic songbirds with suppressed or enhanced activity of CREB transcription factor. (2015). 
Abe, K, et al.  PNAS

11/24/15 -

Anne Clark
Lin Y, Sohn CH, Dalal CK, Cai L & Elowitz MB (2015). Combinatorial gene regulation by modulation of relative pulse timing. Nature 527:54–8.

Andrew Hill
Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella. (2015). Quick et al. Genome Biology, 16, 114. http://doi.org/10.1186/s13059-015-0677-2

Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis. (2015). Greninger et al. Genome Medicine, 7(1), 99. http://doi.org/10.1186/s13073-015-0220-9

11/17/15 -

Stephanie Battle
Abegglen LM, Caulin AF, Chan A, et al. Potential Mechanisms for Cancer Resistance in Elephants and Comparative Cellular Response to DNA Damage in Humans.JAMA. Published online October 08, 2015. doi:10.1001/jama.2015.13134.

Wei Zhou
Sympathetic Neuro-adipose Connections Mediate Leptin-Driven Lipolysis. Cell 163, 84-94, Sept. 24,2015

11/10/15 -

Seungsoo Kim
Prindle A, Liu J, Asally M, Ly S, Garcia-Ojalvo J, and Süel GM. (2015). Ion channels enable electrical communication in bacterial communities. Nature 527:59-63. doi:10.1038/nature15709

Lindsay Pino
Molecular architecture of the active mitochondrial protein gate. Shiota, et al. Science 2015

11/3/15 -

Ken Chen
Chiu Y-C, Egner T. Inhibition-Induced Forgetting When More Control Leads to Less Memory. Psychological Science. 2015 Jan 1;26(1):27–38.

Chiu Y-C, Egner T. Inhibition-Induced Forgetting Results from Resource Competition between Response Inhibition and Memory Encoding Processes. J Neurosci. 2015 Aug 26;35(34):11936–45.

10/27/15 -

Katherine Xue
Metabolic co-dependence gives rise to collective oscillations within biofilms
Jintao Yu, Arthur Prindle, Jacqueling Humphries, Marcal Gabalda-Sagarra, Munehiro Asally, Dong-yeon D. Lee, San Ly, Jordi Garcia-Ojalvo, and Gurol M. Suel
Nature 523, 550-554 (30 July 2015)

10/20/15 -

Alex Hu
Eye-like ocelloids are built from different endosymbiotically acquired components
Gregory S. Gavelis, Shiho Hayakawa, Richard A. White III, Takashi Gojobori, Curtis A. Suttle, Patrick J. Keeling & Brian S. Leander. Nature 523, 204–207 (09 July 2015).

10/6/15 -

Celeste Berg
Merckx, Vincent S F T, Kasper P Hendriks, Kevin K Beentjes, Constantijn B Mennes, Leontine E Becking, Katja T C A Peijnenburg, Aqilah Afendy, et al. 2015. “Evolution of Endemism on a Young Tropical Mountain..” Nature 524 (7565): 347–50. doi:10.1038/nature14949.

Brian Searle
Evidence for human transmission of amyloid-β pathology and cerebral amyloid angiopathy. Jaunmuktane Z, Mead S, Ellis M, Wadsworth JD, Nicoll AJ, Kenny J, Launchbury F, Linehan J, Richard-Loendt A, Walker AS, Rudge P, Collinge J, Brandner S. Nature. 2015 Sep 10;525(7568):247-50. doi: 10.1038/nature15369.

9/29/15 -

Mary-Claire King
Fumagalli M, Moltke I, Grarup N, Racimo F, Bjerregaard P, Jørgensen ME, Korneliussen TS, Gerbault P, Skotte L, Linneberg A, Christensen C, Brandslund I, Jørgensen T, Huerta-Sánchez E, Schmidt EB, Pedersen O, Hansen T, Albrechtsen A, Nielsen R. Greenlandic Inuit show genetic signatures of diet and climate adaptation. Science 349: 1343-1347, 2015

6/2/15 -

Max Dougherty
Anderson DM et al. A Micropeptide Encoded by a Putative Long Noncoding RNA Regulates Muscle Performance. Cell 160, 595-606 (2015).

Madeleine Geisheker
Grow, EJ et al. Intrinsic retroviral reactivation in human preimplantation embryos and pluripotent cells. Nature. 2015 April; [Epub ahead of print]

Katherine Xue
Ottesen et al. Multispecies diel transcriptional oscillations in open ocean heterotrophic bacterial assemblages. Science 345: 207-212 (2014).

Aylward et al. Microbial community transcriptional networks are conserved in three domains at ocean basin scales. PNAS 112(17): 5443-5448 (2015).

5/26/15 -

Hannah Pliner
Metzger, M.J. et. al. (2015). Horizontal transmission of clonal cancer cells causes leukemia in soft-shell clams. Cell 161, 255–263.

Brian Searle
J. Kim et al. Translational tuning optimizes nascent protein folding in cells. Science 348, 444 (2015).

and

D. H. Goldman et al. Mechanical force releases nascent chain–mediated ribosome arrest in vitro and in vivo. Science 348, 457 (2015).

5/19/15 -

Damon May
J. William Schopf et al. Sulfur-cycling fossil bacteria from the 1.8-Ga Duck Creek Formation provide promising evidence of evolution's null hypothesis. PNAS vol. 112 no. 7.

Lindsay Pino
Aleksandar D. Kostic, et al"The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes". Cell Host & Microbe 17, 260–273.

5/12/15 -

Serena Liu
Viana, D. et al. (2015). A single natural nucleotide mutation alters bacterial pathogen host tropism. Nature Genetics 47, 361-66.

Heather Machkovech
Monica R. Mugnier, George A. M. Cross, F. Nina Papavasiliou. The in vivo dynamics of antigenic variation in Trypanosoma brucei. Science 27 March 2015: Vol. 347 no. 6229 pp. 1470-1473 DOI: 10.1126/science.aaa4502

5/5/15 -

Claudia Espinoza
Reijns et al. Lagging-strand replication shapes the mutational landscape of the genome. Nature 518, 502–506 (26 February 2015) doi:10.1038/nature14183

John Lazar
Jovanovic, Marko, et al. Dynamic profiling of the protein life cycle in response to pathogens. Science 347.6226 (2015): 1259038.

4/28/15 -

Andrew Hill
Ebrahim Afshinnekoo and Cem Meydan et al. Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics. Cell, February 2015. doi:10.1016/j.cels.2015.01.001

Emily Killingbeck
Matthias Merker, et al. Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage. Nature Genetics 47, 242–249 (2015) doi:10.1038/ng.3195

4/21/15 -

Molly Gasperini
Van Allen, E. M., Wagle, N., Stojanov, P., Perrin, D. L., Cibulskis, K., Marlow, S., … Garraway, L. a. (2014). Whole-exome sequencing and clinical interpretation of formalin-fixed, paraffin-embedded tumor samples to guide precision cancer medicine. Nature Medicine, 20(6), 682–8. http://doi.org/10.1038/nm.3559

Collins, F., & Varmus, H. (2015). A New Initiative on Precision Medicine. New England Journal of Medicine372(9), 793–795.

Aaron Wolf
Adler et al., Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions. Nature Genetics. 2013.

4/14/15 -

Greg Findlay
Sandler et al., “Lineage correlations of single cell division time as a probe of cell-cycle dynamics," Nature 519, 468–471 (2015).

Jason Klein
Goldfarb T. BREX is a novel phage resistance system widespread in microbial genomes. EMBO J. 2015 Jan 13;34(2):169-83. doi: 10.15252/embj.201489455. Epub 2014 Dec 1.

4/7/15 -

Clara Amorosi
Wallberg, Andreas, et al. "A worldwide survey of genome sequence variation provides insight into the evolutionary history of the honeybee Apis mellifera." Nature genetics (2014).

Amanda Watts
Meng et al. Towards a therapy for Angelman syndrome by targeting a long non-coding RNA. Nature Vol 518 pp 409-414. doi: 10/1038.nature13975. Feb 19, 2015

3/31/15 -

Vijay Ramani
Sczepanski and Joyce, "A cross-chiral RNA polymerase ribozyme," Nature 515, 440–442 (2014).

Alex Mason
McDermott et al. Chromothriptic Cure of WHIM Syndrome. Cell Volume 160, Issue 4, p686–699, 12 February 2015.

3/10/15 -

M.K. Raghuraman
Pirbadian, S. et al. (2014). Shewanella oneidensis MR-1 nanowires are outer membrane and periplasmic extensions of the extracellular electron transport components. PNAS USA 111, 12883-12888.

Michael Duyzend
Gaber, R. et al. Designable DNA-binding domains enable construction of logic circuits in mammalian cells. Nat. Chem. Biol. 10, 203–208 (2014).

3/3/15 -

Ken Chen
Bartal, I. B.-A., Decety, J. & Mason, P. Empathy and Pro-Social Behavior in Rats. Science 334, 1427–1430 (2011).

Bartal, I. B.-A., Rodgers, D. A., Sarria, M. S. B., Decety, J. & Mason, P. Pro-social behavior in rats is modulated by social experience. eLife Sciences 3, e01385 (2014).

Mike Doud
Cohn, Lillian B., et al. "HIV-1 Integration Landscape during Latent and Active Infection." Cell 160.3 (2015): 420-432.

2/24/15 -

Alex Eng
Safavi-Hemami, Helena, et al. "Specialized insulin is used for chemical warfare by fish-hunting cone snails." PNAS 2014

Daniel Chee
Mechanism of Transcriptional Bursting in Bacteria. Chong, Shasha et al. Cell , Volume 158 , Issue 2 , 314 - 326

2/17/15 -

Sonia Ting
Naqvi et al. A Proliferative Burst during Preadolescence Establishes the Final Cardiomyocyte Number

Han-Yin Yang
Behavioral Variability through Stochastic Choice and Its Gating by Anterior Cingulate Cortex, Tervo et al. Cell, 2014

2/10/15 -

Elyse Hope
Cross-Kingdom Chemical Communication Drives a Heritable, Mutually Beneficial Prion-Based Transformation of Metabolism.  D.F. Jarosz et al, Cell (2014)

Aaron Seo
A new antibiotic kills pathogens without detectable resistance. Losee L. Ling, et al. doi:10.1038/nature14098

2/3/15 -

Michael Dorrity
Taylor, Alexander I., et al. "Catalysts from synthetic genetic polymers." Nature (2014).

1/27/15 -

Tim Durham
Thaiss, Christoph A., David Zeevi, Maayan Levy, Gili Zilberman-Schapira, Jotham Suez, Anouk C. Tengeler, Lior Abramson, et al. “Transkingdom Control of Microbiota Diurnal Oscillations Promotes Metabolic Homeostasis.” Cell 159, no. 3 (October 23, 2014): 514–29. doi:10.1016/j.cell.2014.09.048.

Colby Samstag
Masuda-Suzukake, M. et al. Prion-like spreading of pathological α-synuclein in brain. Brain136, 1178–1138 (2013). Luk, K. C. et al. Pathological α-synuclein transmission initiates Parkinson-like neurodegeneration in nontransgenic mice. Science 338, 949–953 (2012)

1/20/15 -

Joe Felsenstein
Just J, Kristensen RM, Olesen J (2014) Dendrogramma, New Genus, with Two New Non-Bilaterian Species from the Marine Bathyal of Southeastern Australia (Animalia, Metazoa incertae sedis) – with Similarities to Some Medusoids from the Precambrian Ediacara. PLoS ONE 9(9): e102976. doi:10.1371/journal.pone.0102976

Aaron McKenna
Wang, J., Xie, G., Singh, M., Ghanbarian, A. T., Raskó, T., Szvetnik, A., et al. (2014). Primate-specific endogenous retrovirus-driven transcription defines naive-like stem cells. Nature, 516(7531), 405–409. doi:10.1038/nature13804

1/13/15 -

Melissa Chiasson
Use of Human Embryonic Stem Cells to Model Pediatric Gliomas with H3.3K27M Histone Mutation. Funato et al., Science 2014.

Seungsoo Kim
Wolfe, B. E., Button, J. E., Santarelli, M. & Dutton, R. J. Cheese rind communities provide tractable systems for in situ and in vitro studies of microbial diversity. Cell 158,422–33 (2014).

1/6/15 -

Daniel Kim
Uncovering the Hidden Risk Architecture of the Schizophrenias: Confirmation in Three Independent Genome-Wide Association Studies.
Arnedo J, Svrakic DM, Del Val C, Romero-Zaliz R, Hernández-Cuervo H; Molecular Genetics of Schizophrenia Consortium, Fanous AH, Pato MT, Pato CN, de Erausquin GA, Cloninger CR, Zwir I. Am J Psychiatry. 2014 Sep 15. doi: 10.1176/appi.ajp.2014.14040435.

David Young
Bidirectional switch of the valence associated with a hippocampal contextual memory engram. Redondo RL, Kim J, Arons AL, Ramirez S, Liu X, Tonegawa S. Nature 513; 426-430, 2014.

12/2/14 -

Colin McNally
Bergland, A.O., Behrman, E.L., O’Brien, K.R., Schmidt, P.S., and Petrov, D.A. (2014). Genomic Evidence of Rapid and Stable Adaptive Oscillations over Seasonal Time Scales in Drosophila. PLoS Genet. 10, e1004775.

Cecilia Noecker
McBride et al. “Evolution of Mosquito Preference for Humans Linked to an Odorant Receptor.” Nature 515, no. 7526 (November 12, 2014): 222–27. doi:10.1038/nature13964. 

11/25/14 -

Anne Clark
National Science Board (2014). Science and Technology: Public Attitudes and Understanding. Science and Engineering Indicators, Ch 7.

Lewandowsky S, Gignac GE, and Vaughan S (2013). The pivotal role of perceived scientific consensus in acceptance of science. Nature Climate Change 3:399-404.

Stoneman P, Sturgis P, and Allum N (2013). Exploring public discourses about emerging technologies through statistical clustering of open-ended survey questions. Public Understanding of Science 22(7) 850–68.

Vanessa Gray
Ioannidis, J. P. (2014). How to Make More Published Research True. PLoS medicine, 11(10), e1001747.

11/18/14 -

Ray Monnat
Jerby-Arnon L, Pfetzer N, Waldman YY, McGarry L, James D, Shanks E, Seashore-Ludlow B, Weinstock A, Geiger T, Clemons PA, Gottlieb E, Ruppin E. (2014). Predicting cancer-specific vulnerability via data-driven detection of synthetic lethality. Cell. 2014 Aug 28;158(5):1199-209. doi: 10.1016/j.cell.2014.07.027.

Alex Hu
Shuai Zhan, et al. The genetics of monarch butterfly migration and warning colouration. Nature 514, 317–321 (16 October 2014)

11/4/14 -

Matthew Snyder
E. K. Karlsson, J. B. Harris, S. Tabrizi, et al. Natural Selection in a Bangladeshi Population from the Cholera-Endemic Ganges River Delta. Sci. Transl. Med. 5, 192ra86 (2013)

Celeste Berg
Alberts, Bruce, Marc W Kirschner, Shirley Tilghman, and Harold Varmus. 2014. “Rescuing US Biomedical Research From Its Systemic Flaws..” Proceedings of the National Academy of Sciences 111 (16): 5773–77. doi:10.1073/pnas.1404402111.

10/28/14 -

Bill Noble
Deep neural networks for acoustic modeling in speech recognition

10/21/14 -

Rachel Gittelman
Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak

10/7/14 -

Max Press
Piffer, D. Factor Analysis of Population Allele Frequencies as a Simple, Novel Method of Detecting Signals of Recent Polygenic Selection: The Example of Educational Attainment and IQ. Mankind Quarterly 2013, 54, 168-200. 

Piffer, D. Simple Statistical Tools to Detect Signals of Recent Polygenic Selection. IBC 2014, 6:01, 1-6.

Piffer, D. Estimating strength of polygenic selection with principal components analysis of spatial genetic variation. BioRxiv 2014. 

9/30/14 -

Mary-Claire King
Hoadley KA, et al. Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin. Cell
158(4): 929-944, 2014. PMID: 25109877

6/3/14 -

Cecilia Noecker
Baruch et al. An Extracellular Bacterial Pathogen Modulates Host Metabolism to Regulate Its Own Sensing and Proliferation. Cell 156: 97-108 doi: 10.1016/j.cell.2013.12.007.

Alexander Eng
Allyson M. MacLean, et al. Phytoplasma Effector SAP54 Hijacks Plant Reproduction by Degrading MADS-box Proteins and Promotes Insect Colonization in a RAD23-Dependent Manner. PLOS Biology. April 08, 2014

5/27/14 -

Seungsoo Kim
Watson, E. et al. Interspecies systems biology uncovers metabolites affecting C. elegans gene expression and life history traits. Cell 156, 759-770. 2014.

Colin McNally
J. Plucain, T. Hindré, M. Le Gac, O. Tenaillon, S. Cruveiller, C. Médigue, N. Leiby, W. R. Harcombe, C. J. Marx, R. E. Lenski, and D.
Schneider, “Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli.,” Science, vol. 343, no. 6177, pp. 1366–9, Mar. 2014.

5/20/14 -

Vijay Ramani
Virally mediated optogenetic excitation and inhibition of pain in freely moving nontransgenic mice, Nat. Biotech, 2014

Timothy Durham
Gad, Helge, Tobias Koolmeister, Ann-Sofie Jemth, Saeed Eshtad, Sylvain A. Jacques, Cecilia E. Ström, Linda M. Svensson, et al. “MTH1 Inhibition Eradicates Cancer by Preventing Sanitation of the dNTP Pool.” Nature 508, no. 7495 (April 10, 2014): 215–21. doi:10.1038/nature13181.

5/13/14 -

Anne Clark
Reuveni S, Urbakh M, and Klafter J (2014). Role of substrate unbinding in Michaelis–Menten enzymatic reactions. PNAS 111(12): 4391-6.

Melissa Chiasson
Kunte, K., et al. doublesex is a mimicry supergene. Nature 507, 229-232 (2014)

5/6/14 -

Mike Doud
Wang, Feng, et al. "Reshaping antibody diversity." Cell 153.6 (2013): 1379-1393.

Aaron Seo
Intestinal crypt homeostasis revealed at single-stem-cell level by in vivo live imaging. Ritsma et al. Nature, vol 507. 2014

4/29/14 -

Ken Chen
Frost, B., Hemberg, M., Lewis, J. & Feany, M. B. Tau promotes neurodegeneration through global chromatin relaxation. Nature Neuroscience 17, 357–366 (2014).

Michael Dorrity
Cremers, CM., Knoefler, D., Vitvitsky, V., Banerjee, R., Jakob, U. Bile salts act as effective protein-unfolding agents and instigators of disulfide stress in vivo. PNAS. 2014.

4/22/14 -

Jorgen Nelson
Rothman, et al. Methanogenic burst in the end-Permian carbon cycle.

Jeff Staples
Supek, F. Synonymous Mutations Frequently Act as Driver Mutations in Human Cancers. Cell. 2014.

4/15/14 -

Vanessa Gray
Sleep Drives Metabolite Clearance from the Adult Brain. Lulu Xie et al. Science 342, 373 (2013); DOI: 10.1126/science.1241224

Joe Sanchez
Targeting isoprenylcysteine methylation ameliorates disease in a mouse model of progeria. Ibrahim, M. X. et al. (2013). Science 340, 1330–1333. doi: 10.1126/science.1238880

4/8/14 -

Josh Burton
David LA et al. Diet rapidly and reproducibly alters the human gut microbiome. Nature 505: 559-563
(23 January 2014).

4/1/14 -

Akash Kumar
Lee, J. Daugharthy,E et. al. (2014). Highly Multiplexed Subcellular RNA Sequencing in Situ. Science

Billy Edelman
Dias, B. Resseler, K. (2014). Parental olfactory experience influences behavior and neural structure in subsequent generations. Nature Neuroscience.

3/11/14 -

M.K. Raghuraman
Fabrice, C. and Barral, Y. (2013) A Super-Assembly of Whi3 Encodes Memory of Deceptive Encounters by Single Cells during Yeast Courtship. Cell 155:1244 - 1257

White-Grindley E, Li L, Mohammad Khan R, Ren F, Saraf A, et al. (2014) Contribution of Orb2A Stability in Regulated Amyloid-Like Oligomerization of Drosophila Orb2. PLoS Biol 12(2): e1001786.

Colin Manoil
Mob Genet Elements. 2013 Jan 1;3(1):e24263. Ordering the bestiary of genetic elements transmissible by conjugation. Garcillán-Barcia MP, de la Cruz F.

FEMS Microbiol Rev. 2011 Sep;35(5):912-35. doi: 10.1111/j.1574-6976.2011.00294.x. Epub 2011 Jul 29. Combinatorial events of insertion sequences and ICE in Gram-negative bacteria. Toleman MA, Walsh TR.

3/4/14 -

Kelsey Lynch
Elizabeth P. Murchison, David C. Wedge, et al. Transmissible Dog Cancer Genome Reveals the Origin and History of an Ancient Cell Lineage. Science 24 January 2014: Vol. 343 no. 6169 pp. 437-440.

Monica Sanchez
Alberto K. De la Herrán-Arita1, Birgitte Rahbek Kornum, et al. CD4+ T Cell Autoimmunity to Hypocretin/Orexin and Cross-Reactivity to a 2009 H1N1 Influenza A Epitope in Narcolepsy. Sci Transl Med 18 December 2013: Vol. 5, Issue 216, p. 216ra176

2/25/14 -

Michael Duyzend
Miura SK, Martins A, Zhang KX, Graveley BR, and Zipursky SL. (2013) Probabilistic splicing of Dscam1 establishes identity at the level of single neurons. Cell 155, 1166-1177. PMID: 24267895

Elyse Hope
Ditmarsch et al. "Convergent Evolution of Hyperswarming Leads to Impaired Biofilm Formation in Pathogenic Bacteria."  Cell Reports (2013)

2/18/14 -

Stephanie Battle
Johannes Gräff, Nadine F. Joseph, et al. Epigenetic Priming of Memory Updating during Reconsolidation to Attenuate Remote Fear Memories. Cell, Volume 156, Issues 1–2, 16 January 2014, Pages 261–276.

David Young
Obokata H, et al. Stimulus-triggered fate conversion of somatic cells into pluripotency. Nature 505:641-647. 2014

Obokata H, et al. Bidirectional developmental potential in reprogrammed cells with acquired pluripotency. Nature 505: 676-680. 2014

2/11/14 -

Maitreya Dunham
Curing bacteria of antibiotic resistance: reverse antibiotics, a novel class of antibiotics in nature. Keiichi Hiramatsua, Masayuki Igarashib, Yuh Morimotoa, Tadashi Babaa, Maya Umekitab, Yuzuru Akamatsub. International Journal of Antimicrobial Agents. Volume 39, Issue 6, June 2012, Pages 478–485

Adam Gordon
Translating dosage compensation to trisomy 21. Jiang J, Jing Y, Cost GJ, et al. Nature. 2013 Aug 15;500(7462):296-300

2/4/14 -

Joe Felsenstein
Wilson, D. S. & Wilson, E. O.  2007. Rethinking the theoretical foundation of sociobiology. Quarterly Review of Biology   82: 327-348.
doi:10.1086/522809

Nowak M. A., C. E. Tarnita, and E. O. Wilson (2010). The evolution of eusociality. Nature 466: 1057-1062.
doi:10.1038/nature09205

Abbot, P. and 135 others.  2011.  Inclusive fitness theory and eusociality.  Nature 471: E1-E4 (24 March 2011) doi:10.1038/nature09831

Two blog posts by Jerry Coyne criticizing Nowak et. al.:
http://whyevolutionistrue.wordpress.com/2010/08/30/a-misguided-attack-on-kin-selection/

http://whyevolutionistrue.wordpress.com/2011/03/24/big-dust-up-about-kin-selection/

Sam Lancaster
Redundancy in Kiss1 Expression Safeguards Reproduction in the Mouse. Simina M. Popa et al., 2013, Endocrinology

1/28/14 -

Han-Yin Yang
Targeting a Dual Detector of Skin and CO2 to Modify Mosquito Host Seeking
Genevieve M. Tauxe, Dyan MacWilliam, Sean Michael Boyle, Tom Guda, Anandasankar Ray
Cell - 5 December 2013 (Vol. 155, Issue 6, pp. 1365-1379)

Alex Hu
Experimental Conversion of a Defensin into a Neurotoxin: Implications for Origin of Toxic Function. Zhu S, Peigneur S, Gao B, Umetsu Y, Ohki S, Tytgat J. Mol Biol Evol. 2014 Jan 14.

1/21/14 -

Keolu Fox
Who's Afraid of Peer Review? Science, vol 342, 4 October 2013 

Daniel Chee
Cassidy et al. miR-9a Minimizes the Phenotypic Impact of Genomic Diversity by Buffering a Transcription Factor. Cell 2013.

1/14/14 -

Jenny Andrie
Ghezzi A, Krishnan HR, Lew L, Prado FJ, Ong DS, Atkinson NS. 2013. Alcohol-Induced Histone Acetylation Reveals a Gene Network Involved in Alcohol Tolerance. PLoS Genetics, 9(12):e1003986. DOI: 10.1371/journal.pgen.1003986

Matthew Snyder
Pfeffer C, et al.  Filamentous bacteria transport electrons over centimetre distances.  Nature 491, 218–221 (2012).

1/7/14 -

Aaron McKenna
Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo
Silvi Rouskin, Meghan Zubradt, Stefan Washietl, Manolis Kellis & Jonathan S. Weissman.
Nature (2013) doi:10.1038/nature12894. Published online 15 December 2013

Daniel Kim
Selective Publication of Antidepressant Trials and Its Influence on Apparent Efficacy
Erick H. Turner, M.D., Annette M. Matthews, M.D., Eftihia Linardatos, B.S., Robert A. Tell, L.C.S.W., and Robert Rosenthal, Ph.D.
N Engl J Med 2008; 358:252-260January 17, 2008DOI: 10.1056/NEJMsa065779

12/3/13 -

Ray Monnat
McConnell et al. (2013) Mosaic copy number variation in human neurons. Science 342:632-637.

Jennifer McCreight
Herrera, Shuster, Perriton & Cohn. 2013. Developmental Basis of Phallus Reduction during Bird Evolution. Current Biology http://dx.doi.org/10.1016/j.cub.2013.04.062

11/19/13 -

Celeste Berg
Harris, Bradford. 2013. “Evolution's Other Narrative: Why science would benefit from a symbiosis-driven history of speciation.” American Scientist 101 (October 29): 410–413.

Brucker, Robert M, and Seth R Bordenstein. 2013. “The Hologenomic Basis of Speciation: Gut bacteria cause hybrid lethality in the genus Nasonia.” Science (New York, NY) 341 (6146) (August 9): 667–669. doi:10.1126/science.1240659.

Rachel Gittelman
Gut microbiota from twins discordant for obesity modulate metabolism in mice.
Ridaura VK, Faith JJ, Rey FE, Cheng J, Duncan AE, Kau AL, Griffin NW, Lombard V, Henrissat B, Bain JR, Muehlbauer MJ, Ilkayeva O, Semenkovich CF, Funai K, Hayashi DK, Lyle BJ, Martini MC, Ursell LK, Clemente JC, Van Treuren W, Walters WA, Knight R, Newgard CB, Heath AC, Gordon JI.
Science. 2013 Sep 6;341(6150):1241214. doi: 10.1126/science.1241214.

11/12/13 -

Sonia Ting
Francesco S. Loffredo, Matthew L. Steinhauser, et al. Growth Differentiation Factor 11 Is a Circulating Factor that Reverses Age-Related Cardiac Hypertrophy. Cell, Volume 153, Issue 4, 828-839, 9 May 2013

11/5/13 -

Tanya Grancharova
AE Mather et al. Distinguishable Epidemics of Multidrug-Resistant Salmonella Typhimurium DT104 in Different Hosts. 
Science. (341) 6153, p.1514-1517 DOI: 10.1126/science.1240578

Xander Nuttle
Jelier R, Semple JI, Garcia-Verdugo R, Lehner B. Predicting phenotypic variation in yeast from individual genome sequences. Nat Genet. 2011 Nov 13;43(12):1270-4. doi: 10.1038/ng.1007. PMID: 22081227

10/29/13 -

Alex Mason
Glutamate receptor-like genes mediate leaf-to-leaf wound signalling.
Seyed A. R. Mousavi, Adeline Chauvin, François Pascaud, Stephan Kellenberger, and Edward E. Farmer.
Nature 500, 422-426 (22 August 2013)

Max Press
Alan J. Tepley, Frederick J. Swanson, and Thomas A. Spies, "Fire-mediated pathways of stand development in Douglas-fir/ western hemlock forests of the Pacific Northwest, USA", Ecology, 94(8), 2013, pp. 1729–1743

10/22/13 -

Bonny Brewer

A major developmental transition in early Xenopus embryos: I. characterization and timing of cellular changes at the midblastula stage. Newport J, Kirschner M. Cell. 1982 Oct;30(3):675-86.

A major developmental transition in early Xenopus embryos: II. Control of the onset of transcription.
Newport J, Kirschner M. Cell. 1982 Oct;30(3):687-96.

Titration of four replication factors is essential for the Xenopus laevis midblastula transition.
Collart C, Allen GE, Bradshaw CR, Smith JC, Zegerman P. Science. 2013 Aug 23;341(6148):893-6.

10/8/13 -

Matt Rich
Flood, et al. "A single pair of interneurons commands the Drosophila feeding motor program." Nature (2013)

10/1/13 -

Mary-Claire King
Zaidi et al. De novo mutations in histone-modifying genes in congenital heart disease.  Nature 498: 220-224, 2013

6/4/13 -

Aaron McKenna
Yu, M., Bardia, A., Wittner, B. S., Stott, S. L., Smas, M. E., Ting, D. T., et al. (2013). Circulating breast tumor cells exhibit dynamic changes in epithelial and mesenchymal composition. Science, 339(6119), 580–584. doi:10.1126/science.1228522

Daniel Kim
Axelsson E, Ratnakumar A, Arendt ML, Maqbool K, Webster MT, Perloski M, Liberg O, Arnemo JM, Hedhammar A, Lindblad-Toh K. The genomic signature of dog domestication reveals adaptation to a starch-rich diet. Nature. 2013 Mar 21;495(7441):360-4. doi: 10.1038/nature11837. Epub 2013 Jan 23.

5/28/13 -

Han-Yin Yang
Paola Picotti, Mathieu Clément-Ziza, et al. A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis. Nature 494,266–270. 14 February 2013. doi:10.1038/nature11835

Alex Hu
Guan SH, Gris C, Cruveiller S, Pouzet C, Tasse L, Leru A, Maillard A, Médigue C, Batut J, Masson-Boivin C, Capela D. Experimental evolution of nodule intracellular infection in legume symbionts. ISME J. 2013 Feb 21.

5/21/13 -

Vanessa Gray
PNAS: Private traits and attributes are predictable fromdigital records of human behavior. Michal Kosinskia, David Stillwella, and Thore Graepelb

Daniel Chee
Joseph A. Marsh et al. Protein Complexes Are under Evolutionary Selection to Assemble via Ordered Pathways, Cell, Volume 153, Issue 2, 11 April 2013, Pages 461-470

5/14/13 -

Julia Behnen
Kwanghun et al. Structural and molecular interrogation of intact biological systems. Nature - (2013).doi:10.1038/nature12107

Monica Sanchez
Hannah V. Siddle, Alexandre Kreiss, et al. Reversible epigenetic down-regulation of MHC molecules by devil facial tumour disease illustrates immune escape by a contagious cancer. Proc Natl Acad Sci U S A. 2013 March 26; 110(13): 5103–5108.
Published online 2013 March 11. doi: 10.1073/pnas.1219920110

5/7/13 -

Joe Sanchez
Shoji-Kawata et al. Identification of a candidate therapeutic autophagy-inducing peptide. Nature, Vol. 494, No. 7436. (14 February 2013), pp. 201-206

Aaron Miller
Reprogramming Adult Schwann Cells to Stem Cell-like Cells by Leprosy Bacilli Promotes Dissemination of Infection. Toshihiro Masaki, et al. Cell. Volume 152, Issues 1–2, 17 January 2013, Pages 51–67.

4/30/13 -

Jeff Vierstra
Germline DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine.
Hackett JA, Sengupta R, Zylicz JJ, Murakami K, Lee C, Down TA, Surani MA.
Science. 2013 Jan 25;339(6118):448-52. doi: 10.1126/science.1229277. Epub 2012 Dec 6.

Joe Felsenstein
Yang, J., B. Benyamin, B. P. McEvoy, S. Gordon, A. K. Henders, D. R. Nyholt, P. A.  Madden, A. C. Heath, N. G. Martin, G. W. Montgomery, M. E. Goddard, P. M. Visscher 2010. Common SNPs explain a large proportion of the heritability for human height. Nature Genetics 42: 565-569.

4/23/13 -

Elyse Hope
Yu, et al.  Dynamics and biological relevance of DNA demethylation in Arabidopsis antibacterial defense.  PNAS 110, 2389-2394 (5 February 2013) doi:10.1073/pnas.1211757110.  Published online before print January 18, 2013.

Akash Kumar
Liao HX et al. Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus. Nature. 2013 Apr 3.

4/16/13 -

Sonia Ting:
Protein Folding Drives Disulfide Formation
Pallav Kosuri, Jorge Alegre-Cebollada, Jason Feng, Anna Kaplan, Alvaro Inglés-Prieto, Carmen L. Badilla, Brent R. Stockwell, Jose M. Sanchez-Ruiz, Arne Holmgren, Julio M. Fernández
Cell - 9 November 2012 (Vol. 151, Issue 4, pp. 794-806)

4/9/13 -

Alessandra Sullivan
Seok et al. Genomic responses in mouse models poorly mimic human inflammatory diseases. PNAS Feb 2013.

4/2/13 -

Jorgen Nelson
Xu, et al. Non-optimal codon usage is a mechanism to achieve circadian clock conditionality. Nature 495, 116-120 (07 March 2013) doi: 10.1038/nature11942

Zhou, et al. Non-optimal codon usage affects expression, structure and function of clock protein FRQ. Nature 495, 111-115 (07 March 2013) doi: 10.1038/nature11833

Jeff Staples
Discrete genetic modules are responsible for complex burrow evolution in Peromyscus mice. Jesse N. Weber, Brant K. Peterson & Hopi E. Hoekstra. Nature 493,402–405 (17 January 2013) doi:10.1038/nature11816. Published online 16 January 2013

3/12/13 -

Alex Mason
Somatic retrotransposition alters the genetic landscape of the human brain. Baillie et al. Nature (479), 534-537 (24 November 2011)

Single-neuron sequencing analysis of L1 retrotransposition and somatic mutation in the human brain. Evrony et al. Cell (151), 438-496 (October 26, 2012)

Rachel Gittelman
Activation of innate immunity is required for efficient nuclear reprogramming. Lee J, Sayed N, Hunter A, Au KF, Wong WH, Mocarski ES, Pera RR, Yakubov E, Cooke JP. Cell. 2012 Oct 26;151(3):547-58. doi: 10.1016/j.cell.2012.09.034.

3/5/13 -

Max Press
Physiological Traits for Improving Heat Tolerance in Wheat.  Cossani CM and Reynolds MP.  Plant Physiology 2012 December, 160:1710-1718

Michael Duyzend
Mosaic PPM1D mutations are associated with predisposition to breast and ovarian cancer. Ruark et al. Nature (493), 406-410 (17 January 2013)

MLL2 mosaic mutations and intragenic deletion-duplications in patients with Kabuki syndrome. Banka et al. Clin Genet (2012).

2/26/13 -

Colin Manoil
Liu Y & Imlay JA (2013) Cell death from antibiotics without the involvement of reactive oxygen species. Science in press.

Xander Nuttle

2/19/13 -

Stephanie Battle
J Wang, Y Wurm, M Nipitwattanaphon, O Riba-Grognuz, Y Huang, D Shoemaker and L Keller. A Y-like social chromosome causes alternative colony organization in fire ants. Nature (2013) doi:10.1038/nature11832

Jenny Andrie
Guojie Zhang, Christopher Cowled, Zhengli Shi, et al. 2013. Comparative Analysis of Bat Genomes Provides Insight into the Evolution of Flight and Immunity. Science 339(6118):456-460. DOI:10.1126/science.1230835

2/12/13 -

Matthew Snyder
Gymrek, M. et al.  Identifying personal genomes by surname inference. Science 339, 321-324 (2013).  DOI: 10.1126/science.1229566

Blake Hovde
"Major histocompatibility complex peptide ligands as olfactory cues in human body odor assessment"
Milinski M, Croy I, Hummel T, Boehm T.
Proceeding of The Royal Society/ Biological Sciences Jan 26th 2013

2/5/13 -

Matt Rich
"Three-Dimensional Structures Self-Assembled from DNA Bricks" Science 338, 1117 (2012)

"Complex shapes self-assembled from single-stranded DNA tiles" Nature 485 (2012)

David Young
Mali P, Yang L, Esvelt KM, Aach J, Guell M, DiCarlo JE, Norville JE, Church GM. RNA-Guided Human Genome Engineering via Cas9. Science (2013)
DOI: 10.1126/science.1232033

Cong L, Ran FA, Cox D, Lin S, Barretto R, Habib N, Hsu PD, Wu X, Jiang W, Marraffini LA, Zhang F. Multiplex Genome Engineering Using CRISPR/Cas Systems. Science (2013) DOI: 10.1126/science.1231143

1/29/13 -

Stan Fields
Shen B, Sun X, Zuo X, Shilling T, Apgar J, Ross M, Bougri O, Samoylov V, Parker M, Hancock E, Lucero H, Gray B, Ekborg NA, Zhang D, Johnson JC, Lazar G,Raab RM. Engineering a thermoregulated intein-modified xylanase into maize for consolidated lignocellulosic biomass processing. Nat Biotechnol. 2012 Nov;30(11):1131-6.

Tzitziki Lemus-Vergara
Aberrant light directly impairs mood and learning through melanopsin-expressing neurons. LeGates TA, Altimus CM, Wang H, Lee HK, Yang S, Zhao H, Kirkwood A, Weber ET, Hattar S. Nature. 2012 Nov 22;491(7425):594-8

1/22/13 -

Keolu Fox
Burley D, Weisler MI, Zhao J-x (2012). High Precision U/Th Dating of First Polynesian Settlement. PLoS ONE 7(11): e48769. doi:10.1371/journal.pone.0048769

Complete mitochondrial DNA genome sequences from the first New Zealanders. Michael Knapp, et al. Published online before print October 22, 2012, doi: 10.1073/pnas.1209896109

Andrew Stergachis
Alonzo III, F., et al., CCR5 is a receptor for Staphylococcus aureus leukotoxin ED. Nature (2012) 493, 51–55.

1/15/13 -

Anna Brosius
Antonija Kreso et al. Variable Clonal Repopulation Dynamics Influence Chemotherapy Response in Colorectal Cancer. Science DOI: 10.1126/science.1227670

Josh Burton
Palamara PF, Lencz T, Darvasi A, Pe'er I. Length Distributions of Identity by Descent Reveal Fine-Scale Demographic History. American Journal of Human Genetics 91(5): 809-822 (2 November 2012).

1/8/13 -

Benjamin Vernot
An Update of Wallace's Zoogeographic Regions of the World. Ben G. Holt, Jean-Philippe Lessard, Michael K. Borregaard, Susanne A.
Fritz, Miguel B. Araújo, Dimitar Dimitrov, Pierre-Henri Fabre, Catherine H. Graham, Gary R. Graves, Knud A. Jønsson, David Nogués-Bravo, Zhiheng Wang, Robert J. Whittaker, Jon Fjeldså, Carsten Rahbek

12/4/12 -

Sharon Greenblum
Herb, B. R., Wolschin, F., Hansen, K. D., Aryee, M. J., Langmead, B., Irizarry, R., . . . Feinberg, A. P. (2012). Reversible switching between epigenetic states in honeybee behavioral subcastes. Nature Neuroscience, 15(10), 1371-1373.

Adam Gordon
Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak. N Engl J Med. 2012 Jun 14;366(24):2267-75.

Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study. Lancet Infect Dis. 2012 Nov 9. pii: S1473-3099(12)70268-2

11/27/12 -

Caitlin Connelly
Biomedical Research Workforce Working Group Report, NIH, June 14, 2012. http://acd.od.nih.gov/Biomedical_research_wgreport.pdf

Sam Lancaster
Van Nostrand JD, Wu L, Wu WM, Huang Z, Gentry TJ, Deng Y, Carley J, Carroll S, He Z, Gu B, Luo J, Criddle CS, Watson DB, Jardine PM, Marsh TL, Tiedje JM, Hazen TC, Zhou J. Dynamics of microbial community composition and function during in situ bioremediation of a uranium-contaminated aquifer. Appl Environ Microbiol. 2011 Jun;77(11):3860-9. Epub 2011 Apr 15.

11/20/12 -

Nik Krumm
Lefebvre et al. (2012). Protocadherins mediate dendritic self-avoidance in the mammalian nervous system. Nature 488, 517–521.

11/13/12 -

Ray Monnat
Bedell, VM et al. (2012) In vivo genome editing using a high-efficiency TALEN system. Nature. 2012 Nov 1;491(7422):114-8. doi:
10.1038/nature11537. Epub 2012 Sep 23.

Certo MT et al. (2012) Coupling endonucleases with DNA end-processing enzymes to drive gene disruption. Nat Methods. 2012 Oct;9(10):973-5. doi:
10.1038/nmeth.2177. Epub 2012 Sep 2.

11/6/12 -

Tanya Grancharova
Dandekar AA, Chugani S, Greenberg EP. Bacterial Quorum Sensing and Metabolic Incentives to Cooperate. Science 338 (6104), 264-266.
[DOI:10.1126/science.1227289]

Rachel Diederich
The Heliconius Genome Consortium. Butterfly genome reveals promiscuous exchange of mimicry adaptations among species. Nature 487:94-98 (2012)

10/23/12 -

Jennifer McCreight
Kaelin, CB et al. (2012) Specifying and Sustaining Pigmentation Patterns in Domestic and Wild Cats. Science 337 (6101), 1536-1541.
[DOI:10.1126/science.1220893]

10/16/12 -

Bill Noble
Camp Delta, Google Earth and the Ethics of Remote Sensing in Archaeology
A Myers
World Archaeology 42 (3), 455-467

10/9/12 -

Billy Edelman
Dix MM, Simon GM, Wang C, Okerberg E, Patricelli MP, Cravatt BF. Functional interplay between caspase cleavage and phosphorylation sculpts the apoptotic proteome. Cell. 2012 Jul 20;150(2):426-40.

10/2/12 -

Maitreya Dunham
Imsland F, Feng C, Boije H, Bed'hom B, Fillon V, Dorshorst B, Rubin CJ, Liu R, Gao Y, Gu X, Wang Y, Gourichon D, Zody MC, Zecchin W, Vieaud A, Tixier-Boichard M, Hu X, Hallböök F, Li N, Andersson L. (2012) The Rose-comb mutation in chickens constitutes a structural rearrangement causing both altered comb morphology and defective sperm motility. PLoS Genet. 8: e1002775.

Johansson AM, Pettersson ME, Siegel PB, Carlborg O (2010) Genome-Wide Effects of Long-Term Divergent Selection. PLoS Genet 6: e1001188.

9/25/12 -

Mary-Claire King
Kong A. et al. Rate of de novo mutations and the importance of father's age to disease risk. Nature 488: 471-475, 2012

5/29/12 -

Sonia Ting
Reichmann, D. et al. Order out of Disorder: Working Cycle of an Intrinsically Unfolded Chaperone. Cell, Volume 148, Issue 5, 947-957, 2 March 2012

David Young
Optogenetic stimulation of a hippocampal engram activates fear memory recall. Xu Liu, et al. Nature 484,381–385(19 April 2012)doi:10.1038/nature11028

5/22/12 -

Alex Mason
Konrad M, Vyleta ML, Theis FJ, Stock M, Tragust S, et al. (2012) Social Transfer of Pathogenic Fungus Promotes Active Immunisation in Ant Colonies. PLoS Biol 10(4): e1001300. doi:10.1371/journal.pbio.1001300

Jorgen Nelson
Pinheiro, V. B., Taylor, A. I., Cozens, C., Abramov, M., Renders, M., Zhang, S., Chaput, J. C., et al. (2012). Synthetic genetic polymers capable of heredity and evolution. Science (New York, NY), 336(6079), 341–344. doi:10.1126/science.1217622

5/15/12 -

Elyse Hope
Marazzi, I. et al. (2012)  Suppression of the antiviral response by an influenza histone mimic.  Nature 483, 428-433.

Rachel Gittelman
Kolbe, J. et al. (2012) Founder effects persist despite adaptive differentiation: a field experiment with lizards. Science 335:1086-9.

5/8/12 -

Stephanie Battle
A Mutation in a Skin-Specific Isoform of SMARCAD1 Causes Autosomal-Dominant Adermatoglyphia. Janna Nousbeck, Bettina Burger, Dana Fuchs-Telem, Mor Pavlovsky, Shlomit Fenig, Ofer Sarig, Peter Itin, Eli Sprecher. The American Journal of Human Genetics 89, 302-307, Aug 12, 2011

Michael Duyzend
Alsford, S. et al. (2012). High-throughput decoding of antitrypanosomal drug efficacy and resistance. Nature, 482: 232-236.

5/1/12 -

Max Libbrecht
Heterozygote advantage as a natural consequence of adaptation in diploids
Diamantis Sellis, Benjamin J. Callahan, Dmitri A. Petrov, and Philipp W. Messera

Matthew Snyder
Zhang, L., Hou, D., Chen, X., Li, D. et al. (2012).  Exogenous plant MIR168a specifically targets mammalian LDLRAP1: evidence of cross-kingdom regulation by microRNA.  Cell Research 22: 107-126.  doi:10.1038/cr.2011.158

4/24/12 -

Max Press
Pocock et al. ( 2012).  The Robustness and Restoration of a Network of Ecological Networks. Science 335: 973-977

4/17/12 -

Matt Maurano
Djuranovic S, Nahvi A, Green R. miRNA-mediated gene silencing by translational repression followed by mRNA deadenylation and decay. Science. 2012 Apr 13;336(6078):237-40.

Bazzini AA, Lee MT, Giraldez AJ. Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish. Science. 2012 Apr 13;336(6078):233-7. Epub 2012 Mar 15.

Akash Kumar
Reading DNA at single-nucleotide resolution with a mutant MspA nanopore and phi29 DNA polymerase. Elizabeth A Manrao, Ian M Derrington, Andrew H Laszlo, Kyle W Langford, Matthew K Hopper, Nathaniel Gillgren, Mikhail Pavlenok, Michael Niederweis & Jens H Gundlach. Nature Biotechnology 30,349–353 (2012). Published online: 25 March 2012 | doi:10.1038/nbt.2171

4/10/12 -

Sharon Greenblum
Morran, L. T., Schmidt, O. G., Gelarden, I. A., Parrish, R. C., & Lively, C. M. (2011). Running with the Red Queen: host-parasite coevolution selects for biparental sex. Science, 333(6039), 216-8.

Morris, J. J., Lenski, R. E., & Zinser, E. R. (2012). The Black Queen Hypothesis: Evolution of Dependencies through Adaptive Gene Loss. mBio, 3(2).

Blake Hovde
Evolution of increased complexity in a molecular machine. Finnigan GC, Hanson-Smith V, Stevens TH, Thornton JW.
Nature. 2012 Jan 9;481(7381):360-4.

4/3/12 -

Katrina Claw
Jiang P et al. (2012) Major taste loss in carnivorous mammals. PNAS Early Edition.

William Edelman
Xu, X., Coats, J. K., Yang, C. F., Wang, A., Ahmed, O. M., Alvarado, M., Izumi, T., et al. (2012). Modular Genetic Control of Sexually Dimorphic Behaviors. Cell, 148(3), 596–607. Elsevier Inc. doi:10.1016/j.cell.2011.12.018

3/27/12 -

Jacob Kitzman
Garrett and Rosenthal. (2012). RNA Editing Underlies Temperature Adaptation in K+ Channels from Polar Octopuses,Science 335, 848-851.

Alessandra Sullivan
Immobilization of Proteins in the Nucleolus by Ribosomal Intergenic Spacer Noncoding RNA. Timothy E. Audas, Mathieu D. Jacob, Stephen Lee. Molecular Cell - 27 January 2012 (Vol. 45, Issue 2, pp. 147-157)

3/6/12 -

Keolu Fox
A Systematic Survey of Loss-of-Function Variants in Human Protein-Coding Genes. MacArthur, D. Science, 17 February 2012

Joe Hiatt
A logic-gated nanorobot for targeted transport of molecular payloads. Douglas SM, Bachelet I, Church GM. Science. 2012 Feb 17;335(6070):831-4.

2/28/12 -

Alejandro Wolf-Yadlin
The mTOR-Regulated Phosphoproteome Reveals a Mechanism of mTORC1-Mediated Inhibition of Growth Factor Signaling. Peggy P. Hsu, et al. Science 10 June 2011: Vol. 332 no. 6035 pp. 1317-1322. DOI: 10.1126/science.1199498

Xander Nuttle
The Majority of Animal Genes Are Required for Wild-Type Fitness. Arun K. Ramani, et al. Cell, Volume 148, Issue 4, 792-802, 17 February 2012

2/21/12 -

Anna Brosius
Predicting mutation outcome from early stochastic variation in genetic interaction partners, Burga et al., Nature, 2011

Fitness Trade-Offs and Environmentally Induced Mutation Buffering in Isogenic C. elegans, Casanueva et al., Science, 2012

Nik Krumm
Detecting Novel Associations in Large Data Sets. David N. Reshef, et al.
Science 16 December 2011: 1518-1524.

2/14/12 -

Leslie Kim
Wongsrikeao P et al. (2011) Antiviral restriction factor transgenesis in the domestic cat. Nature Methods 8, 853-9.

Benjamin Vernot
Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing. Li Ding, et al. Nature (2012) doi:10.1038/nature10738

2/7/12 -

Tzitziki Lemus-Vergara
Drosophila Microbiome Modulates Host Developmental and Metabolic Homeostasis via Insulin Signaling. Seung Chul Shin, Sung-Hee Kim, Hyejin You, Boram Kim, Aeri C. Kim, et al. Science 4  2011:334  (6056), 670-674.

Aaron Miller
Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw. Rachel Mackelprang, Mark P. Waldrop, Kristen M. DeAngelis, Maude M. David, Krystle L. Chavarria, Steven J. Blazewicz, Edward M. Rubin & Janet K. Jansson. Nature 480, 368–371 (15 December 2011). doi:10.1038/nature10576

1/31/12 -

Ben Whiddon
Daily JL et al. (2011) Adeno-Associated Virus-Mediated Rescue of the Cognitive Defects in a Mouse Model for Angelman Syndrome. PLoS ONE 6
(12): e27221. doi:10.1371/journal.pone.0027221

Huang H, Allen JA et al. (2011) Topoisomerase inhibitors unsilence the dormant allele of Ube3a in neurons. Nature advance online publication. doi:10.1038/nature10726

Caitlin Connelly
Meyer JR, Dobias DT, Weitz JS, Barrick JE, Quick RT, Lenski RE (2012) Repeatability and Contingency in the Evolution of a Key Innovation in Phage Lambda. Science 35:428-432. doi:10.1126/science.1214449

1/24/12 -

Josh Burton
van Bakel H et al (2011). "The draft genome and transcriptome of Cannabis sativa". Genome Biology 12:R102.

Peter Sudmant
Lewis JE, DeGusta D, Meyer MR, Monge JM, Mann AE, et al. (2011) The Mismeasure of Science: Stephen Jay Gould versus Samuel George Morton on Skulls and Bias. PLoS Biol 9(6): e1001071. doi:10.1371/journal.pbio.1001071

1/17/12 -

Matt Rich
Kim, EB, et al. (2011) Genome sequencing reveals insights into physiology and longevity of the naked mole rat. Nature 479, 223-227

1/10/12 -

Tanya Grancharova
Kane et al. (2011) Successful Transmission of a Retrovirus Depends on the Commensal Microbiota. Science 334: 245-249. 

Kuss et al. (2011) Intestinal Microbiota Promote Enteric Virus Replication and Systemic Pathogenesis. Science 334: 249-252. 

Rachel Diederich
Rand DG, Arbesman S, Christakis NA (2011) Dynamic social networks promote cooperation in experiments with humans. Proc. Natl. Acad. Sci. 108:19193-19198

1/3/12 -

Keisha Carlson
Weinhold, A and Baldwin, I.T. (2011) Trichome-derived O-acyl sugars are a first meal for caterpillars that tags them for predation. PNAS 108:7855-7859.

Gilardoni, PA et al. (2011) Nicotiana attenuata LECTIN RECEPTOR KINASE1 Suppresses the Insect-Mediated Inhibition of Induced Defense Responses during Manduca sexta Herbivory. The Plant Cell. 23:3512-3532.

Jennifer McCreight
Ghaderi, D et al. (2011) Sexual selection by female immunity against paternal antigens can fix loss of function alleles. PNAS 108:17743-17748.

12/6/11 -

Chad Weisbrod
Avian-Type Receptor-Binding Ability Can Increase Influenza Virus Pathogenicity in Macaques. Tokiko Watanabe et. al. J. Virol. 2011, 85(24) Published Ahead of Print September 2011.

11/29/11 -

Stan Fields:
Defining the specificity of cotranslationally acting chaperones by systematic analysis of mRNAs associated with ribosome-nascent chain complexes.
del Alamo M, Hogan DJ, Pechmann S, Albanese V, Brown PO, Frydman J.
PLoS Biol. 2011 Jul;9(7):e1001100. Epub 2011 Jul 12.

Ray Monnat:
Sarkies P, Murat P, Phillips LG, Patel KJ, Balasubramanian S, Sale
JE.(2011) FANCJ coordinates two pathways that maintain epigenetic stability at G-quadruplex DNA. Nucleic Acids Res. 2011 Oct 22. [Epub ahead of print] doi:10.1093/nar/gkr868

11/22/11 -

Jeff Vierstra
Synergic reprogramming of mammalian cells by combined exposure to mitotic Xenopus egg extracts and transcription factors. PNAS 2011 108 (42) 17331-17336

11/15/11 -

Leslie Emery
Variants of the protein PRDM9 differentially regulate a set of human meiotic recombination hotspots highly active in African populations. Ingrid L. Berg, Rita Neumann, Shriparna Sarbajna, Linda Odenthal-Hesse, Nicola J. Butler, and Alec J. Jeffreys. PNAS. 2011. 108:30 (12378-12383). 

Adam Gordon
Bos KI, Schuenemann VJ, Golding GB, Burbano HA et al. A draft genome of Yersinia pests from victims of the Black Death. Nature 478, 506–510 (27 October 2011)

11/8/11 -

Melody Palmer
Daniel R. G. Price, Rebecca P. Duncan, Shuji Shigenobu, and Alex C. C. Wilson. Genome Expansion and Differential Expression of Amino Acid Transporters at the Aphid/Buchnera Symbiotic Interface
Mol. Biol. Evol. 2011 : msr140v2-msr140.

Andrew Stergachis
Lin, C., Smith, E. R., Takahashi, H., Lai, K. C., Martin-Brown, S., Florens, L., Washburn, M. P., et al. (2010). AFF4, a component of the ELL/P-TEFb elongation complex and a shared subunit of MLL chimeras, can link transcription elongation to leukemia. Molecular Cell, 37(3), 429-37.

10/25/11 -

Jarrett Egertson
Correction of Sickle Cell Disease in Adult Mice by Interference with Fetal Hemoglobin Silencing. Jian Xu, Cong Peng, Vijay G. Sankaran, Zhen Shao, Erica B. Esrick, Bryan G. Chong, Gregory C. Ippolito, Yuko Fujiwara, Benjamin L. Ebert, Philip W. Tucker,
and Stuart H. Orkin. Science 13 October 2011: 1211053 Published online 13 October 2011 [DOI:10.1126/science.1211053]

Sam Lancaster
Microbe domestication and the identification of the wild genetic stock of lager-brewing yeast. Diego Libkinda, Chris Todd Hittingerb, Elisabete Valériod, Carla Gonçalvesd, Jim Doverb, Mark Johnstonb, Paula Gonçalvesd, and José Paulo Sampaiod. PNAS.

10/11/11 -

Bill Noble:

A Modern History Theory of Functions
Peter Godfrey-Smith
Noûs
Vol. 28, No. 3 (Sep., 1994), pp. 344-362

Jennifer Andrie:

Reed RD, Papa R, Martin A, Hines HM, Counterman BA, Pardo-Diaz C, Jiggins CD, Chamberlain NL, Kronforst MR, Chen R, Halder G, Nijhout HF, McMillan WO (2011) optix Drives the Repeated Convergent Evolution of Butterfly Wing Pattern Mimicry. Science 333(6046):1137-1141. doi: 10.1126/science.1208227

10/4/11 -

Mary-Claire King:

Hitchins MP, Rapkins RW, Kwok CT, Srivastava S, Wong JJ, Khachigian LM, Polly P, Goldblatt J, Ward RL. Dominantly Inherited Constitutional Epigenetic Silencing of MLH1 in a Cancer-Affected Family Is Linked to a Single Nucleotide Variant within the 5'UTR. Cancer Cell. 2011 Aug 16;20(2):200-13. PubMed PMID: 21840485

5/31/11 -

Jennifer Wagner

Mariela Jaskelioff, Florian L. Muller, Ji-Hye Paik, Emily Thomas, Shan Jiang, Andrew C. Adams, Ergun Sahin, Maria Kost-Alimova, Alexei Protopopov, Juan Cadiñanos, James W. Horner, Eleftheria Maratos-Flier & Ronald A. DePinho. 2011. Telomerase reactivation reverses tissue degeneration in aged telomerase-deficient mice. Nature, 469: 102–106. doi:10.1038/nature09603

Ergün Sahin, Simona Colla, Marc Liesa, Javid Moslehi, Florian L. Müller, Mira Guo, Marcus Cooper, Darrell Kotton, Attila J. Fabian, Carl Walkey, Richard S. Maser, Giovanni Tonon, Friedrich Foerster, Robert Xiong, Y. Alan Wang, Sachet A. Shukla, Mariela Jaskelioff, Eric S. Martin, Timothy P. Heffernan, Alexei Protopopov, Elena Ivanova, John E. Mahoney, Maria Kost-Alimova, Samuel R. Perry, Roderick Bronson, Ronglih Liao, Richard Mulligan, Orian S. Shirihai, Lynda Chin1, & Ronald A. DePinho1. 2011. Telomere dysfunction induces metabolic and mitochondrial compromise. Nature, 470: 359–365. doi:10.1038/nature09787

Benjamin Vernot

Brain Evolution Triggers Increased Diversification of Electric Fishes http://www.sciencemag.org/content/332/6029/583.full

5/24/11 -

Matt Rich

Latty, T. et al. Structure and formation of ant transportation networks. J R Soc Interface (2011)

Tero, A. et al. Rules for biologically inspired adaptive network design. Science 327, 439-442 (2010).

Alexander Nuttle

Second-order selection for evolvability in a large Escherichia coli population. Woods et al. Science 18 March 2011:
Vol. 331 no. 6023 pp. 1433-1436. PMID: 21415350

5/17/11 -

Max Press

Kamura et al. "Pkd1l1 complexes with Pkd2 on motile cilia and functions to establish the left-right axis." Development 138: 1121-1129 (2011)

Field et al. "Pkd1l1 establishes left-right asymmetry and physically interacts with Pkd2."  Development 138: 1131-1142 (2011)

Jeff Staples

Holm, H. et al. (2011). A rare variant in MYH6 is associated with high risk of sick sinus syndrome. Nat. Gen. 43(4):316-20.

5/10/11 -

Tanya Grancharova

Deltcheva E et al. 2011. CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III. Nature. 471(31): 602-607.

Jennifer McCreight

Atkinson (2011) Phonemic diversity supports a serial founder effect model of language expansion from Africa. Science 332: 346-348.

Dunn et al (2011) Evolved structure of language shows lineage-specific trends in word-order universals. Nature

5/3/11 -

William Edelman

McLean, C. Y. et al. Human-specific loss of regulatory DNA and the evolution of human-specific traits. Nature 471, 216-219, doi:10.1038/nature09774 (2011).

Keolu Fox

Ancient Voyaging and Polynesian Origins. Martin B. Richards et al. AJHG vol. 88 issue 2

4/26/11 -

Josh Burton

Edan E, Geva-Zatorsky N, Issaeva I, Cohen A, Dekel E, Danon T, Cohen L, Mayo A, Alon U.  "Proteome Half-Life Dynamics in Living Human Cells."  Science 11 February 2011: Vol. 331 no. 6018 pp. 764-768

Akash Kumar

A Virophage at the Origin of Large DNA Transposons Matthias G. Fischer1 and Curtis A. Suttle1,2,3* Science advance online publication doi: 10.1126/science.1199412 (2011).

4/19/11 -

Joe Felsenstein

Loytynoja, A. and N. Goldman. 2008. A model of evolution and structure for multiple sequence alignment. Philosophical Transactions of the Royal Society. 363: 3913-3919. doi:10.1098/rstb.2008.0170

Nik Krumm

Using induced pluripotent stem cells to investigate cardiac phenotypes in Timothy syndrome
Yazawa et al. Nature 471, 230–234 (10 March 2011)
doi:10.1038/nature09855

Modelling the long QT syndrome with induced pluripotent stem cells
Itzhaki et al. Nature 471, 225–229 (10 March 2011)

4/12/11 -

Leslie Emery

Castro-Prieto A., Wachter, B., & Sommer, S. 2011. Cheetah paradigm revisited: MHC diversity in the world's largest free-ranging population. Mol Biol Evol. 28(4): 1455-1468.

Rupali Patwardhan

Science. 2010 Sep 3;329(5996):1175-80. Spiroindolones, a potent compound class for the treatment of malaria.
Rottmann M, McNamara C, Yeung BK, Lee MC, Zou B, Russell B, Seitz P, Plouffe DM, Dharia NV, Tan J, Cohen SB, Spencer KR, González-Páez GE, Lakshminarayana SB, Goh A, Suwanarusk R, Jegla T, Schmitt EK, Beck HP, Brun R, Nosten F, Renia L, Dartois V, Keller TH, Fidock DA, Winzeler EA, Diagana TT.

4/5/11 -

Colin Manoil

Three-dimensional structure of tropism-switching Bordetella bacteriophage.
Dai W, Hodes A, Hui WH, Gingery M, Miller JF, Zhou ZH.
Proc Natl Acad Sci U S A. 2010 107:4347-52.

Diversity-generating retroelement homing regenerates target sequences for repeated rounds of codon rewriting and protein diversification.
Guo H, Tse LV, Barbalat R, Sivaamnuaiphorn S, Xu M, Doulatov S, Miller JF. Mol Cell. 2008 31:813-23.

M.K. Raghuraman

Stephens, P.J., et al. (2011). Massive genomic rearrangement acquired in a single catastrophic event during cancer development. Cell 144,
27-40

Kloosterman, W.P., et al. (2011). Chromothripsis as a mechanism 
driving complex de novo structural rearrangements in the germline. 
Hum Mol Genet. (EPub)

3/29/11 -

Ray Monnat

Cell-type-specific replication initiation programs set fragility of the FRA3B fragile site.
Letessier A, Millot GA, Koundrioukoff S, Lachags AM, Vogt N, Hansen RS, Malfoy B, Brison O, Debatisse M. Nature. 2011 Feb 3;470(7332):120-3. Epub 2011 Jan 23.

Jacob Kitzman

Nature. 2009 Aug 27;460(7259):1127-31. Epub 2009 Aug 5.
L1 retrotransposition in human neural progenitor cells.
Coufal NG, Garcia-Perez JL, Peng GE, Yeo GW, Mu Y, Lovci MT, Morell M, O'Shea KS, Moran JV, Gage FH.

and

Nature. 2010 Nov 18;468(7322):443-6.
L1 retrotransposition in neurons is modulated by MeCP2.
Muotri AR, Marchetto MC, Coufal NG, Oefner R, Yeo G, Nakashima K, Gage FH

3/8/11 -

Rose Okamoto

Desjardins JK, Klausner JQ, Fernald RD. Female genomic response to mate information.
Proc Natl Acad Sci U S A. 2010 Dec 7;107(49):21176-80. Epub 2010 Nov 24

Dan Skelly

Culler SJ, Hoff KG, Smolke CD (2010) Reprogramming cellular behavior with RNA controllers responsive to endogenous proteins. Science 330:1251-1255

 

3/1/11 -

Katrina Claw

Brock DA, Douglas TE, Queller DC, and Strassmann JE (2011) Primitive agriculture in a social amoeba. Nature 469: 393-396.

Sharon Greenblum

G. Sharon, D. Segal, J. M. Ringo, A. Hefetz, I. Zilber-Rosenberg, E. Rosenberg. Commensal bacteria play a role in mating preference of Drosophila melanogaster. Proceedings of the National Academy of Sciences, 2010; DOI: 10.1073/pnas.1009906107

and

Miller WJ, Ehrman L, Schneider D, 2010 Infectious Speciation Revisited: Impact of Symbiont-Depletion on Female Fitness and Mating Behavior of Drosophila paulistorum. PLoS Pathog 6(12): e1001214. doi:10.1371/journal.ppat.1001214

2/22/11 -

Alessandra Oddone

Circadian clocks in human red blood cells. Nature. 2011 Jan 27;469(7331):498-503. O'Neill JS, Reddy AB.

Nate Peters

Small Peptides Switch the Transcriptional Activity of Shavenbaby During Drosophila Embryogenesis. Science 329, 336 (2010). T. Kondo, S. Plaza, J. Zanet, E. Benrabah, P. Valenti, Y. Hashimoto, S. Kobayashi, F. Payre,Y. Kageyama.

2/15/11 - Andrew Stergachis

Andrew Stergachis

Anderson, K. et al. Genetic variegation of clonal architecture and propagating cells in leukaemia. Nature advance online publication (2010).
http://www.nature.com/nature/journal/vaop/ncurrent/full/nature09650.html

2/11/11 -

Blake Hovde

"Predicting protein structures with a multiplayer online game."
Cooper S, Khatib F, Treuille A, Barbero J, Lee J, Beenen M, Leaver-Fay A, Baker D, Popović Z, Players F.
Nature. 2010 Aug 5;466(7307):756-60.

Aaron Miller

Gao Q, Jin K, Ying S-H, Zhang Y, Xiao G, et al. 2011 Genome Sequencing and Comparative Transcriptomics of the Model Entomopathogenic FungiMetarhizium anisopliae and M. acridum. PLoS Genet 7(1): e1001264. doi:10.1371/journal.pgen.1001264

2/8/11 -

Tzitziki Lemus-Vergara

Kalinka AT, Varga KM, Gerrard DT, Preibisch S, Corcoran DL, Jarrells J, Ohler U, Bergman CM, Tomancak P. Gene expression divergence recapitulates the developmental hourglass model. Nature. 2010 Dec 9;468(7325):811-4.

and

Domazet-Lošo T, Tautz D. A phylogenetically based transcriptome age index mirrors ontogenetic divergence patterns. Nature. 2010 Dec 9;468(7325):815-8.

Joe Hiatt

Nature. 2010 Aug 12;466(7308):835-40.
Mammalian microRNAs predominantly act to decrease target mRNA levels.
Guo H, Ingolia NT, Weissman JS, Bartel DP.

2/1/11 -

Caitlin Connelly

Effect of Direct-to-Consumer Genomewide Profiling to Assess Disease Risk. Bloss CS, Schork NJ, Topol EJ. N Engl J Med. 2011 Jan 12

Willingness-to-pay for predictive tests with no immediate treatment implications: a survey of US residents. Neumann PJ, Cohen JT, Hammitt JK, Concannon TW, Auerbach HR, Fang C, Kent DM. Health Econ. 2010 Dec 28

Renee George

Bellott et al. Convergent evolution of chicken Z and human X chromosomes by expansion and gene acquisition. Nature, Vol. 466, No. 7306. (11 July 2010), pp. 612-616.

1/25/11 -

Anna Brosius

Virus-Plus-Susceptibility Gene Interaction Determines Crohn's Disease Gene Atg16L1 Phenotypes in Intestine, Ken Cadwell, Khushbu K. Patel, Nicole S. Maloney, Ta-Chiang Liu, Aylwin C.Y. Ng, Chad E. Storer, Richard D. Head, Ramnik Xavier, Thaddeus S. Stappenbeck, Herbert W. Virgin, Cell, Volume 141, Issue 7, 1135-1145, 25 June 2010

Evelyn Vincow

Early heart failure in the SMNDelta7 model of spinal muscular atrophy and correction by postnatal scAAV9-SMN delivery (2010). Bevan AK, Hutchinson KR, Foust KD, Braun L, McGovern VL, Schmelzer L, Ward JG, Petruska JC, Lucchesi PA, Burghes AH, Kaspar BK. Hum Mol Genet 19(20):3895-905.

Arrhythmia and cardiac defects are a feature of spinal muscular atrophy model mice (2010). Heier CR, Satta R, Lutz C, DiDonato CJ. Hum Mol Genet 19(20):3906-18.

1/18/11 -

John Stamatoyannopoulos

Carone BR, Fauquier L, Habib N, Shea JM, Hart CE, Li R, Bock C, Li C, Gu H, Zamore PD, Meissner A, Weng Z, Hofmann HA, Friedman N, Rando OJ. Paternally induced transgenerational environmental reprogramming of metabolic gene expression in mammals. Cell. 2010 Dec 23;143(7):1084-96.

Ben Whiddon

EGLN1 involvement in high-altitude adaptation revealed through genetic analysis of extreme constitution types defined in Ayurveda.
Shilpi Aggarwal et al. Proc Natl Acad Sci U S A. 2010 November 2; 107 (44):18961-6.

 

1/14/11 -

Melody Rynerson

.
Christopher Gregg, Jiangwen Zhang, James E. Butler, David Haig, and Catherine Dulac (6 August 2010) Science 329 (5992), 682.

Andy Itsara

A widespread chromosomal inversion polymorphism contributes to a major life-history transition, local adaptation, and reproductive isolation. Lowry DB, Willis JH. PLoS Biol. 2010 Sep 28;8(9). pii: e1000500

1/11/11 -

Stan Fields:
Quantitative reactivity profiling predicts functional cysteines in proteomes.
Weerapana E, Wang C, Simon GM, Richter F, Khare S, Dillon MB, Bachovchin DA, Mowen K, Baker D, Cravatt BF.
Nature. 2010 Dec 9;468:790-5.

Ray Malfavon-Borja

Katzourakis A, Gifford RJ, 2010 Endogenous Viral Elements in Animal Genomes. PLoS Genet 6(11): e1001191. doi:10.1371/journal.pgen.1001191

1/4/11 -

Sarah Ng

Molecular basis of infrared detection by snakes. Elena O. Gracheva, Nicholas T. Ingolia, Yvonne M. Kelly, Julio F.Cordero-Morales, Gunther Hollopeter, Alexander T. Chesler, Elda E.
Sánchez, John C. Perez, Jonathan S. Weissman & David Julius. Nature 464, 1006-1011 (15 April 2010)

Chad Weisbrod

Wolfe-Simon, F., Blum, J., Kulp, T., Gordon, G., Hoeft, S., Pett-Ridge, J., Stolz, J., Webb, S., Weber, P., Davies, P., Anbar, A., & Oremland, R. (2010). A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus Science DOI: 10.1126/science.1197258

 

12/7/10 -

Willie Swanson

Christakis NA, Fowler JH, 2010 Social Network Sensors for Early Detection of Contagious Outbreaks. PLoS ONE 5(9): e12948.doi:10.1371/journal.pone.0012948

11/30/10 -

Jim Thomas

Mol Biol Evol. 2010 Feb;27(2):225-33. Epub 2009 Sep 30. Retracing evolution of red fluorescence in GFP-like proteins from Faviina corals. Field SF, Matz MV.

Cailyn Spurrell

Alleviating Cancer Drug Toxicity by Inhibiting a Bacterial Enzyme, Wallace BD, Wang H, Lane KT, Scott JE, Orans J, Koo JS, Venkatesh M, Jobin C, Yeh LA, Mani S, Redinbo MR. Science 5 November 2010: Vol. 330 no. 6005 pp. 831-835

11/16/10 -

Leo Pallanck

Van Ham TJ, et al (2010) Identification of MOAG-4/SERF as a regulator of age-related proteotoxicity. Cell 142: 601.

Matt Maurano

van Bakel H, Nislow C, Blencowe BJ, Hughes TR. Most "dark matter" transcripts are associated with known genes. PLoS Biol. 2010 May 18;8(5):e1000371.

11/9/10 -

Mike MacCoss

DE Lieberman et al., Foot strike patterns and collision forces in habitually barefoot versus shod runners Nature 463, 531-535 (2010) doi:10.1038/nature08723

Sean Schneider

Kirkness, E.F., Haas, B.J., Sun, W., Braig, H.R., Perotti, M.A., Clark, J.M. et al. (2010) Genome sequences of the human body louse and its primary endosymbiont provides insights into the permanent parasitic lifestyle. Proc Natl Acad Sci USA, doi:10.1073/pnas.1003379107

The International Aphid Genomics Consortium 2010 Genome Sequence of the Pea Aphid Acyrthosiphon pisum. PLoS Biol 8(2): e1000313. doi:10.1371/journal.pbio.1000313

11/2/10 -

Bill Noble

Global profiling of proteolysis during rupture of P. falciparum from the host erythrocyte.
Paul W. Bowyer, Gabriel M. Simon, Benjamin F. Cravatt and Matthew Bogyo. Molecular & Cellular Proteomics. 2010.

Celeste Berg

The role of recently derived FT paralogs in sunflower domestication.
Blackman BK, Strasburg JL, Raduski AR, Michaels SD, Rieseberg LH.
Curr Biol. 2010 Apr 13;20(7):629-35. Epub 2010 Mar 18.

10/26/10 -

Keisha Carlson

"Gut inflammation provides a respiratory electron acceptor for Salmonella." Sebastian E. Winter, Parameth Thiennimitr, Maria G. Winter, Brian P. Butler, Douglas L. Huseby,Robert W. Crawford, Joseph M. Russell, Charles L. Bevins, L. Garry Adams, Renée M. Tsolis, John R. Roth & Andreas J. Bäumler. Nature 467, 426-429 (23 September 2010).

Rachel Diederich

"Long- and short-term selective forces on malaria parasite genomes." Nygaard S, Braunstein A, Malsen G, Van Dongen S, Gardner PP, Krogh A, Otto TD, Pain A, Berriman M, McAuliffe J, Dermitzakis ET, Jeffares DC. PLoS Genet. 6(9): e1001099 (9 September 2010)

10/19/10 -

Mary-Claire King:

Genovese G, Friedman DJ, Ross MD, Lecordier L, Uzureau P, Freedman BI,
Bowden DW, Langefeld CD, Oleksyk TK, Uscinski Knob AL, Bernhardy AJ,
Hicks PJ, Nelson GW, Vanhollebeke B, Winkler CA, Kopp JB, Pays E, Pollak
MR. Association of trypanolytic ApoL1 variants with kidney disease in
African Americans. Science 329: 841-845, 2010. Epub 2010 Jul 15.

Jeff Vierstra:

Rohs et al. The role of DNA shape in protein-DNA recognition. Nature (2009) vol. 461 (7268) pp. 1248-1253

Meijsing et al. DNA Binding Site Sequence Directs Glucocorticoid Receptor Structure and Activity. Science (2009) vol. 324 (5925) pp. 407-410

10/12/10 -

Peter Sudmant:

Qian, Wenfeng; Liao, Ben-Yang; Chang, Andrew Ying-Fei; Zhang, Jianzhi, Maintenance of duplicate genes and their functional redundancy by reduced expression Trends in genetics : TIG doi:10.1016/j.tig.2010.07.002 (volume 26 issue 10 pp.425 - 430)

DeLuna A, Springer M, Kirschner MW, Kishony R, 2010 Need-Based Up-Regulation of Protein Levels in Response to Deletion of Their Duplicate Genes. PLoS Biol 8(3): e1000347. doi:10.1371/journal.pbio.1000347

Jarett Egertson:

Taniguchi, Yuichi, Paul J. Choi, Gene-Wei Li, Huiyi Chen, Mohan Babu, Jeremy Hearn, Andrew Emili, and X. S. Xie. "Quantifying E. Coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells." Science 329 (2010): 533-37

Laurent, Jon, et. al. "Protein Abundances Are More Conserved than mRNA Abundances across Diverse Taxa." Proteomics (2010). (Accepted for Publication)

10/5/10 -

Cait Rippey:

"The Right to Ignore Genetic Status of Late Onset Genetic Disease in the Genomic Era"
A. Erez, K. Plunkett, V.R. Sutton, and A.L. McGuire
American Journal of Medical Genetics
2010 Jul 152A(7):1774-80

Alex Nord:

Choate KA, Lu Y, Zhou J, Choi M, Elias PM, Farhi A, Nelson-Williams C, Crumrine D, Williams ML, Nopper AJ, Bree A, Milstone LM, Lifton RP. Mitotic Recombination in Patients with Ichthyosis Causes Reversion of Dominant Mutations in KRT10. Science. 2010 Aug 26. [Epub ahead of print]

6/1/10 -

Rose Okamoto
Williams, A.H., G. Valdez, V. Moresi, X. Qi, J. McAnally, J.L. Elliot, R. Bassel-Duby, J.R. Sanes, and E.N. Olson. 2009 MicroRNA-206 Delays ALS Progression and Promotes Regeneration of Neuromuscular Synapses in Mice. Science 326: 1549-1554.

Jeff Vierstra
Small silencing RNAs in plants are mobile and direct epigenetic modification in recipient cells.
Molnar A, Melnyk CW, Bassett A, Hardcastle TJ, Dunn R, Baulcombe DC.
Science. 2010 May 14;328(5980):872-5. Epub 2010 Apr 22.

Small RNA duplexes function as mobile silencing signals between plant cells.
Dunoyer P, Schott G, Himber C, Meyer D, Takeda A, Carrington JC, Voinnet O.
Science. 2010 May 14;328(5980):912-6. Epub 2010 Apr 22.

5/25/10 -

Aaron Miller
A Draft Sequence of the Neanderthal Genome. Richard E. Green, et al. Science 328, 710 (2010);

Targeted Investigation of the Neandertal Genome by Array-Based Sequence Capture. Hernán A. Burbano, et al. Science 328, 723 (2010);

Alessandra Oddone
Therapeutic silencing of miR-10b inhibits metastasis in a mouse mammary tumor model. Li Ma, Ferenc Reinhardt, Elizabeth Pan, Jürgen Soutschek, Balkrishen Bhat, Eric G Marcusson, Julie Teruya-Feldstein, George W Bell, Robert A Weinberg
Nature Biotechnology 28, 341-347 (28 March 2010) doi:10.1038/nbt.1618 Research

5/18/10 -

Blake Hovde
Hypersensitivity to contact inhibition provides a clue to cancer resistance of naked mole-rat. Seluanov A, Hine C, Azpurua J, Feigenson M, Bozzella M, Mao Z, Catania KC, Gorbunova V. Proc Natl Acad Sci U S A. 2009 Nov 17;106(46):19352-7. Epub 2009 Oct 26.

Tzitziki Lemus Vergara
Zhao D, McBride D, Nandi S, McQueen HA, McGrew MJ, Hocking PM, Lewis PD, Sang HM, Clinton M: Somatic sex identity is cell autonomous in the chicken. Nature, 464(7286):237-242.

5/11/10 -

Adam Gordon
Selective loss of polymorphic mating types is associated with rapid phenotypic evolution during morphic speciation.
Corl A, Davis AR, Kuchta SR, and Sinervo B. PNAS. 2010 March 2.

Sharon Greenblum
Hehemann, J.-H. et al.Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota.  Nature 464, 908-912 (2010).

5/4/10 -

Caitlin Connelly
De Grassi A, Segala C, Iannelli F, Volorio S, Bertario L, et al. (2010) Ultradeep Sequencing of a Human Ultraconserved Region Reveals Somatic and Constitutional Genomic Instability. PLoS Biol 8(1): e1000275. doi:10.1371/journal.pbio.1000275

Rachel Diederich
Horie, M. et al. Endogenous non-retroviral RNA virus elements in mammalian genomes. Nature 463, 84-7

4/27/10 -

Andrew Stergachis
Metabolic syndrome and altered gut microbiota in mice lacking toll-like receptor 5.
Vijay-Kumar, M., J. D. Aitken, F. A. Carvalho, T. C. Cullender, S. Mwangi, S. Srinivasan, S. V. Sitaraman, R. Knight, R. E. Ley, and A. T. Gewirtz. Science. 2010 Mar 4. [Epub ahead of print]

Chad Weisbrod
Full Dynamic Range ProteomeAnalysis of S. cerevisiaeby Targeted Proteomics Paola Picotti,1 Bernd Bodenmiller,1 Lukas N. Mueller,1 Bruno Domon,1 and Ruedi Aebersold Cell 138, 795–806, August 21, 2009

4/20/10 -

Anna Brosius
Inferring tumor progression from genomic heterogeneity.
Navin N, Krasnitz A, Rodgers L, Cook K, Meth J, Kendall J, Riggs M, Eberling Y, Troge J, Grubor V, Levy D, Lundin P, Månér S, Zetterberg A, Hicks J, Wigler M. Genome Resesarch, 2010

Joe Hiatt
PRDM9 Is a Major Determinant of Meiotic Recombination Hotspots in Humans and Mice.
Baudat F, Buard J, Grey C, Fledel-Alon A, Ober C, Przeworski M, Coop G, de Massy B.
Science. 2009 Dec 31. [Epub ahead of print]

Drive Against Hotspot Motifs in Primates Implicates the PRDM9 Gene in Meiotic Recombination. Myers S, Bowden R, Tumian A, Bontrop RE, Freeman C, Macfie TS, McVean G, Donnelly P. Science. 2009 Dec 31. [Epub ahead of print]

Prdm9 Controls Activation of Mammalian Recombination Hotspots. Parvanov ED, Petkov PM, Paigen K. Science. 2009 Dec 31. [Epub ahead of print]

4/13/10 -

Matt Maurano
Sharma SV, Lee DY, Li B, Quinlan MP, Takahashi F, Maheswaran S, McDermott U, Azizian N, Zou L, Fischbach MA, Wong KK, Brandstetter K, Wittner B, Ramaswamy S, Classon M, Settleman J. A Chromatin-Mediated
Reversible Drug-Tolerant State in Cancer Cell Subpopulations
. Cell. 2010 Apr 2;141(1):69-80

Jarrett Egertson
Odorant reception in the malaria mosquito Anopheles gambiae. Allison F. Carey, Guirong Wang, Chih-Ying Su, Laurence J. Zwiebel, and John R. Carlson. Nature 464 March 2010: 66-71

4/6/10 -

Ben Whiddon
"An NGF-responsive element targets myo-inositol monophosphatase-1 mRNA to sympathetic neuron axons." Andreassi C, Zimmermann C, Mitter R, Fusco S, Devita S, Saiardi A, Riccio A. Nat Neurosci. 2010 Mar;13
(3):291-301. Epub 2010 Jan 31

Jacob Kitzman -
Regulation of Alternative Splicing by Histone Modifications
Reini F. Luco, Qun Pan, Kaoru Tominaga, Benjamin J. Blencowe, Olivia M. Pereira-Smith, and Tom Misteli. Science 19 February 2010: 996-1000.

3/30/10 -

Leslie Emery
Ecological adaptation determines functional mammalian olfactory subgenomes.  Sara Hayden, Michael Bekaert, Tess A. Crider, Stefano Mariani, William J. Murphy, and Emma C. Teeling.  Genome Res. 2010 20: 1-9 originally published online December 1, 2009.

Keisha Carlson
"H2A.Z-Containing Nucleosomes Mediate the Thermosensory Response in Arabidopsis." S. Vinod Kumar and Philip A. Wigge. Cell 140: 136-147, January 8, 2010.

3/9/10 -

Ryan Emerson
Ancestry and Pathology in King Tutankhamun's Family.
Zahi Hawass, PhD; Yehia Z. Gad, MD; Somaia Ismail, PhD; Rabab Khairat, MSc; Dina Fathalla, MSc; Naglaa Hasan, MSc; Amal Ahmed, BPharm; Hisham Elleithy, MA; Markus Ball, MSc; Fawzi Gaballah, PhD; Sally Wasef, MSc; Mohamed Fateen, MD; Hany Amer, PhD; Paul Gostner, MD; Ashraf Selim, MD; Albert Zink, PhD; Carsten M. Pusch, PhD. JAMA. 2010;303(7):638-647.

James Thompson
"Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli." Blount ZD, Borland CZ, Lenski RE. Proc Natl Acad Sci U S A. 2008 Jun 10;105(23):7899-906. Epub 2008 Jun 4. http://www.pnas.org/content/105/23/7899.long

"Genome evolution and adaptation in a long-term experiment with Escherichia coli." Barrick JE, Yu DS, Yoon SH, Jeong H, Oh TK, Schneider D, Lenski RE, Kim JF. Nature. 2009 Oct 29;461(7268):1243-7. Epub 2009 Oct 18. http://www.nature.com/nature/journal/v461/n7268/full/nature08480.html

3/2/10 -

Katrina Claw
Adaptive Evolution of Pelvic Reduction in Sticklebacks by Recurrent Deletion of a Pitx1 Enhancer. Yingguang Frank Chan, Melissa E. Marks, Felicity C. Jones, Guadalupe Villarreal, Jr., Michael D. Shapiro, Shannon D. Brady, Audrey M. Southwick, Devin M. Absher, Jane Grimwood, Jeremy Schmutz, Richard M. Myers, Dmitri Petrov, Bjarni Jónsson, Dolph Schluter, Michael A. Bell, and David M. Kingsley (10 December 2009)
Science [DOI: 10.1126/science.1182213]

Stepwise Modification of a Modular Enhancer Underlies Adaptation in a Drosophila Population
Mark Rebeiz, John E. Pool, Victoria A. Kassner, Charles F. Aquadro, and Sean B. Carroll (18 December 2009)
Science 326 (5960), 1663. [DOI: 10.1126/science.1178357]

Peter Sudmant
Olga Fehér, Haibin Wang, Sigal Saar, Partha P. Mitra & Ofer Tchernichovski. De novo establishment of wild-type song culture in the zebra finch. Nature 459, 564-568 (28 May 2009) | doi:10.1038/nature07994; Published online 3 May 2009

2/23/10 -

Dan Skelly
Raj A, Rifkin SA, Andersen E, van Oudenaarden A (2010) Variability in gene expression underlies incomplete penetrance. Nature 463:913-918

Cailyn Spurrell
George L. Sen, Jason A. Reuter, Daniel E. Webster, Lilly Zhu & Paul A. Khavari, DNMT1 maintains progenitor function in self-renewing somatic tissue. Nature 463, 563-567 (28 January 2010)

2/16/10 -

Colin Manoil
Proc Natl Acad Sci U S A. 2009 Apr 7;106(14):5883-8. Epub 2009 Mar 17.
Evolution of virulence in epidemic community-associated methicillin-resistant Staphylococcus aureus. Li M, Diep BA, Villaruz AE, Braughton KR, Jiang X, DeLeo FR, Chambers HF, Lu Y, Otto M.

M. K. Raghuraman
K. Si, Y. Choi, E. White-Grindley, A. Majumdar, and E. Kandel.
2010. Aplysia CPEB Can Form Prion-like Multimers in Sensory Neurons
that Contribute to Long-Term Facilitation. Cell 140: 421-435.

2/9/10 -

Joe Felsenstein
Christiansen, F. B. and O. Frydenberg. 1977. Selection-mutation balance for two nonallelic recessives producing an inferior double homozygote. American Journal of Human Genetics 29(2): 195-207.

and

Walsh, J. B. 1995. How often do duplicated genes evolve new functions? Genetics 139: 421-428.

Oliver Serang
"Solving a Hamiltonian Path Problem with a bacterial computer." Jordan Baumgardner, Karen Acker, Oyinade Adefuye, Samuel Thomas Crowley, Will DeLoache, James O Dickson, Lane Heard, Andrew T Martens, Nickolaus Morton, Michelle Ritter, Amber Shoecraft, Jessica Treece, Matthew Unzicker, Amanda Valencia, Mike Waters, a. Malcolm Campbell, Laurie J. Heyer, Jeffrey L. Poet, Todd T. Eckdahl. Journal of Biological Engineering (2009)

2/2/10 -

Sean Schneider
Origins and evolution of a transmissible cancer. Rebbeck CA, Thomas R, Breen M, Leroi AM, Burt A. Evolution 2009 Sep 63(9):2340-9

Andy Itsara
d'Erfurth I, Jolivet S, Froger N, Catrice O, Novatchkova M, et al. (2009) Turning Meiosis into Mitosis. PLoS Biol 7(6): e1000124. doi:10.1371/journal.pbio.1000124

1/26/10 -

Alex Nord
Large, rare chromosomal deletions associated with severe early-onset obesity. Bochukova EG, Huang N, Keogh J, Henning E, Purmann C, Blaszczyk K, Saeed S, Hamilton-Shield J, Clayton-Smith J, O'Rahilly S, Hurles ME, Farooqi IS. Nature. 2009 Dec 6. [Epub ahead of print]

Evelyn Vincow
Novel repression of Kcc2 transcription by REST-RE-1 controls developmental switch in neuronal chloride. Yeo M, Berglund K, Augustine G, Liedtke W. J Neurosci. 2009 Nov 18;29(46):14652-62.

1/19/10 -

Maitreya Dunham

Kevin Roach

1/12/10 -

John Stamatoyannopoulos
"2009: The Year in Epigenetics"

Alan Rubin
Heger P, Marin B, Schierenberg E. (2009) Loss of the insulator protein CTCF during nematode evolution. BMC Mol Biol, 10: 84.

1/5/10 -

Rupali Patwardhan
Somatic Sex Reprogramming of Adult Ovaries to Testes by FOXL2 Ablation. Uhlenhaut et. al, Cell, Volume 139, Issue 6, 1130-1142, 11 December 2009

Renee George
Peterson BK, Hare EE, Iyer VN, Storage S, Conner L, et al. (2009) Big Genomes Facilitate the Comparative Identification of Regulatory Elements. PLoS ONE 4(3): e4688. doi:10.1371/journal.pone.0004688

12/8/09 -

Phil Green
Lister R et al. Human DNA methylomes at base resolution show widespread epigenomic differences, Nature 462, 315-322 (Nov 19, 2009).

Willie Swanson
Evolution 63-10: 2487–2490
Adaptionism - 30 Years After Gould and Lewontin
Rasmus Nielsen

Nature 462, 213-217 (12 November 2009) | doi:10.1038/nature08549 Human-specific transcriptional regulation of CNS development genes by FOXP2
Genevieve Konopka, Jamee M. Bomar, Kellen Winden, Giovanni Coppola, Zophonias O. Jonsson, Fuying Gao, Sophia Peng, Todd M. Preuss, James A. Wohlschlegel & Daniel H. Geschwind

12/1/09 -

Ray Monnat
Hanna J, Saha K, Pando B, van Zon J, Lengner CJ, Creyghton MP, van Oudenaarden A, Jaenisch R. (2009) Direct cell reprogramming is a stochastic process amenable to acceleration. Nature. 2009 Nov 8. [Epub
ahead of print].

Stan Fields
Systems-level dynamic analyses of fate change in murine embryonic stem cells.
Lu R, Markowetz F, Unwin RD, Leek JT, Airoldi EM, Macarthur BD, Lachmann A, Rozov R, Ma'ayan A, Boyer LA, Troyanskaya OG, Whetton AD, Lemischka IR. Nature. 2009 462:358-362.

11/24/09 -

Sara Di Rienzi
Antoine Martin, Christelle Troadec, Adnane Boualem, Mazen Rajab, Ronan Fernandez, Halima Morin, Michel Pitrat, Catherine Dogimont, Abdelhafid Bendahmane. A transposon-induced epigenetic change leads to sex determination in melon. 2009. Nature vol. 461 (7267) pp. 1135-8

Melody Rynerson
Chaperonin overexpression promotes genetic variation and enzyme evolution
Nobuhiko Tokuriki, Dan S. Tawfik
Nature 459, 668-673 (4 June 2009) doi:10.1038/nature08009

11/17/09 -

Leo Pallanck
Edgar D, Shabalina I, Camara Y, Wredenberg A, Calvaruso MA, Nijtmans L, Nedergaard J, Cannon
B, Larsson NG, Trifunovic A. (2009) Random point mutations with major effects on protein-coding genes are the driving force behind premature aging in mtDNA mutator mice. Cell Metab 10(2):131-8.

Kyle Siebenthall
Mets, DG and Meyer BJ. 2009. Condensins Regulate Meiotic DNA Break Distribution, thus Crossover Frequency, by Controlling Chromosome Structure. Cell 139, 73-86.

11/10/09 -

Cait Rippey
Nature. 2009 Oct 15;461(7266):947-55. Asymmetric centrosome inheritance maintains neural progenitors in the neocortex. Wang X, Tsai JW, Imai JH, Lian WN, Vallee RB, Shi SH.

Sayer Herin
Predicting new molecular targets for known drugs
Michael J. Keiser, Vincent Setola, John J. Irwin, Christian Laggner, Atheir I. Abbas, Sandra J. Hufeisen, Niels H. Jensen, Michael B. Kuijer, Roberto C. Matos, Thuy B. Tran, Ryan Whaley, Richard A. Glennon, Jerome Hert, Kelan L. H. Thomas, Douglas D. Edwards, Brian K. Shoichet & Bryan L. Roth doi:10.1038/nature08506

11/3/09 -

Celeste Berg -

Genotype Analysis Identifies the Cause of the "Royal Disease"
Rogaev EI, Grigorenko AP, Faskhutdinova G, Kittler EL, Moliaka YK.
Science. 2009 Oct 8. [Epub ahead of print]DOI: 10.1126/science.1180660

Nick Coley -

Gene Therapy for Dopamine Replacement in Parkinson´s Disease. Anders Björklund, Tomas Björklund, Deniz Kirik. Science Translational Medicine. 14 October 2009 Vol 1 Issue 2

Dopamine Gene Therapy for Parkinson's Disease in a Nonhuman Primate Without Associated Dyskinesia. Béchir Jarraya, et al. Sci Transl Med 1, 2ra4 (2009)

10/27/09 -

Ray Malfavon-Borja -

Sasaki E, Suemizu H, Shimada A, Hanazawa K, Oiwa R, Kamioka M, Tomioka I, Sotomaru Y, Hirakawa R, Eto T, Shiozawa S, Maeda T, Ito M, Ito R, Kito C, Yagihashi C, Kawai K, Miyoshi H, Tanioka Y, Tamaoki N, Habu S, Okano H, Nomura T. Generation of transgenic non-human primates with germline transmission. Nature. 2009 May 28;459(7246):523-7.

Sarah Ng -

Architecture and secondary structure of an entire HIV-1 RNA genome. Watts JM, Dang KK, Gorelick RJ, Leonard CW, Bess JW Jr, Swanstrom R, Burch CL, Weeks KM. Nature. 2009 Aug 6;460(7256):711-6.

10/20/09 -

Lisa Beutler

Tumours with PI3K activation are resistant to dietary restriction.
Kalaany NY, Sabatini DM. Nature. 2009 Apr 9;458(7239):725-31. Epub 2009 Mar 11.

10/13/09 -

Bonny Brewer

Coat variation in the domestic dog is governed by variants in three genes.
Cadieu E, Neff MW, Quignon P, Walsh K, Chase K, Parker HG, Vonholdt BM, Rhue A, Boyko A, Byers A, Wong A, Mosher DS, Elkahloun AG, Spady TC, André C, Lark KG, Cargill M, Bustamante CD, Wayne RK, Ostrander EA.Science. 2009 Oct 2;326(5949):150-3. Epub 2009 Aug 27.

An expressed fgf4 retrogene is associated with breed-defining chondrodysplasia in domestic dogs.
Parker HG, VonHoldt BM, Quignon P, Margulies EH, Shao S, Mosher DS, Spady TC, Elkahloun A, Cargill M, Jones PG, Maslen CL, Acland GM, Sutter NB, Kuroki K, Bustamante CD, Wayne RK, Ostrander EA.
Science. 2009 Aug 21;325(5943):995-8. Epub 2009 Jul 16.

10/6/09 -

Mary-Claire King

Tuupanen S et al. The common colorectal cancer predisposition SNP
rs6983267 at chromosome 8q24 confers potential to enhanced Wnt
signaling. Nature Genetics 41:885-890, 2009. Epub Jun 28, 2009

Pomerantz MM et al. The 8q24 cancer risk variant rs6983267 shows
long-range interaction with MYC in colorectal cancer. Nature Genetics
41:882-884, 2009. Epub Jun 28, 2009

6/2/09 -

Sean Schneider
Fernandez AA, Morris MR. Mate choice for more melanin as a mechanism to maintain a functional oncogene. Proc Natl Acad Sci U S A. 2008 Sep 9;105(36):13503-7.

Peter Sudmant
Genetic architecture of complex traits: Large phenotypic effects and pervasive epistasis
Haifeng Shao, Lindsay C. Burrage, David S. Sinasac, Annie E. Hill, Sheila R. Ernest, William O'Brien, Hayden-William Courtland, Karl J. Jepsen, Andrew Kirby, E. J. Kulbokas, Mark J. Daly, Karl W. Broman, Eric S. Lander, and Joseph H. Nadeaua. PNAS December 16, 2008 vol. 105 no. 50 19910-19914

5/29/09 -

Graham McVicker

Lincoln, TA, Joyce, GF. Self-Sustained Replication of an RNA Enzyme. Science. 2009. Epub Jan 8

Max Robinson
Differential chromatin marking of introns and expressed exons by H3K36me3. P. Kolasinska-Zweirz, T. Down, I. Latorre, T. Liu, X S Liu, and J. Ahringer, Nature Genetics 41(3):376-81. (March 2009)

5/26/09 -

Matt Maurano
Solovei I, Kreysing M, Lanctôt C, Kösem S, Peichl L, Cremer T, Guck J, Joffe B. Nuclear architecture of rod photoreceptor cells adapts to vision in mammalian evolution. Cell. 2009 Apr 17;137(2):356-68.

Melody Rynerson
Cristina Grande & Nipam H. Patel. 2009. Nodal signalling is involved in left–right asymmetry in snails. Nature 457, 1007-1011

5/19/09 -

Leslie Emery
Brown DM, Brenneman RA, Koepfli KP, Pollinger JP, Mila B, Georgiadis NJ, Louis Jr EE, Grether GF, Jacobs DK, Wayne RK. 2007. Extensive population genetic structure in the giraffe. BMC Biology. 5:57.

Jacob Kitzman
Nature. 2009 Feb 5;457(7230):736-40. Epub 2008 Dec 14. Messenger RNA targeting to endoplasmic reticulum stress signalling sites. Aragón T, van Anken E, Pincus D, Serafimova IM, Korennykh AV, Rubio CA, Walter P.

5/12/09 -

Katrina Claw
Bézier A, Annaheim M, Herbinière J, Wetterwald C, Gyapay G, Bernard-Samain S, Wincker P, Roditin I,Heller M,Belghazi M, Pfister-Wilhem R, Periquet G, Dupuy C,Huguet E,Volkoff A, Lanzrein B, Drezen J. 2009. Polydnaviruses of Braconid Wasps Derive from an Ancestral Nudivirus. Science Vol. 323: 926-930.

Jarrett Egertson
Grzegorz Kudla, et. al. Coding-Sequence Determinants of Gene Expression in Escherichia coli. Science 324, 255(2009; DOI: 10.1126/science.1170160.

5/5/09 -

Ben Whiddon
Nicholas T. Ingolia, Sina Ghaemmaghami, John R. S. Newman, Jonathan S. Weissman. 10 April 2009 Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling. Science 324: 218-223.

A Translational Profiling Approach for the Molecular Characterization of CNS Cell Types
Cell, Volume 135, Issue 4, 14 November 2008, Pages 738-748.

Keisha Carlson
Clarke J, Wu HC, Jayasinghe L, Patel A, Reid S, and Bayley H. 2009. Continuous base identification for single-molecule nanopore DNA sequencing . Nat Nanotechnol. 4(4):265-70. Epub 2009 Feb.

4/28/09 -

Ryan Emerson
Snowdrift game dynamics and facultative cheating in yeast. Jeff Gore, Hyun Youk & Alexander van Oudenaarden. Nature advance online publication 6 April 2009 | doi:10.1038/nature07921

Sayer Herin
Mary E. Rumpho, Jared M. Worful, Jungho Lee, Krishna Kannan, Mary S. Tyler, Debashish Bhattacharya, Ahmed Moustafa, and James R. Manhart. Horizontal gene transfer of the algal nuclear gene psbO to the photosynthetic sea slug Elysia chlorotica. PNAS November 18, 2008 vol.105 no.46 17867-17871

4/21/09 -

Oliver Serang
Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph. Wu Y, Bhat PR, Close TJ, Lonardi S. PLoS Genet 2008 Oct 4(10):e1000212.

Alan Rubin
Freckleton G, Lippman SI, Broach JR, Tavazoie S, 2009 Microarray Profiling of Phage-Display Selections for Rapid Mapping of Transcription Factor–DNA Interactions. PLoS Genet 5(4): e1000449.

4/14/09 -

Joe Felsenstein
Nozawa, M., Y. Suzuki, and M. Nei. 2009. Reliabilities of identifying positive selection by the branch-site and site-prediction methods. Proceedings of the National Academy of Sciences, Early Edition 1 April 2009.

Tom Pohl
Jin-Hee Han, Steven A. Kushner, Adelaide P. Yiu, Hwa-Lin (Liz) Hsiang, Thorsten Buch, Ari Waisman, Bruno Bontempi, Rachael L. Neve, Paul W. Frankland, Sheena A. Josselyn (2009). Selective Erasure of a Fear Memory. Science. 323, 1492-1496.

4/7/09 -

John Stamatoyannopoulos
Paynter NP et al. Cardiovascular disease risk prediction with and without knowledge of genetic variation at chromosome 9p21.3. Ann Intern Med. 150:65-72 (2009)

Eckman MH et al. Cost-effectiveness of using pharmacogenetic information in warfarin dosing for patients with nonvalvular atrial fibrillation. Ann Intern Med. 150:73-83 (2009)

Sara Di Rienzi
Mandel MJ, Wollenberg MS, Stabb EV, Visick KL, Ruby EG. A single regulatory gene is sufficient to alter bacterial host range. Nature 458, 215-218 (12 March 2009).

3/31/09 -

Dan Blick
Elhanan Borenstein and David C. Krakauer. An end to endless forms: Epistasis, phenotype distribution bias, and
non-uniform evolution. PLoS Computational Biology, 4(10), 2008.
http://www.stanford.edu/%7Eebo/pub/pnk_borens_pcb.pdf

Kevin Roach
Saleh, M. C. et al. The endocytic pathway mediates cell entry of dsRNA
to induce RNAi silencing. Nature Cell Biol. 8, 793–802 (2006) and

Saleh M.C. et al. Antiviral immunity in Drosophila requires systemic RNA
interference spread. Nature. 2009 Feb 8 (Epub ahead of print).

3/10/09 -

Max Boeck
Massive Horizontal Gene Transfer in Bdelloid Rotifers. Gladyshev EA, Meselson M, Arkhipova IR.
Science. 2008 May 30;320(5880):1210-3.

3/6/09 -

Ray Monnat
Noninvasive diagnosis of fetal aneuploidy by shotgun sequencing DNA from
maternal blood. Fan HC, Blumenfeld YJ, Chitkara U, Hudgins L, Quake SR. Proc Natl Acad Sci U S A. 2008 Oct 21;105(42):16266-71.

and

Circulating mutant DNA to assess tumor dynamics.
Diehl F, Schmidt K, Choti MA, Romans K, Goodman S, Li M, Thornton K,
Agrawal N, Sokoll L, Szabo SA, Kinzler KW, Vogelstein B, Diaz LA Jr. Nat Med. 2008 Sep;14(9):985-90.

Tom Nicholas
Sequencing the nuclear genome of the extinct woolly mammoth Miller, W. et al. (2008) Nature 456 387-392.

3/3/09 -

Maitreya Dunham
Gross JB, Borowsky R, Tabin CJ (2009) A Novel Role for Mc1r in the Parallel Evolution of Depigmentation in Independent Populations of the Cavefish Astyanax mexicanus. PLoS Genet 5(1): e1000326. doi:10.1371/journal.pgen.1000326

Renee George
Kin discrimination increases with genetic distance in a social amoeba.
Ostrowski EA, Katoh M, Shaulsky G, Queller DC, Strassmann JE.
PLoS Biol. 2008 Nov 25;6(11):e287.

2/24/09 -

Colin Manoil
An oncogenomics-based in vivo RNAi screen identifies tumor suppressors in liver cancer.
Zender L, Xue W, Zuber J, Semighini CP, Krasnitz A, Ma B, Zender P, Kubicka S, Luk JM, Schirmacher P, McCombie WR, Wigler M, Hicks J, Hannon GJ, Powers S, Lowe SW.
Cell. 2008 Nov 28;135(5):852-64.

Sarah Ng
Repeatability of published microarray gene expression analyses. Ioannidis JP, Allison DB, Ball CA, Coulibaly I, Cui X, Culhane AC, Falchi M, Furlanello C, Game L, Jurman G, Mangion J, Mehta T, Nitzberg M, Page GP, Petretto E, van Noort V. Nat Genet. 2009 Feb;41(2):149-55. Epub 2008 Jan 28.

2/17/09 -

Kyle Siebenthall
D'Angelo, MA, et al. 2008. Age-Dependent Deterioration of Nuclear Pore Complexes Causes a Loss of Nuclear Integrity in Postmitotic Cells. Cell 136(2): 284-295.

Ray Malfavon-Borja
Genetic Code Supports Targeted Insertion of Two Amino Acids by One Codon. Anton A. Turanov, Alexey V. Lobanov, Dmitri E. Fomenko, Hilary G. Morrison, Mitchell L. Sogin, Lawrence A. Klobutcher, Dolph L. Hatfield, and Vadim N. Gladyshev. (9 January 2009). Science 323 (5911), 259.

2/10/09 -

Cailyn Spurrell

CRISPR Interference Limits Horizontal Gene Transfer in Staphylococci by Targeting DNA, Luciano A. Marraffini and Erik J. Sontheimer Science 19 December 2008;322(5909):1843-5

Leslie Kim

Escape from X chromosome inactivation is an intrinsic property of the Jarid1c locus. Li N and Carrel L. PNAS. 2008 Nov 4; 44:17055-60.

2/3/09 -

Stan Fields

The spreading of disorder. Keizer K, Lindenberg S, Steg L. Science. 2008 Dec 12;322:1681-5

Geoff Findlay

Smukalla, S. et al.  2008.  FLO1 is a variable green beard gene that drives biofilm-like cooperation in budding yeast.  Cell 135: 726-737

1/27/09 -

Celeste Berg
Genetic structure along an elevational gradient in Hawaiian honeycreepers reveals contrasting evolutionary responses to avian malaria. Eggert LS, Terwilliger LA, Woodworth BL, Hart PJ, Palmer D, Fleischer RC. BMC Evol Biol. 2008 Nov 14;8:315.

Rupali Patwardhan
A common MYBPC3 (cardiac myosin binding protein C) variant associated with cardiomyopathies in South Asia.
Dhandapany et al., Nature Genetics, doi:10.1038/ng.309; EPub: 18 January 2009

1/13/09 -

Jay Shendure
Eid J et al. Real-time DNA sequencing from single polymerase molecules. Science. 2009 Jan 2;323(5910):133-8. Epub 2008 Nov 20.

Dan Skelly
Roper M, Pepper RE, Brenner MP, Pringle A. 2008. Explosively launched
spores of ascomycete fungi have drag-minimizing shapes. PNAS
105:20583-20588.

1/6/09 -

Jeff Kidd
Keinan A, Mullikin JC, Patterson N, Reich D. Accelerated genetic drift
on chromosome X during the human dispersal out of Africa.
Nat Genet. 2009 Jan;41(1):66-70. Epub 2008 Dec 21.

Hammer MF, Mendez FL, Cox MP, Woerner AE, Wall JD.
Sex-biased evolutionary forces shape genomic patterns of human
diversity. PLoS Genet. 2008 Sep 26;4(9):e1000202.

Andy Itsara
Chen BT, Bowers MS, Martin M, Hopf FW, Guillory AM, Carelli RM, Chou JK,
and Bonci A. Cocaine but not natural reward self-administration nor passive cocaine
infusion produces persistent LTP in the VTA. Neuron 59:288-297 (2008).
PMID: 18667156

12/2/08 -

Phil Green
Bentley DR, et al. "Accurate whole human genome sequencing using reversible terminator chemistry", Nature 456, 53-59 (6 November 2008).

Willie Swanson
Jeremy Ginsberg, Matthew H. Mohebbi, Rajan S. Patel, Lynnette Brammer, Mark S. Smolinski & Larry Brilliant. Detecting influenza epidemics using search engine query data. In press at Nature, or see http://www.google.org/about/flutrends/how.html

11/25/08 -

Leo Pallanck
Narkar VA, Downes M, Yu RT, Embler E, Wang YX, Banayo E, Mihaylova
MM, Nelson MC, Zou Y, Juguilon H, Kang H, Shaw RJ, Evans RM. (2008)
AMPK and PPARdelta agonists are exercise mimetics. Cell 134(3):405-15.

Steve Salipante
The virophage as a unique parasite of the giant mimivirus. La Scola et al.
Nature. 2008 Aug 6

11/18/08 -

Bob Waterston
Marini NJ, Gin J, Ziegle J, Keho KH, Ginzinger D, Gilbert DA, Rine J.
The prevalence of folate-remedial MTHFR enzyme variants in humans.
Proc Natl Acad Sci U S A. 2008 105:8055-60.

Bonny Brewer
"Field Experiments with Transformed Plants Reveal the Sense of Floral Scents"
Danny Kessler, Klaus Gase, and Ian T. Baldwin. Science; August 29, 2008; Vol 321; 1200-1202.

11/4/08 -

Kristen Lewis
Heijmans BT, Tobi EW, Stein AD, Putter H, Blauw GJ, Susser ES, Slagboom PE, Lumey LH.
Persistent epigenetic differences associated with prenatal exposure to famine in humans. PNAS 2008 Nov 4; 105(44):17046-9.

James Thompson
Wilson, M.D., Barbosa-Morais, N.L., Schmidt, D., Conboy, C.M., Vanes, L., Tybulewicz, V.L.J. Fisher, E.M.C., Tavaré, S., and Odom. D.T. (2008) Species-Specific Transcription in Mice Carrying Human Chromosome 21. Science 322: 434-438.

10/28/08 -

Lisa Beutler
Qiao Zhou, Juliana Brown, Andrew Kanarek, Jayaraj Rajagopal, and Douglas A. Melton In vivo reprogramming of adult pancreatic exocrine cells to Beta-cells. Nature 2 Oct 2008

Caitlin Rippey
Frank MC, Everett DL, Fedorenko E, Gibson E.
Number as a cognitive technology: Evidence from Pirahã language and cognition. Cognition. 2008 Sep;108(3):819-24. Epub 2008 Jun 10.

and

Butterworth B, Reeve R, Reynolds F, Lloyd D.
Numerical thought with and without words: Evidence from indigenous Australian children. Proc Natl Acad Sci U S A. 2008 Sep 2;105(35):13179-84. Epub 2008 Aug 29.

10/14/08 -

Bill Noble
Sabine Begall, Jaroslav Červený, Julia Neef, Oldřich Vojtěch, and Hynek Burda. Magnetic alignment in grazing and resting cattle and deer. PNAS September 9, 2008 vol. 105 no. 36 13451-13455.

Alex Nord
Gegear RJ, Casselman A, Waddell S, Reppert SM.
Cryptochrome mediates light-dependent magnetosensitivity in Drosophila. Nature. 2008 Aug 21;454(7207):1014-8. PubMed ID: 18641630

10/7/08 -

Diane Dickel
Am J Hum Genet. 2008 Jul;83(1):77-88. Influence of Friedreich ataxia GAA noncoding repeat expansions on pre-mRNA processing. Baralle M, Pastor T, Bussani E, Pagani F.

Matt Sandel
"Tools for studying the underlying causes of psychiatric illness" Or "One medical students misadventures with neuropsychiatry"

King-Casas B, Sharp C, Lomax-Bream L, Lohrenz T, Fonagy P, Montague PR. "The rupture and repair of cooperation in borderline personality disorder." Science. 2008 Aug 8;321(5890):806-10. PMID: 18687957

This is an associated "News + Views" article: http://www.sciencemag.org/cgi/content/full/321/5890/778

9/30/08 -

Mary-Claire King
Xu B, Roos JL, Levy S, van Rensburg EJ, Gogos JA, Karayiorgou M. Strong association of de novo copy number mutations with sporadic schizophrenia. Nat Genet. 2008 Jul; 40(7): 880-885. epub 30 May 2008

Stefansson H. et al. Large recurrent microdeletions associated with schizophrenia. Nature Advance online publication doi: 10.1038/nature07229 (2008).

The International Schizophrenia Consortium. Rare chromosomal deletions and duplications increase risk of schizophrenia Nature Advance online publication doi: 10.1038/ nature07239 (2008).

Rori Rohlfs
Homer N, Szelinger S, Redman M, Duggan D, Tembe W, et al. (2008) Resolving Individuals Contributing Trace Amounts of DNA to Highly Complex Mixtures Using High-Density SNP Genotyping Microarrays. PLoS Genet 4(8)

6/3/08 -

Dan Skelly
Jaillon O, Bouhouche K, Gout J-F, et al. 2008. Translational control of intron splicing in eukaryotes. Nature 451(7176):359-362

Cailyn Spurrell
Saima Malik, Francis McGlone, Diane Bedrossian, and Alain Dagher, Ghrelin Modulates Brain Activity in Areas that Control Appetitive Behavior, Cell Metabolism, Vol 7, 400-409, 07 May 2008

5/27/08 -

Renee George
Nutritional Control of Reproductive Status in Honeybees via DNA Methylation
R. Kucharski, J. Maleszka, S. Foret, and R. Maleszka (28 March 2008) Science 319 (5871), 1827.

Rupali Patwardhan
Eberle AB, Stalder L, Mathys H, Orozco RZ, Mühlemann O (2008) Posttranscriptional Gene Regulation by Spatial Rearrangement of the 3′ Untranslated Region. PLoS Biol 6(4): e92 doi:10.1371/journal.pbio.0060092

5/20/08 -

Ray Malfavon-Borja
Hirofumi Nariya and Masayori Inouye. MazF, an mRNA Interferase, Mediates Programmed Cell Death during Multicellular Myxococcus Development. Cell. 2008. Jan 11 ;132(1):55-66.

Sarah Ng
Cell-to-Cell Stochastic Variation in Gene Expression is a Complex Genetic Trait. Juliet Ansel, Hélène Bottin, Camilo Rodriguez-Beltran, Christelle Damon, Muniyandi Nagarajan, Steffen Fehrmann, Jean François, Gaël Yvert PLoS Genetics, 4(4):e1000049

5/13/08 -

Alex Nord
Kleinman et al.. Sequence- and target-independent angiogenesis suppression by siRNA via TLR3. Nature. 2008 Apr 3;452(7187):591-7. PMID: 18368052

Sayer Herin
Reyeslamothe et al. Independent Positioning and Action of Escherichia coli Replisomes in Live Cells. Cell (2008) vol. 133 (1) pp. 90-102

5/6/08 -

Andy Itsara
"Superwobbling facilitates translation with reduced tRNA sets." Marcelo Rogalski, Daniel Kacher & Ralph Bock. Nat Struct Mol Biol. 2008 Feb;15(2):192-8. Epub 2008 Jan 13

Caitlin Rippey
Krishnan V, Han MH, Graham DL, Berton O, Renthal W, Russo SJ, Laplant Q, Graham A, Lutter M, Lagace DC, Ghose S, Reister R, Tannous P, Green TA, Neve RL, Chakravarty S, Kumar A, Eisch AJ, Self DW, Lee FS, Tamminga CA, Cooper DC, Gershenfeld HK, Nestler EJ. Molecular adaptations underlying susceptibility and resistance to social defeat in brain reward regions. Cell. 2007 Oct 19;131(2):391-404.

4/29/08 -

Josh Akey
Sturm RA, Duffy DL, Zhao ZZ, Leite FP, Stark MS, Hayward NK, Martin NG, Montgomery GW. (2008) A single SNP in an evolutionary conserved region within intron 86 of the HERC2 gene determines human blue-brown eye color. Am J Hum Genet. 82:424-431.

4/22/08 -

Mike MacCoss
Bacteria Subsisting on Antibiotics. Gautam Dantas, Morten O. A. Sommer, Rantimi D. Oluwasegun, and George M. Church. Science 4 April 2008: 100-103.

Colin Manoil
Kohanski MA, Dwyer DJ, Hayete B, Lawrence CA, Collins JJ. A common mechanism of cellular death induced by bactericidal antibiotics. Cell. 2007 Sep 7;130(5):797-810.

4/15/08 -

Bob Waterston

Geoff Findlay
Ishibashi, K., K. Masuda, S. Naito, T. Meshi and M. Ishikawa. 2007.
An inhibitor of viral RNA replication is encoded by a plant resistance
gene. PNAS 104: 13833-13838.

4/8/08 -

James Thompson
"BLOSUM62 Miscalculations Improve Search Performance." Styczynski MP, Jensen KL, Rigoutsos I, Stephanopoulos G. Nat Biotechnol. 2008 Mar;26(3):274-5.

Troy Zerr
Huichen Feng, Masahiro Shuda, Yuan Chang, and Patrick S. Moore Clonal Integration of a Polyomavirus in Human Merkel Cell Carcinoma Science. 22 February 2008 319: 1096-1100

4/1/08 -

Steve Salipante
Identification of host proteins required for HIV infection through a functional genomic screen. Brass AL, Dykxhoorn DM, Benita Y, Yan N, Engelman A, Xavier RJ, Lieberman J, Elledge SJ. Science. 2008 Feb 15;319(5865):921-6.

Ryan Emerson
Lethargus is a Caenorhabditis elegans sleep-like state. Raizen DM, Zimmerman JE, Maycock MH, Ta UD, You Y-j, Sundaram MV, Pack AI. Nature. 2008 Jan 31;451(7178):569-72.

3/11/08 -

Bonny Brewer
A genetic code alteration generates a proteome of high diversity in the human pathogen Candida albicans. AC Gomes, I Miranda, RM Silva, GR Moura, B Thomas, A Akoulitchev and MAS Santos. Genome Biology (2007) 8:R206.

Critical roles for a genetic code alteration in the evolution of the genus Candida. RM Silva, JA Paredes, GR Moura, B Manadas, T Lima-Costa, R Rocha, I Miranda, AE Gomes, MJG Koerkamp, M Perrot, FCP Holstege, J Boucherie, and MAS Santos. EMBO (2007) 26:4555-4565.

Kristen Lewis
Sulem et al. 2007. Genetic determinants of hair, eye and skin pigmentation in Europeans. Nature Genetics 39, 1443 - 1452

3/4/08 -

Stan Fields
Nature. 2008 451:720-4. Rapid appearance and local toxicity of amyloid-beta plaques in a mouse model of Alzheimer's disease. Meyer-Luehmann M, Spires-Jones TL, Prada C, Garcia-Alloza M, de Calignon A, Rozkalne A, Koenigsknecht-Talboo J, Holtzman DM, Bacskai BJ, Hyman BT.

David Spencer
Two levels of protection for the B cell genome during somatic hypermutation Nature 451, 841-845 (14 February 2008)

2/26/08 -

Mike Hoopmann
Helgason A, et al. An association between the kinship and fertility of human couples. Science. 2008 Feb 8;319(5864):813-6.

Shameek Biswas
GTP-independent rapid and slow endocytosis at a central synapse Jianhua Xu et al. Nat Neurosci 11 (1), 45-53 (Jan 2008)

2/19/08 -

Jeff Kidd
Recent acceleration of human adaptive evolution. John Hawks, Eric T. Wang, Gregory M. Cochran, Henry C. Harpending, and Robert K. Moyzis.
PNAS | December 26, 2007 | vol. 104 | no. 52 | 20753-20758
http://www.pnas.org/cgi/content/abstract/104/52/20753

Alan Rubin
Maria Divina E. Deato and Robert Tjian. 2007. Switching of the core transcriptional machinery during myogenesis. Genes & Dev. 21:2137-2149.

2/12/08 -

Kyle Siebenthall
Takahashi et al., Induction of Pluripotent Stem Cells from Adult Human Fibroblasts by Defined Factors, Cell (2007), doi:10.1016/j.cell.2007.11.019

Induced Pluripotent Stem Cell Lines Derived from Human Somatic Cells
Junying Yu, Maxim A. Vodyanik, Kim Smuga-Otto, Jessica Antosiewicz-Bourget, Jennifer L Frane, Shulan Tian, Jeff Nie, Gudrun A. Jonsdottir, Victor Ruotti, Ron Stewart, Igor I. Slukvin, and James A. Thomson (20 November 2007) Science [DOI: 10.1126/science.1151526]

2/5/08 -

Joe Felsenstein
Kaoru Fukami-Kobayashi, Yoshiaki Minezaki, Yoshio Tateno, and Ken Nishikawa. 2007. A tree of life based on protein domain organizations Molecular Biology and Evolution 24: 1181-1189.

Gregory P. Fournier and J. Peter Gogarten. 2007. Signature of a primitive genetic code in ancient protein lineages. Journal of Molecular Evolution 65 (4): 425-436.

Zhaoshi Jiang
Perfusion-decellularized matrix: using nature's platform to engineer a bioartificial heart. Harald C Ott, Thomas S Matthiesen, Saik-Kia Goh, Lauren D Black, Stefan M Kren, Theoden I Netoff & Doris A Taylor. Published online: 13 January 2008; doi:10.1038/nm1684 on Nature Medicine

1/29/08 -

Tom Nicholas

A functional circuit underlying male sexual behaviour in the female mouse brain.
KImchi T, Xu J, and Dulac C. Nature 448 (2007)

Sara Di Rienzi

Smith and Williams. 2006. Circadian rhythms in gene transcription imparted by chromosome compaction in the cyanobacterium Synechococcus elongatus. PNAS. 103: 8564-8569.
Woelfle, Xu, Qin, and Johnson. 2007. Circadian rhythms of superhelical status of DNA in cyanobacteria. PNAS. 104: 18819-18824.

1/22/08 -

Oliver Serang
Clustering by Passing Messages Between Data Points
Brendan J. Frey, et al. Science 315, 972 (2007)
http://www.sciencemag.org/cgi/reprint/315/5814/972.pdf

Kevin Roach
M. Nowacki1, et al. RNA-mediated epigenetic programming a genome-rearrangement pathway. Nature 451, 153-158 (10 January 2008). doi:10.1038/nature06452
http://rf9xu5rz6p.search.serialssolutions.com/?id=doi:10.1038/nature06452&sid=libx:arnold

1/15/08 -

Evan Eichler
Weiss et al. Association between Microdeletion and Microduplication
at 16p11.2 and Autism. New England Journal of Medicine. January 9, 2008.

Mary-Claire King
W Sakai, EM Swisher, BY Karlan, MK Agarwal, J Higgins, C Friedman, E
Villegas, C Jacquemont, DJ Farrugia, FJ Couch, N Urban, T Taniguchi.
Secondary mutations as a mechanism of cisplatin resistance in
BRCA2-mutated cancers. Nature, in press, 2008

1/8/08 -

Brig Mecham
Lundmark F, Duvefelt K, et al
Variation in interleukin 7 receptor alpha chain (IL7R) influences risk of multiple sclerosis.
Nat Genet. 2007 Sep;39(9):1108-13. Epub 2007 Jul 29.

Gregory SG, Schmidt S, Seth P, et al
Interleukin 7 receptor alpha chain (IL7R) shows allelic and functional association with multiple sclerosis.Nat Genet. 2007 Sep;39(9):1083-91. Epub 2007 Jul 29.

Matt Sandel
Julia Zeitlinger et al. RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nature Genetics 39, 1512 - 1516 (2007).

12/4/07 -

Phil Green
U Bergthorsson, DI Andersson, JR Roth. Ohno's dilemma: Evolution of new genes under continuous selection. PNAS 104, 17004-17009 (2007).

Willie Swanson
Falling off the academic bandwagon. Women are more likely to quit at the postdoc to principal investigator transition. Elisabeth D. Martinez, Jeannine Botos, Kathleen M. Dohoney, Theresa M. Geiman, Sarah S. Kolla, Ana Olivera, Yi Qiu, Geetha Vani Rayasam, Diana A. Stavreva & Orna Cohen-Fix
EMBO reports 8, 11, 977–981 (2007).

http://www.nature.com/embor/journal/v8/n11/full/7401110.html

11/27/07 -

Dan Blick
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Stark et al. Nature, p. 219, 8 November 2007.

Carlos Araya
Transgenic strategies for combinatorial expression of fluorescent proteins in the nervous system. Livet J, Weissman TA, Kang H, Draft RW, Lu J, Bennis RA, Sanes JR, Lichtman JW. Nature 2007 Nov 1

11/20/07 -

Rori Rohlfs
Perry et al. Diet and the evolution of human amylase gene copy number variation. Nature Genetics. October 2007.

Diane Dickel
Kim J, Inoue K, Ishii J, Vanti WB, Voronov SV, Murchison E, Hannon G, Abeliovich A.
A MicroRNA feedback circuit in midbrain dopamine neurons. Science. 2007 Aug 31;317(5842):1220-4.

11/13/07 -

Celeste Berg
A Melanocortin 1 Receptor Allele Suggests Varying Pigmentation Among Neanderthals
Lalueza-Fox, et al. Science Express 25 October 2007
http://www.sciencemag.org/cgi/content/abstract/1147417

Ancient DNA Reveals Neandertals With Red Hair, Fair Complexions. Elizabeth Culotta (26 October 2007). Science 318 (5850), 546.
http://www.sciencemag.org/cgi/content/full/sci;318/5850/546

Leo Pallanck
Deleault NR, Harris BT, Rees JR, Supattapone S. (2007) Formation of native prions from minimal components in vitro. Proc Natl Acad Sci U S A. 104:9741-6.

11/6/07 -

Lisa Beutler
Tumour invasion and metastasis initiated by microRNA-10b in breast cancer. Ma L, Teruya-Feldstein J, Weinberg RA. Nature. 2007 Oct 11;449(7163):682-8. Epub 2007 Sep 26

Graham McVicker
Batada NN, Hurst LD. Evolution of chromosome organization driven by selection for reduced gene expression noise. Nature Genetics. August 2007

10/30/07 -

Angela Poole
Transvascular delivery of small interfering RNA to the central nervous system. Kumar P, Wu H, McBride JL, Jung KE, Kim MH, Davidson BL, Lee SK, Shankar P, Manjunath N. Nature. 2007 Jul 5; 448(7149): 39-43.

Nick Coley
Agger et al. UTX and JMJD3 are histone H3K27 demethylases involved in HOX gene regulation and development. Nature Development 11 October 2007.

10/23/07 -

Jim Thomas
Global Dissemination of a Single Mutation Conferring White Pericarp in Rice Megan T. Sweeney, Michael J. Thomson, Yong Gu Cho, Yong Jin Park, Scott H. Williamson, Carlos D. Bustamante, Susan R. McCouch. PLoS Genetics, August 2007.

Max Boeck
Augmented Wnt Signaling in a Mammalian Model of Accelerated Aging. H. Liu, M. M Fergusson, R. M. Castilho, J. Liu, L. Cao, J. Chen, D. Malide, I. I. Rovira, D. Schimel, C. J. Kuo, J. S. Gutkind, P. M. Hwang, and T. Finkel Science 317 (5839), 803-806.

Increased Wnt Signaling During Aging Alters Muscle Stem Cell Fate and Increases Fibrosis. A. S. Brack, M. J. Conboy, S. Roy, M. Lee, C. J. Kuo, C. Keller, and T. A. Rando Science 317 (5839), 807-810.

10/16/07 -

Bill Noble
Checkers Is Solved. Schaeffer et al. Science 14 September 2007: Vol. 317. no. 5844, pp. 1518 - 1522

John Stamatoyannopoulos
Pagel M et al. Frequency of word-use predicts rates of lexical evolution throughout Indo-European history. Nature 449, 717-720 (2007)

Lieberman E et al. Quantifying the evolutionary dynamics of language. Nature 449:713-6 (2007)

10/9/07 -

Mary Kuhner
Tulio de Oliveira, Oliver G. Pybus, Andrew Rambaut, Marco Salemi,
et al. Molecular Epidemiology: HIV-1 and HCV sequences from Libyan
outbreak. Nature 444, 836-837.

10/2/07 -

Maynard Olson
F. Zhang et al. (2007). Multimodal fast optical interrogation of neural circuitry. Nature 446, 633-639.

5/31/07 -

Oliver Serang
Wiring optimization can relate neuronal structure and function by Beth L. Chen, David H. Hall, and Dmitri B. Chklovskii. PNAS 103 (12): 4723-4728 (2006).

Kyle Siebenthall
Conboy MJ, Karasov AO and Rando TA. (2007) High incidence of non-random template strand segregation and asymmetric fate determination in dividing stem cells and their progeny. PLoS Biology 5 (5): e102.

5/24/07 -

Kevin Roach
Covalent modification of DNA regulates memory formation.
Miller CA, Sweatt JD. Neuron 2007 Mar 15 53(6):857-69

Genomic imprinting mediates sexual experience-dependent olfactory
learning in male mice. William T. Swaney, James P. Curley, Frances A. Champagne, and Eric B. Keverne. PNAS, Apr 2007; 104: 6084 - 6089.

Alan Rubin
Betzig E, Patterson GH, Sougrat R, Lindwasser OW, Olenych S, Bonifacino JS, Davidson MW, Lippincott-Schwartz J, Hess HF. (2006). Imaging Intracellular Fluorescent Proteins at Nanometer Resolution. Science 313, 1642-1645.

5/17/07 -

Ryan Emerson
Dierick HA & Greenspan RJ. Molecular analysis of flies selected for aggressive behavior. 2006. Nature Genetics 38: 1023-31.

Chris Murphy
Anaphase initiation is regulated by antagonistic ubiquitination and deubiquitination activities . Frank Stegmeier, Michael Rape, Viji M. Draviam, Grzegorz Nalepa, Mathew E. Sowa, Xiaolu L. Ang, E. Robert McDonald III, Mamie Z. Li, Gregory J. Hannon, Peter K. Sorger, Marc W. Kirschner, J. Wade Harper & Stephen J. Elledge.
Nature 446, 876-881 (19 April 2007) | doi:10.1038/nature05694; Received 13 December 2006; Accepted 19 February 2007.

5/10/07 -

Dan Blick
Fontaneto D, Herniou EA, Boschetti C, Caprioli M, Melone G, et al.
(2007) Independently Evolving Species in Asexual Bdelloid Rotifers. PLoS
Biol 5(4): e87 doi:10.1371/journal.pbio.0050087

Sara DiRienzi
Pradel N, Santini CL, Bernadac A, Fukumori Y, and Wu LF. 2006. Biogenesis of actin-like bacterial cytoskeletal filaments destined for positioning prokaryotic magnetic organelles. PNAS: 103, pp. 17845-17849.

5/3/07 -

Nick Coley
Uchikawa M, Ishida Y, Takemoto T, Kamachi Y, Kondoh H. Functional analysis of chicken Sox2 enhancers highlights an array of diverse regulatory elements that are conserved in mammals. Dev Cell. 2003 Apr;4(4):509-19.

Takemoto T, Uchikawa M, Kamachi Y, Kondoh H. Convergence of Wnt and FGF signals in the genesis of posterior neural plate through activation of the Sox2 enhancer N-1. Development. 2006 Jan;133(2):297-306. Epub 2005 Dec 14.

Will Sheffler
Protein Sequences from Mastodon and Tyrannosaurus Rex Revealed by
Mass Spectrometry. John M. Asara, Mary H. Schweitzer, Lisa M. Freimark, Matthew
Phillips, and Lewis C. Cantley. Science 13 April 2007: 280-285.

Accompanying article:

Analyses of Soft Tissue from Tyrannosaurus rex Suggest the Presence
of Protein. Mary Higby Schweitzer, Zhiyong Suo, Recep Avci, John M. Asara,
Mark A. Allen, Fernando Teran Arce, and John R. Horner. Science 13 April 2007: 277-280.

4/26/07 -

Bonny Brewer
"Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila". Julius Brennecke, Alexei Aravin, Alexander Stark, Monica Dus, Manolis Kellis, Ravi Sachidanandam, and Gregory Hannon. Cell 128, 1089-1103, March 23, 2007.

James Ronald
Acquisti C, Kleffe J, and Collins S (2007) Oxygen content of transmembrane proteins over macroevolutionary time scales. Nature 445, 47-52.

4/19/07 -

Joshua Akey
Tishkoff SA, Reed FA, Ranciaro A, Voight BF, Babbitt CC, Silverman JS, Powell K, Mortensen HM, Hirbo JB, Osman M, Ibrahim M, Omar SA, Lema G, Nyambo TB, Ghori J, Bumpstead S, Pritchard JK, Wray GA, Deloukas P. Convergent adaptation of human lactase persistence in Africa and Europe. Nat Genet. 2006 Dec 10

Lisa Beutler
Martianov I, Ramadass A, Serra Barros A, Chow N, Akoulitchev A.
Repression of the human dihydrofolate reductase gene by a non-coding interfering transcript. Nature. 2007 Feb 8;445(7128):666-70. Epub 2007 Jan 21.

4/12/07 -

Amanda Schivell
Organ C.L., Shedlock A.M., Meade A., Pagel M., and Edwards S.V. (2007)
"Origin of avian genome size and structure in non-avian dinosaurs"
Nature 446, 180-184

Hughes A.L. and Hughes M.K. (1995) "Small genomes for better flyers"
Nature 377, 391

Mike Hoopmann
Falk D, Hildebolt C, Smith K, Morwood MJ, Sutikna T, Jatmiko, Saptomo
EW, Imhof H, Seidler H, Prior F. Brain shape in human microcephalics and
Homo floresiensis. 2007 PNAS 104:2513-2518.

Brown P, Sutikna T, Morwood MJ, Soejono RP, Jatmiko, Saptomo EW, Due RA.
A new small-bodied hominin from the Late Pleistocene of Flores,
Indonesia. 2004 Nature 431:1055-1061.

4/5/07 -

Kristen Lewis

Wasser SK, C. Mailand, R. Booth, B. Mutayoba, E. Kisamo, B. Clark, and M. Stephens, 2007. Using DNA to track the origin of the largest ivory seizure since the 1989 trade ban. PNAS, 104(10):4228-4233.

Wasser SK, A.M. Shedlock, K. Comstock, E.A. Ostrander, B. Mutayoba, and M. Stephens, 2004. Assigning African elephant DNA to geographic region of origin: applications to the ivory trade. PNAS, 101(41):14847-52.

Marianna Ivanov
Nelson CM, Ihle KE, Fondrk MK, Page RE, Amdam GV. The Gene vitellogenin Has Multiple Coordinating Effects on Social Organization. PLoS Biol. 2007 Mar 6;5(3)

3/29/07 -

Carlos Araya
Jacobs G. H., Williams G. A., Cahill H. & Nathans J. Emergence of Novel Color Vision in
Mice Engineered to Express a Human Cone Photopigment. Science, 315 . 1723 - 1725 (2007).

Zhaoshi Jiang
Bagchi A, Papazoglu C, Wu Y et al. "CHD5 Is a Tumor Suppressor at Human 1p36".
Cell 128,459-475 February 9, 2007

3/8/07 -

David Spencer
"Reversal of Neurological Defects in a Mouse Model of Rett Syndrome"
Jacky Guy, Jian Gan, Jim Selfridge, Stuart Cobb, and Adrian Bird.
Science 23 February 2007: 1143-1147.

Steve Salipante
Comparative genome sequencing of Escherichia coli allows observation of
bacterial evolution on a laboratory timescale. Nature Genetics - 38, 1406 - 1412 (2006)

2/28/07 -

Joe Felsenstein
W. Ford Doolittle and Eric Bapteste. 2007. Pattern pluralism and the Tree of Life hypothesis. Proceedings of the National Academy of Sciences 104: 2043-2049

Troy Zerr
Tumpey TM, et al. A two-amino acid change in the hemagglutinin of the 1918 influenza virus abolishes transmission. Science. 2007 Feb 2;315(5812):655-9.

2/22/07 -

Rori Rohlfs
Jinying Zhao, Li Jin, and Momiao Xiong (2006) Test for Interaction between Two Unlinked Loci. Am J Hum Gen.

James Thompson
Zahradka K, Slade D, Bailone A, Sommer S, Averbeck D, Petranovic M, Lindner AB, Radman M. "Reassembly of shattered chromosomes in Deinococcus radiodurans." Nature. 2006 Oct 5;443(7111):569-73. Epub 2006 Sep 27.

2/15/07 -

Shameek Biswas
A "Silent" polymorphism in the MDR1 gene changes substrate specificity.Kimchi-Safraty C, Oh JM, Kim IW, Sauna ZE, Calcagno AM, Ambudkar SV, Gottesman MM. Science. 2007 Jan 26;315(5811):525-8.

Greg Finney
Warren L, Bryder D, Weissman IL, Quake SR. "Transcription factor profiling in individual hematopoietic progenitors by digital RT-PCR." Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17807-12.

2/8/07 -

Stan Fields
De Coppi P, Bartsch G Jr, Siddiqui MM, Xu T, Santos CC, Perin L, Mostoslavsky G, Serre AC, Snyder EY, Yoo JJ, Furth ME, Soker S, Atala A. Isolation of amniotic stem cell lines with potential for therapy. Nature Biotechnol. (2007) 25:100-106.

Jeff Kidd
Wang HY, Chien HC, Osada N, Hashimoto K, Sugano S, et al. (2007) Rate of Evolution in Brain-Expressed Genes in Humans and Other Primates. PLoS Biol 5(2):
http://biology.plosjournals.org/perlserv/?request=get-document&doi=10.1371%2Fjournal.pbio.0050013

2/1/07 -

Angela Poole
An obesity-associated gut microbiome with increased capacity for energy harvest.
Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER, Gordon JI Nature. 2006 Dec 21; 444(7122):1027-131

Microbial ecology: Human gut microbes associated with obesity.
Ley RE, Turnbaugh PJ, Klein S, Gordon JI Nature. 2006 Dec 21; 444(7122):1022-3

Geoff Findlay
Libuda, DE and F Winston. 2006. Amplification of histone genes by circular chromosome
formation in Saccharomyces cerevisiae. Nature 443: 1003-1007.

1/25/07 -

Mike MacCoss
Lorenz, H. et al. Nature Methods (3) 205-210, 2006

M.K. Raghuraman
Cox JJ et al. (2006) An SCN9A channelopathy causes congenital inability to
experience pain. Nature 444:894-8

Wetzel C et al. (2007) A stomatin-domain protein essential for touch
sensation in the mouse. Nature 445:206-9

1/18/07 -

Diane Dickel
Armakolas A, Klar AJ. Left-right dynein motor implicated in selective chromatid segregation in mouse cells. Science. 2007 Jan 5;315(5808):100-1.

Graham McVicker
Baltus, AE et al. (2006) "In germ cells of mouse embryonic ovaries, the decision to enter meiosis precedes premeiotic DNA replication" Nature Genet. 38:1430-1434

1/11/07 -

Ray Monnat
Lamb, J. et al. (2006) The Connectivity Map: using gene-expression
signatures to connect small molecules, genes and disease. Science
313:1929-1935.

Ben Smith
Paterson, D et al. "Multiple serotonergic brainstem abnormalities in Sudden Infant Death Syndrome" JAMA Nov. 1, 2006 Vol. 296, No. 17

1/4/07 -

Mary-Claire King

Mutations in the gene encoding the synaptic scaffolding protein SHANK3
are associated with autism spectrum disorders. Durand CM, Betancur C,
Boeckers TM, Bockmann J, Chaste P, Fauchereau F, Nygren G, Rastam M,
Gillberg IC, Anckarsater H, Sponheim E, Goubran-Botros H, Delorme R,
Chabane N, Mouren-Simeoni MC, de Mas P, Bieth E, Roge B, Heron D,
Burglen L, Gillberg C, Leboyer M, Bourgeron T. Nature Genetics 39:25-27,
2007.

Bob Waterston

"Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin". SM Johnson, FJ Tan, HL McCullough, DP Riordan and AZ Fire (2006). Genome Res. 16:1505-1516

12/14/06 -

John Stamatoyannopoulos
Lomvardas S, Barnea G, Pisapia DJ, Mendelsohn M, Kirkland J, Axel R.
Interchromosomal interactions and olfactory receptor choice.
Cell. 2006 Jul 28;126(2):403-13.

12/7/06 -

Phil Green
Two Dobzhansky-Muller Genes Interact to Cause Hybrid Lethality in Drosophila. Nicholas J. Brideau, Heather A. Flores, Jun Wang, Shamoni Maheshwari, Xu Wang, and Daniel A. Barbash. Science 314, 1292-1295. (24 November 2006).

Willie Swanson
Ordered surface carbons distinguish antifreeze proteins and their ice-binding regions. Andrew C Doxey, Mahmoud W Yaish, Marilyn Griffith & Brendan J McConkey. Nature Biotechnology 24: 852 - 855 (2006)

11/30/06 -

Bob Braun
Minoo Rassoulzadegan, Valerie Grandjean, Pierre Gounon, Stephane Vincent, Isabelle Gillot & Francois Cuzin. RNA-mediated non-mendelian inheritance of an epigenetic change in the mouse. Nature, Vol 441, 25 May 2006.
PDF

Brig Mecham
Boillee S, Yamanaka K, Lobsiger CS, Copeland NG, Jenkins NA, Kassiotis G, Kollias G, Cleveland DW. Onset and progression in inherited ALS determined by motor neurons and microglia. Science. 2006 Jun 2;312(5778):1389-92. PMID: 16741123

11/16/06 -

Leo Pallanck
Choi SY, Huang P, Jenkins GM, Chan DC, Schiller J, Frohman MA. (2006)
A common lipid links Mfn-mediated mitochondrial fusion and SNARE-
regulated exocytosis. Nat Cell Biol 8:1255-1262.

Tom Nicholas
A Single Amino Acid Mutation Contributes to Adaptive Beach Mouse Color Pattern Hopi E. Hoekstra, Rachel J. Hirschmann, Richard A. Bundey, Paul A. Insel, Janet P. Crossland (2006) Science 313 101-104.

11/9/06 -

Mark Enstrom
Sudarsan N, Hammond MC, Block KF, Welz R, Barrick JE, Roth A, Breaker RR.Tandem Riboswitch Architectures Exhibit Complex Gene Control Functions. Science. 13 October, 2006

Max Boeck
PNAS | August 8, 2006 | vol. 103 | no. 32 | 12115-12120 Microbial diversity in the deep sea and the underexplored "rare biosphere" Mitchell L. Sogin, Hilary G. Morrison, Julie A. Huber, David Mark Welch, Susan M. Huse, Phillip R. Neal, Jesus M. Arrieta, and Gerhard J. Herndl

PNAS | July 25, 2006 | vol. 103 | no. 30 | 11240-11245
A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes Susanne M. D. Goldberg, Justin Johnson, Dana Busam, Tamara Feldblyum, Steve Ferriera, Robert Friedman, Aaron Halpern, Hoda Khouri, Saul A. Kravitz, Federico M. Lauro, Kelvin Li, Yu-Hui Rogers, Robert Strausberg, Granger Sutton, Luke Tallon, Torsten Thomas, Eli Venter, Marvin Frazier, and J. Craig Venter

11/2/06 -

Aaron Klammer
van Dam et al. Long-period astronomical forcing of mammal turnover. Nature 443, 687-691 (2006)

Laura Certain
A. Qvarnstrom et al. (2006) Song similarity predicts hybridization in flycatchers. J Evol Biol 19: 1202-1209.

10/26/06 -

Bill Noble
Moses AM, Pollard DA, Nix DA, Iyer VN, Li XY, Biggin MD, Eisen MB. Large-Scale Turnover of Functional Transcription Factor Binding Sites in Drosophila. PLoS Comput Biol. 2006 Oct 13;2(10) [Epub ahead of print]

Karen Chisholm
Ramirez et al. 2006. Hereditary parkinsonism with dementia is caused by mutations in ATP13A2, encoding a lysosomal type 5 P-type ATPase. Nature Genetics. 38:1184-1191.

10/19/06 -

Matt Sandel
Dominic Didiano & Oliver Hobert. Perfect seed pairing is not a generally reliable predictor for miRNA-target interactions. Nature Structural and Molecular Biology, Vol 13, No. 9, 2006.

Joanna Kelley
Huang et al. 2006. The cells and logic for mammalian sour taste
detection. Nature 442: 934-938.

10/12/06 -

Jim Thomas
Leininger et al., Nature 442:806-809. "Archaea predominate among ammonia-oxidizing prokaryotes in soils"

10/5/06 -

Cindy Desmarais
Patterson N et al. (2006). Genetic evidence for complex speciation of humans and chimpanzees. Nature (advance online publication) DOI: 10.1038/nature04789

Jennifer Gogarten
A humanized gnotobiotic mouse model of host-archaeal bacterial mutualism Buck S. Samuel and Jeffrey I. Gordon PNAS 103 (26), June 27, 2006, pp. 10011-10016. doi:10.1073/pnas.0602187103


9/28/06 -

Celeste Berg
Duret, Chureau, Samain, Weissenbach, and Avner. 2006. The Xist RNA gene evolved in eutherians by pseudogenization of a protein-coding gene. Science 312: 1653 -- 1655.

Carol Sibley
Balanya, Oller, Huey, Gilchrist, and Serra.  Global genetic change tracks global climate warming. Science express 31 August, 2006 .

6/1/06 -

James Thompson
Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Gerstein M. "Genomic analysis of regulatory network dynamics reveals large topological changes." Nature. 2004 Sep 16;431(7006):308-12.

Troy Zerr
Riehle MM, Markianos K, Niare O, Xu J, Li J, Toure AM, Podiougou B, Oduol F, Diawara S, Diallo M, Coulibaly B, Ouatara A, Kruglyak L, Traore SF, Vernick KD. "Natural malaria infection in Anopheles gambiae is regulated by a single genomic control region" Science. 2006 Apr 28;312(5773):577-9.

5/25/06 -

Tom Nicholas
Noonan JP, et al. Genomic Sequencing of Pleistocene Cave Bears. Science 309 597-600 (2005).

Poinar HN, et al. Metagenomics to Paleogenomics: Large-Scale Sequencing of Mammoth DNA.
Science 311 392-394 (2006).

Rori Rohlfs
Herbert A, et al. "A common genetic variant is associated with adult and childhood obesity."
Science. 2006 Apr 14

5/18/06 -

Bonny Brewer
"The snoRNA HBII-52 Regulates Alternative Splicing of the Serotonin
Receptor 2C." Shivendra Kishore and Stefan Stamm, 2006, Science
311:330-332.

Graham McVicker
Bejerano G, Lowe CB, Ahituv N, King B, Siepel A, Salama SR, Rubin EM, Kent JW, Haussler D. A distal enhancer and an ultraconserved exon are derived from a novel retroposon. Nature. 2006 April 16; [Epub ahead of print]

5/11/06 -

Jeff Kidd
Rice domestication by reducing shattering. Li C, Zhou A, Sang T.
Science. 2006 Mar 31;311(5769):1936-9.

Kristen Lewis
Nishimura Y, Yoshinari T, Naruse K, Yamada T, Sumi K, Mitani H, Higashiyama T, and Kuroiwa T. Active digestion of sperm mitochondrial DNA in single living sperm revealed by optical tweezers. PNAS 2006 103(5): 1382-1387.

5/4/06 -

Diane Dickel
Giraldez AJ, Mishima Y, Rihel J, Grocock RJ, Van Dongen S, Inoue K, Enright AJ, Schier AF. Zebrafish MiR-430 Promotes Deadenylation and Clearance of Maternal mRNAs. Science. 2006 Feb 16; [Epub ahead of print]

Marianna Ivanov
Clark LA, Wahl JM, Rees CA, and Murphy KE. 2006. Retrotransposon insertion in
SILV is responsible for merle patterning of the domestic dog. Proc Natl Acad
Sci USA 103(5):1376-81.

4/27/06 -

Matt Sandel
Huang S, Eichler G, et al. Cell fates as high-dimensional attractor states of a complex gene regulatory network. Phys Rev Lett. 2005 Apr 1;94(12):128701. Epub 2005 Apr 1.

Max Boeck
Ellermeier CD, Hobbs EC, Gonzalez-Pastor JE, Losick R.
A three-protein signaling pathway governing immunity to a bacterial cannibalism toxin. Cell. 2006 Feb 10;124(3):549-59.

4/20/06 -

Shameek Biswas
Progressive Disruption of Cellular Protein Folding in Models of Polyglutamine Diseases. Tali Gidalevitz, Anat Ben-Zvi, Kim H. Ho, Heather R. Brignull, Richard I. Morimoto. Science Vol. 311. no. 5766, pp. 1471 - 1474, 2006

Geoff Findlay
Fugmann, S.D., Messier, C., Novack, L.A., Cameron, R.A., and Rast, J.P. 2006. An ancient evolutionary origin of the Rag1/2 gene locus. PNAS 103: 3728-3733.

4/13/06 -

Zhaoshi Jiang
Gabellini D, D'Antona G, Moggio M, Prelle A, Zecca C, Adami R, Angeletti B, Ciscato P, Pellegrino MA, Bottinelli R, Green MR, Tupler R. Facioscapulohumeral muscular dystrophy in mice overexpressing FRG1. Nature. 2006 Feb 23;439(7079):973-7.

Steve Salipante
Somatic mosaicism in neuronal precursor cells mediated by L1 retrotransposition. Muotri AR, Chu VT, Marchetto MC, Deng W, Moran JV, Gage FH. Nature. 2005 Jun 16;435(7044):903-10

4/6/06 -

Mike MacCoss
Evidence for macromolecular protein rings in the absence of bulk water.
BT Ruotolo, K Giles, I Campuzano, AM Sandercock, RH Bateman, CV
Robinson. Science 310, 1658-61, 2005.

Monitoring macromolecular complexes in the chaperonin-assisted protein
folding cycle by mass spectrometry. Duijn et al. Nature Methods 2,
371-376, 2005

James Ronald
Armakolas A & Klar AJS. 2006 Cell type regulates selective segregation of mouse chromosome 7 DNA strands in mitosis. Science 311:1146-1149.

3/30/06 -

Josh Akey
Monsuur AJ, de Bakker PI, Alizadeh BZ, Zhernakova A, Bevova MR, Strengman E, Franke L, van't Slot R, van Belzen MJ, Lavrijsen IC, Diosdado B, Daly MJ, Mulder CJ, Mearin ML, Meijer JW, Meijer GA, van Oort E, Wapenaar MC, Koeleman BP, Wijmenga C. Myosin IXB variant increases the risk of celiac disease and points toward a primary intestinal barrier defect. Nat Genet. (2005) 37:1341-1344.

Hunt KA, Monsuur AJ, McArdle W, Kumar PJ, Travis SP, Walters JR, Jewell DP, Strachan DP, Playford RJ, Wijmenga C, van Heel DA. Lack of association of MYO9B genetic variants with coeliac disease in a British cohort. (2006) Gut. in press. PMID: 16423886

Stan Fields
High-Throughput Screening of Enzyme Libraries: In Vitro Evolution of a b-Galactosidase by
Fluorescence-Activated Sorting of Double Emulsions. Enrico Mastrobattista, Valerie Taly, Estelle Chanudet, Patrick Treacy, Bernard T. Kelly, and Andrew D. Griffiths. Chem Biol. 2005 12:1291-300

High-Throughput Screening of Enzyme Libraries: Thiolactonases Evolved by Fluorescence-Activated Sorting of Single Cells in Emulsion Compartments. Amir Aharoni, Gil Amitai, Kalia Bernath, Shlomo Magdassi, and Dan S. Tawfik. Chem Biol. 2005 12:1281-9

3/16/06 -

Greg Finney
Allen TE, Price ND, Joyce AR, Palsson BO (2006) Long-Range Periodic Patterns in Microbial Genomes Indicate Significant Multi-Scale Chromosomal Organization. PLoS Comput Biol 2(1): e2

Tobias Mann
Transient Homologous Chromosome Pairing Marks the Onset of X Inactivation.
Na Xu, Chia-Lun Tsai, Jeannie T. Lee. Science, 311:1149-1152, 24 Feb 2006

Transient colocalization of X-inactivation centres accompanies the initiation of X
inactivation. C. P. Bacher, M. Guggiari, B. Brors, S. Augui, P. Clerc, P. Avner, R. Eils,
E. Heard. Nature Cell Biology 8(3):293-299, March 2006

3/9/06 -

Mark Enstrom
Till S. Voss, Julie Healer, Allison J. Marty, Michael F. Duffy, Jennifer K. Thompson, James G. Beeson, John C. Reeder, Brendan S. Crabb and Alan F. Cowman. “A var gene promoter controls allelic exclusion of virulence genes in Plasmodium falciparum malaria” Nature 439, 1004-1008 (23 February 2006)

Angela Poole
Partida-Martinez LP, Hertweck C.
Pathogenic fungus harbours endosymbiotic bacteria for toxin production.
Nature. 2005 Oct 6;437(7060):884-8.

3/2/06 -

Will Sheffler
Eric J. Deeds, Orr Ashenberg, Eugene I. Shakhnovich. A simple physical model for scaling in protein-protein interaction networks. PNAS Jan 10, 2006 103: 311-316. (In "Biophysics")

2/23/06 -

Colin Manoil

Ubeda C, Maiques E, Knecht E, Lasa I, Novick RP, Penades JR.
Horizontal dissemination of pathogenicity island-encoded virulence factors in staphylococci.
Mol Microbiol. 2005 56:836-44.

Michael Boyle

"Synaptic protein synthesis associated with memory is regulated by the RISC
pathway in Drosophila." Ashraf SI, McLoon AL, Sclarsic SM, Kunes S. Cell.
2006 Jan 13;124(1):191-205.

2/16/06 -

Joe Felsenstein
Blair, J. E. and S. B. Hedges. 2005. Molecular clocks do not support the
Cambrian explosion.
Molecular Biology and Evolution 22(3): 387-390.
Erratum in: Molecular Biology and Evolution 2005 Apr; 22(4): 1156.

Jermiin, L. S., L. Poladian, and M. A. Charleston. 2005. Is the "big bang" in animal evolution real? Science (23 December 2005) 310: 1910-1911

Rokas, A., D. Kruger, and S. B. Carroll. 2005. Animal evolution and the
molecular signature of radiations compressed in time.
Science 310 (5756):
1933-1938 DEC 23 2005

David Spencer
Low-fat dietary pattern and risk of cardiovascular disease: the Women's Health Initiative Randomized Controlled Dietary Modification Trial. JAMA. 2006 Feb 8;295(6):655-66.

2/9/06 -

Celeste Berg
Burgler, C. and Macdonald, P. M. 2005. Prediction and verification of microRNA targets by Moving Targets, a highly adaptable prediction method. BioMedCentral Genomics 6: 88.

Barb Trask
Conrad DF, Andrews TD, Carter NP, Hurles ME, Pritchard JK (2006) A high-resolution survey of deletion polymorphism in the human genome. Nature Genetics 38:75 - 81

Hinds DA, Kloek AP, Jen M, Chen X, Frazer KA (2006) Common deletions and SNPs are in linkage disequilibrium in the human genome. Nature Genetics 38:82 - 85

McCarroll SA, Hadnott, Perry GH, Sabeti PC, Zody MC, Barrett JC, Dallaire S, Gabriel SB, Lee C, Daly MJ, Altshuler DM, & The International HapMap Consortium (2006) Common deletion polymorphisms in the human genome. Nature Genetics 38:86 - 92

Eichler EE (2006) Widening the spectrum of human genetic variation. Nature Genetics 38:9 - 11.

2/2/06 -

Maynard Olson
K.-I. Yoshiura et al. (2006).  A SNP in the ABCC11 gene is the determinant of human earwax type.  Nature Genetics [Jan. 29, Epub ahead of print]

Divya Bhat
Could we all have descended from Adam and Eve?

Takahata, Naoyuri.  A  simple genealogical structure of strongly balanced allelic lines and trans-species evolution of polymorphism.  PNAS 87:2419-2423.

Andres Aguilar, Gary Roemer, Sally Debenham, Matthew Binns, David Garcelon, and Robert K. Wayne High MHC diversity maintained by balancing selection in an otherwise genetically monomorphic mammal. PNAS 101: 3490-3494.

Miller HC, Lambert DM.  Genetic drift outweighs balancing selection in shaping post-bottleneck major histocompatibility complex variation in New Zealand robins (Petroicidae).   Mol Ecol. 2004 Dec;13(12):3709-21.

1/26/06 -

Aaron Hinz
Kreth, J., J. Merritt, et al. (2005). "Competition and Coexistence between
Streptococcus mutans and Streptococcus sanguinis in the Dental Biofilm"
J. Bacteriol. 187(21): 7193-7203.

Marsh, P. D. (2003). "Are dental diseases examples of ecological
catastrophes?" Microbiology 149(2): 279-294.

1/19/06 -

Bob Braun
"Is Snuppy Really a Clone?"

Lee BC , Kim MK, Jang G, Oh HJ, Yuda F, Kim HJ, Shamim MH, Kim JJ, Kang SK, Schatten G, Hwang WS. Dogs cloned from adult somatic cells. Nature. 2005 Aug 4;436(7051):641. Erratum in: Nature. 2005 Aug 25;436(7054):1102.

Hwang WS, Roh SI, Lee BC, Kang SK, Kwon DK, Kim S, Kim SJ, Park SW, Kwon HS, Lee CK, Lee JB, Kim JM, Ahn C, Paek SH, Chang SS, Koo JJ, Yoon HS, Hwang JH, Hwang YY, Park YS, Oh SK, Kim HS, Park JH, Moon SY, Schatten G.
Patient-specific embryonic stem cells derived from human SCNT blastocysts. Science. 2005 Jun 17;308(5729):1777-83. Epub 2005 May 19. Erratum in: Science. 2005 Dec 16;310(5755):1769.

Nathan Clark
Fondon III JW, Garner HR. Molecular origins of rapid and continuous morphological evolution. PNAS. 2004 Dec 28; 101(52):18058-18063.

Verstrepen KJ, Jansen A, Lewitter F, Fink G. Intragenic tandem repeats generate functional variability. Nature Genetics. 2005 Sept.; 37(9):986-990.

1/12/06 -

Mandy Schivell
The Inner Menace: HERV's and disease

Antony et al. (2004) "Human endogenous retrovirus glycoprotein-mediated induction of redox reactants causes oligodendrocyte death and demyelination." Nature Neuroscience 7(10):1088-1095.

Galli et al. (2005) "Human endogenous retrovirus rec interferes with germ cell development in mice and may cause carcinoma in situ, the predecessor lesion of germ cell tumors." Oncogene 24:3223-3228.

Cindy Desmarais
Science 310:5755, 1782-6 (2005)

SLC24A5, a putative cation exchanger, affects pigmentation in zebrafish and humans.

Lamason, RL, Mohideen, MA, Mest, JR, Wong, AC, Norton, HL, Aros, MC, Jurynec, MJ, Mao, X, Humphreville, VR, Humbert, JE, Sinha, S, Moore, JL, Jagadeeswaran, P, Zhao, W, Ning, G, Makalowska, I, McKeigue, PM, O'donnell, D, Kittles, R, Parra, EJ, Mangini, NJ, Grunwald, DJ, Shriver, MD, Canfield, VA and Cheng, KC

1/5/06 -

Breck Byers
W. Fischle, et al.  Nature (22/29 December 05) 438: 1116-1122.  Regulation of HP1-chromatin binding by histone H3 methylation and phosphorylation.

T. Hirota, J.J. Lipp, J.-M. Peters.  Nature (22/29 December 05) 438: 1176-1180.  Histone H3 serine 10 phosphorylation by Aurora B causes HP1 dissociation from heterochromatin.

S. Henikoff.  PNAS (12 April 05) 102: 5308-5309.  Histone modifications: Combinatorial complexity or cumulative simplicity?

Mike Hoopmann
Thomson, JM, et al. Resurrecting ancestral alcohol dehydrogenases from yeast. Nature Genetics. 37, 630-635 (2005).

12/15/05 -

Phil Green
Rifkin SA, Houle D, Kim J, White KP (2005). 'A mutation accumulation assay reveals a broad capacity for rapid evolution of gene expression'. Nature 438, 220-223.

Carlos Araya
Chen MT, & Weiss R. (2005). Artificial cell-cell communication in yeast Saccharomyces cerevisiae using signaling elements from Arabidopsis thaliana. Nature Biotechnology; Advanced Online Publication.

Levskaya A, Chevalier AA, Tabor JJ, Simpson ZB, Lavery LA, Levy M, Davidson EA, Scouras A, Ellington AD, Marcotte EM, & Voigt CA. (2005). Engineering Escherichia coli to see light. Nature 438; p441-442.

12/8/05 -

Chung-Ying Huang
Identification of SFRP1 as a Candidate Mediator of Stromal-to-Epithelial Signaling in Prostate Cancer.  Margaret S. Joesting, Steve Perrin, Brian Elenbaas, Stephen E. Fawell, Jeffrey S. Rubin, Omar E. Franco, Simon W. Hayward, Gerald R. Cunha, and Paul C. Marker. Cancer Res 2005 65: 10423-10430.
http://cancerres.aacrjournals.org/cgi/content/full/65/22/10423

Lazar Dimitrov
He CY, Pypaert M, Warren G.  Golgi Duplication in Trypanosoma brucei Requires Centrin2. Science. 2005 Nov 18;310(5751):1196-1198. Epub 2005 Oct 27.

He CY, Ho HH, Malsam J, Chalouni C, West CM, Ullu E, Toomre D, Warren G. Golgi duplication in Trypanosoma brucei.  J Cell Biol. 2004 May 10;165(3):313-21.

12/1/05 -

M. K. Raghuraman
The importance of being noisy:

Maamar H, Dubnau D. (2005) Bistability in the Bacillus subtilis K-state (competence) system requires a positive feedback loop. Mol Microbiol. 56:615-24.

Doubrovinski K, Howard M. (2005) Stochastic model for Soj relocation dynamics in Bacillus subtilis. Proc Natl Acad Sci U S A. 102:9808-13.

Jon Bleyhl
"Sequence variants in SLITRK1 are associated with Tourette's syndrome."   Abelson JF, Kwan KY, O'Roak BJ, Baek DY, Stillman AA, Morgan TM, Mathews CA, Pauls DL, Rasin MR, Gunel M, Davis NR, Ercan-Sencicek AG, Guez DH, Spertus JA, Leckman JF, Dure LS 4th, Kurlan R, Singer HS, Gilbert DL, Farhi A, Louvi A, Lifton RP, Sestan N, State MW

11/17/05 -

Ben Smith
Marcel Margulies, et al. "Genome sequencing in microfabricated high-density picolitre reactors".   Nature 437 , 376-380 (15 Sep 2005)

Jay Shendure, et al. "Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome".  Science, Vol 309, Issue 5741, 1728-1732, 9 September 2005

11/10/05 -

Willie Swanson
MICHAEL J. BEHE AND DAVID W. SNOKE. Simulating evolution by gene duplication of protein features that require multiple amino acid residues. Protein Science (2004), 13:2651–2664.

MICHAEL LYNCH. Simple evolutionary pathways to complex proteins. Protein Science (2005), 14:2217–2225.

11/3/05 -

Ross Centers
Chan L, Kosuri K, Endy D. Refactoring bacteriophage T7.
Molecular Systems Biology 1:1 (2005)
http://www.nature.com/msb/journal/v1/n1/full/msb4100025.html

Tian et al. Accurate multiplex gene synthesis from programmable DNA microchips.
Nature 432:1050-1054 (2005)

Brig Mecham
Tomlins SA, Rhodes DR, Perner S, Dhanasekaran SM, Mehra R, Sun XW, Varambally S, Cao X, Tchinda J, Kuefer R, Lee C, Montie JE, Shah RB, Pienta KJ, Rubin MA, Chinnaiyan AM.  Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer.
Science. 2005 Oct 28;310(5748):644-8.

10/27/05 -

Ray Monnat
Spalding et al. (2005) Retrospective birth dating of cells in humans. Cell 122:133-143.

Laura Certain
Honda H, Shimizu Y, Rutter M. No effect of MMR withdrawal on the incidence of autism: a total population study. J Child Psychol Psychiatry. 2005 Jun;46(6):572-9.

Wakefield AJ et al. Ileal-lymphoid-nodular hyperplasia, non-specific colitits, and pervasive developmental disorder in children. Lancet. 1998 Feb 28; 351(9103):637-41.

10/20/05 -

Jennifer Gogarten
PD Evans, SL Gilbert, N Mekel-Bobrov, EJ Vallender, JR Anderson, LM Vaez-Azizi, SA Tishkoff, RR Hudson, and BT Lahn (2005). Microcephalin, a Gene Regulating Brain Size, Continues to Evolve Adaptively in Humans. Science 309: 1717-1720.

N Mekel-Bobrov, SL Gilbert, PD Evans, EJ Vallender, JR Anderson, RR Hudson, SA Tishkoff, and BT Lahn (2005). Ongoing Adaptive Evolution of ASPM, a Brain Size Determinant in Homo Sapiens. Science 309: 1720-1722.

Aaron Klammer
Socolich M. et al. Evolutionary information for specifying a protein fold. Nature 437, 512-518 (2005)

Russ W. et al. Natural-like function in artificial WW domains. Nature 437, 579-583 (2005)

10/13/05 -

Joanna Kelley
Kappers, et al. Genetic Engineering of Terpenoid Metabolism Attracts Bodyguards to Arabidopsis Science, Vol 309, Issue 5743, 2070-2072 , 23 September 2005

Sara Selgrade
Watson, FL et al.  2005.
Extensive diversity of Ig-superfamily proteins in the immune system of insects.
Science Sep 16;309(5742):1874-8. Epub 2005 Aug 18.

10/6/05 -

Bill Noble
Siepel et al. "Evolutionarily conserved elements in vertebrate, insect, worm and yeast genomes." Genome Research. 15:103-1050,2005.

Karen Chisholm
Kuba et al.  (2005)  A crucial role of angiotensin converting enzyme 2 (ACE2) in SARS coronavirus-induced lung injury.  Nature Medicine (11): 875-879.

9/29/05 -

Mary-Claire King
Chimpanzee Sequencing and Analysis Consortium.
Initial sequence of the chimpanzee genome and comparison with the human genome.
Nature 437: 69-87, 2005

Carol Sibley
Wang H, Nussbaum-Wagler T, et al.  The origin of the naked grains of maize.  Nature 436, 714-19, August 4, 2005.

Jaenicke-Despres V, Buckler E, et al.  Early Allelic Selection in Maize as Revealed by Ancient DNA.  Science 302.  November 14, 2003.