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2012
RNA-SeQC: RNA-seq metrics for quality control and process optimization.Deluca, DS, Levin JZ, Sivachenko A., Fennell T., Nazaire MD, Williams C., Reich M., Winckler W., and Getz G. Bioinformatics (Oxford, England), 2012/06/01, Volume 28, Issue 11, p.1530-2, (2012) Read More / View Supplemental Materials
Abstract
A genome-wide approach accounting for body mass index identifies genetic variants influencing fasting glycemic traits and insulin resistance.Manning, AK, Hivert MF, Scott RA, Grimsby JL, Bouatia-Naji N., Chen H., Rybin D., Liu CT, Bielak LF, Prokopenko I., Amin N., Barnes D., Cadby G., Hottenga JJ, Ingelsson E., Jackson AU, Johnson T., Kanoni S., Ladenvall C., Lagou V., et al. Nature genetics, 2012/05/13, (2012) Read More / View Supplemental Materials
Abstract
Expression of the p53 Target CDIP Correlates with Sensitivity to TNFα-Induced Apoptosis in Cancer Cells.Brown-Endres, L., Schoenfeld D., Tian F., Kim HG, Namba T., Muñoz-Fontela C., Mandinova A., Aaronson SA, and Lee SW Cancer research, 2012/05/01, Volume 72, Issue 9, p.2373-82, (2012) Read More / View Supplemental Materials
Abstract
Overcoming fluconazole resistance in Candida albicans clinical isolates with tetracyclic indoles.Youngsaye, W., Dockendorff C., Vincent B., Hartland CL, Bittker JA, Dandapani S., Palmer M., Whitesell L., Lindquist S., Schreiber SL, and Munoz B. Bioorganic & medicinal chemistry letters, 2012/05/01, Volume 22, Issue 9, p.3362-5, (2012) Read More / View Supplemental Materials
Abstract
Absolute quantification of somatic DNA alterations in human cancer.Carter, SL, Cibulskis K., Helman E., McKenna A., Shen H., Zack T., Laird PW, Onofrio RC, Winckler W., Weir BA, Beroukhim R., Pellman D., Levine DA, Lander E. S., Meyerson M., and Getz G. Nature biotechnology, 2012/04/29, (2012) Read More / View Supplemental Materials
Abstract
Apolipoprotein E Genotype Predicts Hematoma Expansion in Lobar Intracerebral Hemorrhage.Brouwers, HB, Biffi A., Ayres AM, Schwab K., Cortellini L., Romero JM, Rost NS, Viswanathan A., Greenberg SM, Rosand J., and Goldstein JN Stroke; a journal of cerebral circulation, 2012/04/24, (2012) Read More / View Supplemental Materials
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Autophagy and the immune system.Kuballa, P., Nolte WM, Castoreno AB, and Xavier RJ Annual review of immunology, 2012/04/23, Volume 30, p.611-46, (2012) Read More / View Supplemental Materials
Abstract
Sex-specific influence of DRD2 on ADHD-type temperament in a large population-based birth cohort.Nyman, ES, Loukola A., Varilo T., Taanila A., Hurtig T., Moilanen I., Loo S., McGough JJ, Järvelin MR, Smalley SL, Nelson SF, and Peltonen L. Psychiatric genetics, 2012/04/23, (2012) Read More / View Supplemental Materials
Abstract
Not lost in translation: stepwise regulation of microRNA targets.Janas, MM, and Novina CD The EMBO journal, 2012/04/20, (2012) Read More / View Supplemental Materials
Chemical Genomics Identifies Small-Molecule MCL1 Repressors and BCL-xL as a Predictor of MCL1 Dependency.Wei, G., Margolin AA, Haery L., Brown E., Cucolo L., Julian B., Shehata S., Kung AL, Beroukhim R., and Golub T. R. Cancer cell, 2012/04/17, Volume 21, Issue 4, p.547-62, (2012) Read More / View Supplemental Materials
Abstract
INRICH: Interval-based Enrichment Analysis for Genome Wide Association Studies.Lee, PH, O'Dushlaine C., Thomas B., and Purcell SM Bioinformatics (Oxford, England), 2012/04/17, (2012) Read More / View Supplemental Materials
Abstract
RNA signatures allow rapid identification of pathogens and antibiotic susceptibilities.Barczak, AK, Gomez JE, Kaufmann BB, Hinson ER, Cosimi L., Borowsky ML, Onderdonk AB, Stanley SA, Kaur D., Bryant KF, Knipe DM, Sloutsky A., and Hung DT Proceedings of the National Academy of Sciences of the United States of America, 2012/04/17, Volume 109, Issue 16, p.6217-22, (2012) Read More / View Supplemental Materials
Abstract
pIRS: Profile based Illumina pair-end Reads Simulator.Hu, X., Yuan J., Shi Y., Lu J., Liu B., Li Z., Chen Y., Mu D., Zhang H., Li N., Yue Z., Bai F., Li H., and An WF Bioinformatics (Oxford, England), 2012/04/15, (2012) Read More / View Supplemental Materials
Abstract
Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.Udeshi, ND, Mani D. R., Eisenhaure T., Mertins P., Jaffe JD, Clauser KR, Hacohen N., and Carr SA Molecular & cellular proteomics : MCP, 2012/04/14, (2012) Read More / View Supplemental Materials
Abstract
Fast and accurate inference of local ancestry in Latino populations.Baran, Y., Pasaniuc B., Sankararaman S., Torgerson DG, Gignoux C., Eng C., Rodriguez-Cintron W., Chapela R., Ford JG, Avila PC, Rodriguez-Santana J., Burchard EG, and Halperin E. Bioinformatics (Oxford, England), 2012/04/11, (2012) Read More / View Supplemental Materials
Abstract
Alzheimer Disease Susceptibility Loci: Evidence for a Protein Network under Natural Selection.Raj, T., Shulman JM, Keenan BT, Chibnik LB, Evans DA, Bennett DA, Stranger BE, and De Jager PL American journal of human genetics, 2012/04/06, Volume 90, Issue 4, p.720-6, (2012) Read More / View Supplemental Materials
Abstract
The genomic basis of adaptive evolution in threespine sticklebacks.Jones, FC, Grabherr MG, Chan YF, Russell P., Mauceli E., Johnson J., Swofford R., Pirun M., Zody MC, White S., Birney E., Searle S., Schmutz J., Grimwood J., Dickson MC, Myers RM, Miller CT, Summers BR, Knecht AK, Brady SD, et al. Nature, 2012/04/04, Volume 484, Issue 7392, p.55-61, (2012) Read More / View Supplemental Materials
Abstract
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.Barretina, J., Caponigro G., Stransky N., Venkatesan K., Margolin AA, Kim S., Wilson CJ, Lehár J., Kryukov GV, Sonkin D., Reddy A., Liu M., Murray L., Berger MF, Monahan JE, Morais P., Meltzer J., Korejwa A., Jané-Valbuena J., Mapa FA, et al. Nature, 2012/03/28, Volume 483, Issue 7391, p.603-7, (2012) Read More / View Supplemental Materials
Abstract
A unique regulatory phase of DNA methylation in the early mammalian embryo.Smith, ZD, Chan MM, Mikkelsen TS, Gu H., Gnirke A., Regev A., and Meissner A. Nature, 2012/03/28, Volume 484, Issue 7394, p.339-44, (2012) Read More / View Supplemental Materials
Abstract
Bayesian inference analyses of the polygenic architecture of rheumatoid arthritis.Stahl, EA, Wegmann D., Trynka G., Gutierrez-Achury J., Do R., Voight BF, Kraft P., Chen R., Kallberg HJ, Kurreeman FA, Diabetes Genetics Replication and Meta-analysis Consortium, Myocardial Infarction Genetics Consortium, Kathiresan S., Wijmenga C., Gregersen PK, Alfredsson L., Siminovitch KA, Worthington J., de Bakker PI, Raychaudhuri S., et al. Nature genetics, 2012/03/25, (2012) Read More / View Supplemental Materials
Abstract
Rapid, field-deployable method for genotyping and discovery of drug-resistance single nucleotide polymorphisms in Plasmodium falciparum.Daniels, R., Ndiaye D., Wall M., McKinney J., Séne PD, Sabeti PC, Volkman SK, Mboup S., and Wirth DF Antimicrobial agents and chemotherapy, 2012/03/19, (2012) Read More / View Supplemental Materials
Abstract
Genetics of human cardiovascular disease.Kathiresan, S., and Srivastava D. Cell, 2012/03/16, Volume 148, Issue 6, p.1242-57, (2012) Read More / View Supplemental Materials
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Discovery of 1,3-Diaminobenzenes as Selective Inhibitors of Platelet Activation at the PAR1 Receptor.Dockendorff, C., Aisiku O., VerPlank L., Dilks JR, Smith DA, Gunnink SF, Dowal L., Negri J., Palmer M., Macpherson L., Schreiber SL, and Flaumenhaft R. ACS medicinal chemistry letters, 2012/03/08, Volume 3, Issue 3, p.232-237, (2012) Read More / View Supplemental Materials
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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks.Trapnell, C., Roberts A., Goff L., Pertea G., Kim D., Kelley DR, Pimentel H., Salzberg SL, Rinn JL, and Pachter L. Nature protocols, 2012/03/01, Volume 7, Issue 3, p.562-78, (2012) Read More / View Supplemental Materials
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Genome-wide association studies of schizophrenia: does bigger lead to better results?Bergen, SE, and Petryshen TL Current opinion in psychiatry, 2012/03/01, Volume 25, Issue 2, p.76-82, (2012) Read More / View Supplemental Materials
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Highly sensitive and specific detection of rare variants in mixed viral populations from massively parallel sequence data.Macalalad, AR, Zody MC, Charlebois P., Lennon NJ, Newman RM, Malboeuf CM, Ryan EM, Boutwell CL, Power KA, Brackney DE, Pesko KN, Levin JZ, Ebel GD, Allen TM, Birren BW, and Henn MR PLoS computational biology, 2012/03/01, Volume 8, Issue 3, p.e1002417, (2012) Read More / View Supplemental Materials
Abstract
An epigenetic blockade of cognitive functions in the neurodegenerating brain.Gräff, J., Rei D., Guan JS, Wang WY, Seo J., Hennig KM, Nieland TJ, Fass DM, Kao PF, Kahn M., Su SC, Samiei A., Joseph N., Haggarty SJ, Delalle I., and Tsai LH Nature, 2012/02/29, (2012) Read More / View Supplemental Materials
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Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay.Melnikov, A., Murugan A., Zhang X., Tesileanu T., Wang L., Rogov P., Feizi S., Gnirke A., Callan CG Jr, Kinney JB, Kellis M., Lander E. S., and Mikkelsen TS Nature biotechnology, 2012/02/26, Volume 30, Issue 3, p.271-7, (2012) Read More / View Supplemental Materials
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Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011.Grad, YH, Lipsitch M., Feldgarden M., Arachchi HM, Cerqueira GC, FitzGerald M., Godfrey P., Haas BJ, Murphy CI, Russ C., Sykes S., Walker BJ, Wortman JR, Young S., Zeng Q., Abouelleil A., Bochicchio J., Chauvin S., Desmet T., Gujja S., et al. Proceedings of the National Academy of Sciences of the United States of America, 2012/02/21, Volume 109, Issue 8, p.3065-70, (2012) Read More / View Supplemental Materials
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STK33 kinase inhibitor BRD-8899 has no effect on KRAS-dependent cancer cell viability.Luo, T., Masson K., Jaffe JD, Silkworth W., Ross NT, Scherer CA, Scholl C., Fröhling S., Carr SA, Stern AM, Schreiber SL, and Golub T. R. Proceedings of the National Academy of Sciences of the United States of America, 2012/02/21, Volume 109, Issue 8, p.2860-5, (2012) Read More / View Supplemental Materials
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Development of small-molecule probes that selectively kill cells induced to express mutant RAS.Weïwer, M., Bittker JA, Lewis TA, Shimada K., Yang WS, Macpherson L., Dandapani S., Palmer M., Stockwell BR, Schreiber SL, and Munoz B. Bioorganic & medicinal chemistry letters, 2012/02/15, Volume 22, Issue 4, p.1822-6, (2012) Read More / View Supplemental Materials
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Modular regulatory principles of large non-coding RNAs.Guttman, M., and Rinn JL Nature, 2012/02/15, Volume 482, Issue 7385, p.339-46, (2012) Read More / View Supplemental Materials
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Build/Couple/Pair Strategy for the Synthesis of Stereochemically Diverse Macrolactams via Head-to-Tail Cyclization.Fitzgerald, ME, Mulrooney CA, Duvall JR, Wei J., Suh BC, Akella LB, Vrcic A., and Marcaurelle LA ACS combinatorial science, 2012/02/13, Volume 14, Issue 2, p.89-96, (2012) Read More / View Supplemental Materials
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Diversity-Oriented Synthesis Yields a Novel Lead for the Treatment of Malaria.Heidebrecht RW, Jr, Mulrooney C., Austin CP, Barker RH Jr, Beaudoin JA, Cheng KC, Comer E., Dandapani S., Dick J., Duvall JR, Ekland EH, Fidock DA, Fitzgerald ME, Foley M., Guha R., Hinkson P., Kramer M., Lukens AK, Masi D., Marcaurelle LA, et al. ACS medicinal chemistry letters, 2012/02/09, Volume 3, Issue 2, p.112-117, (2012) Read More / View Supplemental Materials
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RNA folding with soft constraints: reconciliation of probing data and thermodynamic secondary structure prediction.Washietl, S., Hofacker IL, Stadler PF, and Kellis M. Nucleic acids research, 2012/01/28, (2012) Read More / View Supplemental Materials
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The mystery of missing heritability: Genetic interactions create phantom heritability.Zuk, O., Hechter E., Sunyaev SR, and Lander E. S. Proceedings of the National Academy of Sciences of the United States of America, 2012/01/24, Volume 109, Issue 4, p.1193-8, (2012) Read More / View Supplemental Materials
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Human evolutionary genomics: ethical and interpretive issues.Vitti, JJ, Cho MK, Tishkoff SA, and Sabeti PC Trends in genetics : TIG, 2012/01/20, (2012) Read More / View Supplemental Materials
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Genetic variation at CR1 increases risk of cerebral amyloid angiopathy.Biffi, A., Shulman JM, Jagiella JM, Cortellini L., Ayres AM, Schwab K., Brown DL, Silliman SL, Selim M., Worrall BB, Meschia JF, Slowik A., De Jager PL, Greenberg SM, Schneider JA, Bennett DA, and Rosand J. Neurology, 2012/01/18, (2012) Read More / View Supplemental Materials
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High-throughput real-time PCR for detection of gene-expression levels.Wagner, BK, and Arany Z. Methods in molecular biology (Clifton, N.J.), 2012/01/09, Volume 486, p.167-75, (2012) Read More / View Supplemental Materials
Abstract
Identification of small molecules that selectively inhibit streptokinase expression without suppression of viability in Group A streptococci - Probe 3An, WF, Metkar SR, Youngsaye W., Nag PP, Hartland CL, Barker D., Perez JR, Sun H., Macpherson L., Palmer M., and Schreiber SL, 2012/01/09, (2012) Read More / View Supplemental Materials
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Identifying cellular targets of small-molecule probes and drugs with biochemical enrichment and SILAC.Ong, SE, Li X., Schenone M., Schreiber SL, and Carr SA Methods in molecular biology (Clifton, N.J.), 2012/01/09, Volume 803, p.129-40, (2012) Read More / View Supplemental Materials
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Stable isotope labeling by amino acids in cell culture for quantitative proteomics.Ong, SE, and Mann M. Methods in molecular biology (Clifton, N.J.), 2012/01/06, Volume 359, p.37-52, (2012) Read More / View Supplemental Materials
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A Chemical Screen Probing the Relationship between Mitochondrial Content and Cell Size.Kitami, T., Logan DJ, Negri J., Hasaka T., Tolliday NJ, Carpenter AE, Spiegelman BM, and Mootha VK PloS one, 2012/01/01, Volume 7, Issue 3, p.e33755, (2012) Read More / View Supplemental Materials
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GW8510 increases insulin expression in pancreatic alpha cells through activation of p53 transcriptional activity.Fomina-Yadlin, D., Kubicek S., Vetere A., He KH, Schreiber SL, and Wagner BK PloS one, 2012/01/01, Volume 7, Issue 1, p.e28808, (2012) Read More / View Supplemental Materials
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High-resolution analysis of intrahost genetic diversity in dengue virus serotype 1 infection identifies mixed infections.Thai, KT, Henn MR, Zody MC, Tricou V., Nguyet NM, Charlebois P., Lennon NJ, Green L., de Vries PJ, Hien TT, Farrar J., van Doorn HR, de Jong MD, Birren BW, Holmes EC, and Simmons CP Journal of virology, 2012/01/01, Volume 86, Issue 2, p.835-43, (2012) Read More / View Supplemental Materials
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Independent Large Scale Duplications in Multiple M. tuberculosis Lineages Overlapping the Same Genomic Region.Weiner, B., Gomez J., Victor TC, Warren RM, Sloutsky A., Plikaytis BB, Posey JE, van Helden PD, Gey van Pittius NC, Koehrsen M., Sisk P., Stolte C., White J., Gagneux S., Birren B., Hung D., Murray M., and Galagan J. PloS one, 2012/01/01, Volume 7, Issue 2, p.e26038, (2012) Read More / View Supplemental Materials
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Points of view: Data exploration.Shoresh, N., and Wong B. Nature methods, 2012/01/01, Volume 9, Issue 1, p.5, (2012) Read More / View Supplemental Materials
Quantitative assessment of ChIP-grade antbodies directed against histone modifications reveals patterns of co-occurring marks on histone protein moleculesPeach, Sally E., Rudomin Emily L., Udeshi Namrata D., Carr Steven A., and Jaffe Jacob D. Molecular & Cellular Proteomics, (2012) Read More / View Supplemental Materials
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2011
iTRAQ labeling is superior to mTRAQ for quantitative global proteomics and phosphoproteomics.Mertins, P., Udeshi ND, Clauser KR, Mani D. R., Patel J., Ong SE, Jaffe JD, and Carr SA Molecular & cellular proteomics : MCP, 2011/12/30, (2011) Read More / View Supplemental Materials
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SF3B1 and other novel cancer genes in chronic lymphocytic leukemia.Wang, L., Lawrence MS, Wan Y., Stojanov P., Sougnez C., Stevenson K., Werner L., Sivachenko A., Deluca DS, Zhang L., Zhang W., Vartanov AR, Fernandes SM, Goldstein NR, Folco EG, Cibulskis K., Tesar B., Sievers QL, Shefler E., Gabriel S., et al. The New England journal of medicine, 2011/12/29, Volume 365, Issue 26, p.2497-506, (2011) Read More / View Supplemental Materials
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Unbiased binding assays for discovering small-molecule probes and drugs.Kemp, MM, Weïwer M., and Koehler AN Bioorganic & medicinal chemistry, 2011/12/24, (2011) Read More / View Supplemental Materials
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Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells.Ram, O., Goren A., Amit I., Shoresh N., Yosef N., Ernst J., Kellis M., Gymrek M., Issner R., Coyne M., Durham T., Zhang X., Donaghey J., Epstein CB, Regev A., and Bernstein BE Cell, 2011/12/23, Volume 147, Issue 7, p.1628-39, (2011) Read More / View Supplemental Materials
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Identification and Validation of Tetracyclic Benzothiazepines as Plasmodium falciparum Cytochrome bc(1) Inhibitors.Urgaonkar, S., Cortese JF, Patel V., Ross L., Clish CB, Serrano AE, Cromwell M., Duraisingh MT, Wirth DF, Clardy J., and Mazitschek R. Chemistry & biology, 2011/12/23, Volume 18, Issue 12, p.1602-10, (2011) Read More / View Supplemental Materials
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The microbial opsin family of optogenetic tools.Zhang, F., Vierock J., Yizhar O., Fenno LE, Tsunoda S., Kianianmomeni A., Prigge M., Berndt A., Cushman J., Polle J., Magnuson J., Hegemann P., and Deisseroth K. Cell, 2011/12/23, Volume 147, Issue 7, p.1446-57, (2011) Read More / View Supplemental Materials
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Inter-laboratory evaluation of automated, multiplexed peptide immunoaffinity enrichment coupled to multiple reaction monitoring mass spectrometry for quantifying proteins in plasma.Kuhn, E., Whiteaker JR, Mani D. R., Jackson AM, Zhao L., Pope ME, Smith D., Rivera KD, Anderson NL, Skates SJ, Pearson TW, Paulovich AG, and Carr SA Molecular & cellular proteomics : MCP, 2011/12/22, (2011) Read More / View Supplemental Materials
Abstract
Dynamics of dengue disease severity determined by the interplay between viral genetics and serotype-specific immunity.Ohainle, M., Balmaseda A., Macalalad AR, Tellez Y., Zody MC, Saborío S., Nuñez A., Lennon NJ, Birren BW, Gordon A., Henn MR, and Harris E. Science translational medicine, 2011/12/21, Volume 3, Issue 114, p.114ra128, (2011) Read More / View Supplemental Materials
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Detecting novel associations in large data sets.Reshef, DN, Reshef YA, Finucane HK, Grossman SR, McVean G., Turnbaugh PJ, Lander E. S., Mitzenmacher M., and Sabeti PC Science (New York, N.Y.), 2011/12/16, Volume 334, Issue 6062, p.1518-24, (2011) Read More / View Supplemental Materials
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Experimental and analytical tools for studying the human microbiome.Kuczynski, J., Lauber CL, Walters WA, Parfrey LW, Clemente JC, Gevers D., and Knight R. Nature reviews. Genetics, 2011/12/16, Volume 13, Issue 1, p.47-58, (2011) Read More / View Supplemental Materials
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Glioblastoma-Derived Epidermal Growth Factor Receptor Carboxyl-Terminal Deletion Mutants Are Transforming and Are Sensitive to EGFR-Directed Therapies.Cho, J., Pastorino S., Zeng Q., Xu X., Johnson W., Vandenberg S., Verhaak R., Cherniack AD, Watanabe H., Dutt A., Kwon J., Chao YS, Onofrio RC, Chiang D., Yuza Y., Kesari S., and Meyerson M. Cancer research, 2011/12/15, Volume 71, Issue 24, p.7587-96, (2011) Read More / View Supplemental Materials
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Application of genomics to field investigations of malaria by the international centers of excellence for malaria research.Volkman, SK, Ndiaye D., Diakite M., Koita OA, Nwakanma D., Daniels RF, Park DJ, Neafsey DE, Muskavitch MA, Krogstad DJ, Sabeti PC, Hartl DL, and Wirth DF Acta tropica, 2011/12/13, (2011) Read More / View Supplemental Materials
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Genome-wide Association of Copy-Number Variation Reveals an Association between Short Stature and the Presence of Low-Frequency Genomic Deletions.Dauber, A., Yu Y., Turchin MC, Chiang CW, Meng YA, Demerath EW, Patel SR, Rich SS, Rotter JI, Schreiner PJ, Wilson JG, Shen Y., Wu BL, and Hirschhorn JN American journal of human genetics, 2011/12/09, Volume 89, Issue 6, p.751-9, (2011) Read More / View Supplemental Materials
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The matrisome: in silico definition and in vivo characterization by proteomics of normal and tumor extracellular matrices.Naba, A., Clauser KR, Hoersch S., Liu H., Carr SA, and Hynes R. O. Molecular & cellular proteomics : MCP, 2011/12/09, (2011) Read More / View Supplemental Materials
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The changing face of genomics.Kellis, M. Genome biology, 2011/12/08, Volume 5, Issue 5, p.324, (2011) Read More / View Supplemental Materials
Chemical genomics: probing protein function using small molecules.Wagner, BK, Haggarty SJ, and Clemons PA American journal of pharmacogenomics : genomics-related research in drug development and clinical practice, 2011/12/08, Volume 4, Issue 5, p.313-20, (2011) Read More / View Supplemental Materials
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Chromosome substitution strains: a new way to study genetically complex traits.Hill, AE, Lander E. S., and Nadeau JH Methods in molecular medicine, 2011/12/08, Volume 128, p.153-72, (2011) Read More / View Supplemental Materials
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Disease gene discovery through integrative genomics.Giallourakis, C., Henson C., Reich M., Xie X., and Mootha VK Annual review of genomics and human genetics, 2011/12/08, Volume 6, p.381-406, (2011) Read More / View Supplemental Materials
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Global nucleosome occupancy in yeast.Bernstein, BE, Liu CL, Humphrey EL, Perlstein EO, and Schreiber SL Genome biology, 2011/12/08, Volume 5, Issue 9, p.R62, (2011) Read More / View Supplemental Materials
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Large-scale discovery and validation of functional elements in the human genome.Bernstein, BE, and Kellis M. Genome biology, 2011/12/08, Volume 6, Issue 3, p.312, (2011) Read More / View Supplemental Materials
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A method for high-throughput gene expression signature analysis.Peck, D., Crawford ED, Ross KN, Stegmaier K., Golub T. R., and Lamb J. Genome biology, 2011/12/08, Volume 7, Issue 7, p.R61, (2011) Read More / View Supplemental Materials
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Methods in comparative genomics: genome correspondence, gene identification and regulatory motif discovery.Kellis, M., Patterson N., Birren B., Berger B., and Lander E. S. Journal of computational biology : a journal of computational molecular cell biology, 2011/12/08, Volume 11, Issue 2-3, p.319-55, (2011) Read More / View Supplemental Materials
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Progress towards identifying inflammatory bowel disease susceptibility genes.Rioux, JD Novartis Foundation symposium, 2011/12/08, Volume 263, p.3-11; discussion 11-6, 211-8, (2011) Read More / View Supplemental Materials
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Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis.Meissner, A., Gnirke A., Bell GW, Ramsahoye B., Lander E. S., and Jaenisch R. Nucleic acids research, 2011/12/08, Volume 33, Issue 18, p.5868-77, (2011) Read More / View Supplemental Materials
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Transferability of tag SNPs to capture common genetic variation in DNA repair genes across multiple populations.de Bakker, PI, Graham RR, Altshuler D., Henderson BE, and Haiman CA Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 2011/12/08, p.478-86, (2011) Read More / View Supplemental Materials
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The use of chromatin immunoprecipitation assays in genome-wide analyses of histone modifications.Bernstein, BE, Humphrey EL, Liu CL, and Schreiber SL Methods in enzymology, 2011/12/08, Volume 376, p.349-60, (2011) Read More / View Supplemental Materials
What makes us human?Mikkelsen, TS Genome biology, 2011/12/08, Volume 5, Issue 8, p.238, (2011) Read More / View Supplemental Materials
Abstract
A Human Islet Cell Culture System for High-Throughput Screening.Walpita, D., Hasaka T., Spoonamore J., Vetere A., Takane KK, Fomina-Yadlin D., Fiaschi-Taesch N., Shamji A., Clemons PA, Stewart AF, Schreiber SL, and Wagner BK Journal of biomolecular screening, 2011/12/07, (2011) Read More / View Supplemental Materials
Abstract
Amplification of CRKL Induces Transformation and Epidermal Growth Factor Receptor Inhibitor Resistance in Human Non-Small Cell Lung Cancers.Cheung, HW, Du J., Boehm JS, He F., Weir BA, Wang X., Butaney M., Sequist LV, Luo B., Engelman JA, Root DE, Meyerson M., Golub T. R., Jänne PA, and Hahn WC Cancer discovery, 2011/12/01, Volume 1, Issue 7, p.608-25, (2011) Read More / View Supplemental Materials
Abstract
Genome-wide meta-analysis identifies novel multiple sclerosis susceptibility loci.Patsopoulos, NA, the Bayer Pharma MS Genetics Working Group, the Steering Committees of Studies Evaluating IFNβ-1b and a CCR1-Antagonist ANZgene, and de Bakker PI Annals of neurology, 2011/12/01, Volume 70, Issue 6, p.897-912, (2011) Read More / View Supplemental Materials
Abstract
Genomic distribution and inter-sample variation of non-CpG methylation across human cell types.Ziller, MJ, Müller F., Liao J., Zhang Y., Gu H., Bock C., Boyle P., Epstein CB, Bernstein BE, Lengauer T., Gnirke A., and Meissner A. PLoS genetics, 2011/12/01, Volume 7, Issue 12, p.e1002389, (2011) Read More / View Supplemental Materials
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Identification of small-molecule inhibitors of Trypansoma cruzi replication.Germain, AR, Carmody LC, Dockendorff C., Galan-Rodriguez C., Rodriguez A., Johnston S., Bittker JA, Macpherson L., Dandapani S., Palmer M., Schreiber SL, and Munoz B. Bioorganic & medicinal chemistry letters, 2011/12/01, Volume 21, Issue 23, p.7197-200, (2011) Read More / View Supplemental Materials
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A phylogenetic analysis using full-length viral genomes of South American dengue serotype 3 in consecutive Venezuelan outbreaks reveals a novel NS5 mutation.Schmidt, DJ, Pickett BE, Camacho D., Comach G., Xhaja K., Lennon NJ, Rizzolo K., de Bosch N., Becerra A., Nogueira ML, Mondini A., da Silva EV, Vasconcelos PF, Muñoz-Jordán JL, Santiago GA, Ocazionez R., Gehrke L., Lefkowitz EJ, Birren BW, Henn MR, et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases, 2011/12/01, Volume 11, Issue 8, p.2011-9, (2011) Read More / View Supplemental Materials
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Visualization of parameter space for image analysis.Pretorius, AJ, Bray MA, Carpenter AE, and Ruddle RA IEEE transactions on visualization and computer graphics, 2011/12/01, Volume 17, Issue 12, p.2402-11, (2011) Read More / View Supplemental Materials
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What can genetic studies of left ventricular mass tell us?Newton-Cheh, C. Circulation. Cardiovascular genetics, 2011/12/01, Volume 4, Issue 6, p.581-4, (2011) Read More / View Supplemental Materials
The CETP I405V polymorphism is associated with an increased risk of Alzheimer's disease.Yu, L., Shulman JM, Chibnik L., Leurgans S., Schneider JA, De Jager PL, and Bennett DA Aging cell, 2011/11/28, (2011) Read More / View Supplemental Materials
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Genetic Defect in CYP24A1, the Vitamin D 24-Hydroxylase Gene, in a Patient with Severe Infantile Hypercalcemia.Dauber, A., Nguyen TT, Sochett E., Cole DE, Horst R., Abrams SA, Carpenter TO, and Hirschhorn JN The Journal of clinical endocrinology and metabolism, 2011/11/23, (2011) Read More / View Supplemental Materials
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Low Plasma Level of Atrial Natriuretic Peptide Predicts Development of Diabetes: The Prospective Malmo Diet and Cancer Study.Magnusson, M., Jujic A., Hedblad B., Engström G., Persson M., Struck J., Morgenthaler NG, Nilsson P., Newton-Cheh C., Wang TJ, and Melander O. The Journal of clinical endocrinology and metabolism, 2011/11/23, (2011) Read More / View Supplemental Materials
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PAK1 is a breast cancer oncogene that coordinately activates MAPK and MET signaling.Shrestha, Y., Schafer EJ, Boehm JS, Thomas SR, He F., Du J., Wang S., Barretina J., Weir BA, Zhao JJ, Polyak K., Golub T. R., Beroukhim R., and Hahn WC Oncogene, 2011/11/21, (2011) Read More / View Supplemental Materials
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GenomeView: a next-generation genome browser.Abeel, T., Van Parys T., Saeys Y., Galagan J., and Van de Peer Y. Nucleic acids research, 2011/11/18, (2011) Read More / View Supplemental Materials
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Strategies to discover regulatory circuits of the mammalian immune system.Amit, I., Regev A., and Hacohen N. Nature reviews. Immunology, 2011/11/18, Volume 11, Issue 12, p.873-80, (2011) Read More / View Supplemental Materials
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Common DISC1 Polymorphisms Disrupt Wnt/GSK3β Signaling and Brain Development.Singh, KK, De Rienzo G., Drane L., Mao Y., Flood Z., Madison J., Ferreira M., Bergen S., King C., Sklar P., Sive H., and Tsai LH Neuron, 2011/11/17, Volume 72, Issue 4, p.545-58, (2011) Read More / View Supplemental Materials
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Systematic discovery of TLR signaling components delineates viral-sensing circuits.Chevrier, N., Mertins P., Artyomov MN, Shalek AK, Iannacone M., Ciaccio MF, Gat-Viks I., Tonti E., Degrace MM, Clauser KR, Garber M., Eisenhaure TM, Yosef N., Robinson J., Sutton A., Andersen MS, Root DE, von Andrian U., Jones RB, Park H., et al. Cell, 2011/11/11, Volume 147, Issue 4, p.853-67, (2011) Read More / View Supplemental Materials
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RAS Mutations Are Associated With the Development of Cutaneous Squamous Cell Tumors in Patients Treated With RAF Inhibitors.Oberholzer, PA, Kee D., Dziunycz P., Sucker A., Kamsukom N., Jones R., Roden C., Chalk CJ, Ardlie K., Palescandolo E., Piris A., Macconaill LE, Robert C., Hofbauer GF, McArthur GA, Schadendorf D., and Garraway LA Journal of clinical oncology : official journal of the American Society of Clinical Oncology, 2011/11/07, (2011) Read More / View Supplemental Materials
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Comprehensive proteomic study identifies serpin and cystatin antiproteases as novel correlates of HIV-1 resistance in the cervicovaginal mucosa of female sex workers.Burgener, A., Rahman S., Ahmad R., Lajoie J., Ramdahin S., Mesa C., Brunet S., Wachihi C., Kimani J., Fowke K., Carr S., Plummer F., and Ball TB Journal of proteome research, 2011/11/04, Volume 10, Issue 11, p.5139-49, (2011) Read More / View Supplemental Materials
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Guiding DNA methylation.Meissner, A. Cell stem cell, 2011/11/04, Volume 9, Issue 5, p.388-90, (2011) Read More / View Supplemental Materials
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A genome-wide scan for common variants affecting the rate of age-related cognitive decline.De Jager, PL, Shulman JM, Chibnik LB, Keenan BT, Raj T., Wilson RS, Yu L., Leurgans SE, Tran D., Aubin C., Anderson CD, Biffi A., Corneveaux JJ, Huentelman MJ, Alzheimer's Disease Neuroimaging Initiative, Rosand J., Daly M. J., Myers AJ, Reiman EM, Bennett DA, et al. Neurobiology of aging, 2011/11/03, (2011) Read More / View Supplemental Materials
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Synaptic Deficits Are Rescued in the p25/Cdk5 Model of Neurodegeneration by the Reduction of β-Secretase (BACE1).Giusti-Rodríguez, P., Gao J., Gräff J., Rei D., Soda T., and Tsai LH The Journal of neuroscience : the official journal of the Society for Neuroscience, 2011/11/02, Volume 31, Issue 44, p.15751-6, (2011) Read More / View Supplemental Materials
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Unfolding neurodevelopmental disorders: found in translation.Ting, JT, and Feng G. Nature medicine, 2011/11/02, Volume 17, Issue 11, p.1352-3, (2011) Read More / View Supplemental Materials
Distribution Pattern of Plasmodium falciparum Chloroquine Transporter (pfcrt) Gene Haplotypes in Sri Lanka 1996-2006.Zhang, JJ, Senaratne TN, Daniels R., Valim C., Alifrangis M., Amerasinghe P., Konradsen F., Rajakaruna R., Wirth DF, and Karunaweera ND The American journal of tropical medicine and hygiene, 2011/11/01, Volume 85, Issue 5, p.811-4, (2011) Read More / View Supplemental Materials
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Evolutionary divergence of intrinsic and trans-regulated nucleosome positioning sequences reveals plastic rules for chromatin organization.Tsankov, A., Yanagisawa Y., Rhind N., Regev A., and Rando OJ Genome research, 2011/11/01, Volume 21, Issue 11, p.1851-62, (2011) Read More / View Supplemental Materials
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Master Data Management: Getting your House in Order.Seiler, KP, Bodycombe NE, Hawkins T., Shell R., Lemon A., Souza A., and Clemons PA Combinatorial chemistry & high throughput screening, 2011/11/01, Volume 14, Issue 9, p.749-56, (2011) Read More / View Supplemental Materials
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