Recent Broad Publications

A Dietary Regimen of Caloric Restriction or Pharmacological Activation of SIRT1 to Delay the Onset of Neurodegeneration.
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Synthesis of Stereochemically and Skeletally Diverse Fused Ring Systems from Functionalized C-Glycosides.
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RhoGTPases - NODes for effector-triggered immunity in animals.
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Comparative analysis of RNA sequencing methods for degraded or low-input samples.
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Small-Molecule Inhibitors of Cytokine-Mediated STAT1 Signal Transduction in β-Cells with Improved Aqueous Solubility.
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Scientific Publications

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2012

Integrative annotation of chromatin elements from ENCODE data.Hoffman, MM, Ernst J., Wilder SP, Kundaje A., Harris RS, Libbrecht M., Giardine B., Ellenbogen PM, Bilmes JA, Birney E., Hardison RC, Dunham I., Kellis M., and Noble WS Nucleic acids research, 2012/12/05, (2012) Read More / View Supplemental Materials

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

2011

A high-resolution map of human evolutionary constraint using 29 mammals.Lindblad-Toh, K., Garber M., Zuk O., Lin MF, Parker BJ, Washietl S., Kheradpour P., Ernst J., Jordan G., Mauceli E., Ward LD, Lowe CB, Holloway AK, Clamp M., Gnerre S., Alföldi J., Beal K., Chang J., Clawson H., Cuff J., et al. Nature, 2011/10/12, Volume 478, Issue 7370, p.476-82, (2011) Read More / View Supplemental Materials

2010

A draft sequence of the Neandertal genome.Green, RE, Krause J., Briggs AW, Maricic T., Stenzel U., Kircher M., Patterson N., Li H., Zhai W., Fritz MH, Hansen NF, Durand EY, Malaspinas AS, Jensen JD, Marques-Bonet T., Alkan C., Prüfer K., Meyer M., Burbano HA, Good JM, et al. Science (New York, N.Y.), 2010/05/07, Volume 328, Issue 5979, p.710-22, (2010) Read More / View Supplemental Materials

International network of cancer genome projects.International Cancer Genome, Consortium, Hudson T. J., Anderson W., Artez A., Barker AD, Bell C., Bernabé RR, Bhan MK, Calvo F., Eerola I., Gerhard DS, Guttmacher A., Guyer M., Hemsley FM, Jennings JL, Kerr D., Klatt P., Kolar P., Kusada J., Lane DP, et al. Nature, 2010/04/15, Volume 464, Issue 7291, p.993-8, (2010) Read More / View Supplemental Materials

2007

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.ENCODE Project, Consortium, Birney E., Stamatoyannopoulos JA, Dutta A., Guigó R., Gingeras TR, Margulies EH, Weng Z., Snyder M., Dermitzakis ET, Thurman RE, Kuehn MS, Taylor CM, Neph S., Koch CM, Asthana S., Malhotra A., Adzhubei I., Greenbaum JA, Andrews RM, et al. Nature, 2007/06/14, Volume 447, Issue 7146, p.799-816, (2007) Read More / View Supplemental Materials

Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.Margulies, EH, Cooper GM, Asimenos G., Thomas DJ, Dewey CN, Siepel A., Birney E., Keefe D., Schwartz AS, Hou M., Taylor J., Nikolaev S., Montoya-Burgos JI, Löytynoja A., Whelan S., Pardi F., Massingham T., Brown JB, Bickel P., Holmes I., et al. Genome research, 2007/06/01, Volume 17, Issue 6, p.760-74, (2007) Read More / View Supplemental Materials