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Papers authored by Lander ES

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Genome sequence, comparative analysis, and population genetics of the domestic horse.

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Wade CM, Giulotto E, Sigurdsson S, Zoli M, Gnerre S, Imsland F, Lear TL, Adelson DL, Bailey E, Bellone RR, Blöcker H, Distl O, Edgar RC, Garber M, Leeb T, Mauceli E,

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Science (New York, N.Y.) 326(5954):865-7, 2009 Nov 6 - Who cited this? | PubMed ID: 19892987 | Fulltext

Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1.

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Barbie DA, Tamayo P, Boehm JS, Kim SY, Moody SE, Dunn IF, Schinzel AC, Sandy P, Meylan E, Scholl C, Fröhling S, Chan EM, Sos ML, Michel K, Mermel C, Silver SJ,

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Nature 462(7269):108-12, 2009 Nov 5 - Who cited this? | PubMed ID: 19847166 | Fulltext

Comprehensive mapping of long-range interactions reveals folding principles of the human genome.

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Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO, Sandstrom R, Bernstein B, Bender MA, Groudine M, Gnirke A, Stamatoyannopoulos J,

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Science (New York, N.Y.) 326(5950):289-93, 2009 Oct 9 - Who cited this? | PubMed ID: 19815776 | Fulltext

Identification of selective inhibitors of cancer stem cells by high-throughput screening.

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Gupta PB, Onder TT, Jiang G, Tao K, Kuperwasser C, Weinberg RA, and Lander ES

Cell 138(4):645-59, 2009 Aug 21 - Who cited this? | PubMed ID: 19682730 | Fulltext

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression.

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Khalil AM, Guttman M, Huarte M, Garber M, Raj A, Rivea Morales D, Thomas K, Presser A, Bernstein BE, van Oudenaarden A, Regev A, Lander ES, and Rinn JL

Proceedings of the National Academy of Sciences of the United States of America 106(28):11667-72, 2009 Jul 14 - Who cited this? | PubMed ID: 19571010 | Fulltext

AKT-independent signaling downstream of oncogenic PIK3CA mutations in human cancer.

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Vasudevan KM, Barbie DA, Davies MA, Rabinovsky R, McNear CJ, Kim JJ, Hennessy BT, Tseng H, Pochanard P, Kim SY, Dunn IF, Schinzel AC, Sandy P, Hoersch S, Sheng Q, Gupta PB,

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Cancer cell 16(1):21-32, 2009 Jul 7 - Who cited this? | PubMed ID: 19573809 | Fulltext

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals.

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Guttman M, Amit I, Garber M, French C, Lin MF, Feldser D, Huarte M, Zuk O, Carey BW, Cassady JP, Cabili MN, Jaenisch R, Mikkelsen TS, Jacks T, Hacohen N, Bernstein BE,

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Nature 458(7235):223-7, 2009 Mar 12 - Who cited this? | PubMed ID: 19182780 | Fulltext

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing.

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Gnirke A, Melnikov A, Maguire J, Rogov P, LeProust EM, Brockman W, Fennell T, Giannoukos G, Fisher S, Russ C, Gabriel S, Jaffe DB, Lander ES, and Nusbaum C

Nature biotechnology 27(2):182-9, 2009 Feb - Who cited this? | PubMed ID: 19182786 | Fulltext

Sensitive, specific polymorphism discovery in bacteria using massively parallel sequencing.

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Nusbaum C, Ohsumi TK, Gomez J, Aquadro J, Victor TC, Warren RM, Hung DT, Birren BW, Lander ES, and Jaffe DB

Nature methods 6(1):67-9, 2009 Jan - Who cited this? | PubMed ID: 19079253 | Fulltext

High-resolution mapping of copy-number alterations with massively parallel sequencing.

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Chiang DY, Getz G, Jaffe DB, O'Kelly MJ, Zhao X, Carter SL, Russ C, Nusbaum C, Meyerson M, and Lander ES

Nature methods 6(1):99-103, 2009 Jan - Who cited this? | PubMed ID: 19043412 | Fulltext

Assisted assembly: how to improve a de novo genome assembly by using related species.

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Gnerre S, Lander ES, Lindblad-Toh K, and Jaffe DB

Genome biology 10(8):R88, 2009 - Who cited this? | PubMed ID: 19712469 | Fulltext

Highly parallel identification of essential genes in cancer cells.

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Luo B, Cheung HW, Subramanian A, Sharifnia T, Okamoto M, Yang X, Hinkle G, Boehm JS, Beroukhim R, Weir BA, Mermel C, Barbie DA, Awad T, Zhou X, Nguyen T, Piqani B,

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Proceedings of the National Academy of Sciences of the United States of America 105(51):20380-5, 2008 Dec 23 - Who cited this? | PubMed ID: 19091943 | Fulltext

Genetic architecture of complex traits: Large phenotypic effects and pervasive epistasis.

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Shao H, Burrage LC, Sinasac DS, Hill AE, Ernest SR, O'Brien W, Courtland HW, Jepsen KJ, Kirby A, Kulbokas EJ, Daly MJ, Broman KW, Lander ES, and Nadeau JH

Proceedings of the National Academy of Sciences of the United States of America 105(50):19910-4, 2008 Dec 16 - Who cited this? | PubMed ID: 19066216 | Fulltext

Sequencing the nuclear genome of the extinct woolly mammoth.

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Miller W, Drautz DI, Ratan A, Pusey B, Qi J, Lesk AM, Tomsho LP, Packard MD, Zhao F, Sher A, Tikhonov A, Raney B, Patterson N, Lindblad-Toh K, Lander ES, Knight JR,

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Nature 456(7220):387-90, 2008 Nov 20 - Who cited this? | PubMed ID: 19020620 | Fulltext

Genetic mapping in human disease.

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Altshuler D, Daly MJ, and Lander ES

Science (New York, N.Y.) 322(5903):881-8, 2008 Nov 7 - Who cited this? | PubMed ID: 18988837 | Fulltext

Somatic mutations affect key pathways in lung adenocarcinoma.

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Ding L, Getz G, Wheeler DA, Mardis ER, McLellan MD, Cibulskis K, Sougnez C, Greulich H, Muzny DM, Morgan MB, Fulton L, Fulton RS, Zhang Q, Wendl MC, Lawrence MS, Larson DE,

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Nature 455(7216):1069-75, 2008 Oct 23 - Who cited this? | PubMed ID: 18948947 | Fulltext

Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains.

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Ku M, Koche RP, Rheinbay E, Mendenhall EM, Endoh M, Mikkelsen TS, Presser A, Nusbaum C, Xie X, Chi AS, Adli M, Kasif S, Ptaszek LM, Cowan CA, Lander ES, Koseki H,

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PLoS genetics 4(10):e1000242, 2008 Oct - Who cited this? | PubMed ID: 18974828 | Fulltext

Comprehensive genomic characterization defines human glioblastoma genes and core pathways.

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, , McLendon R, Friedman A, Bigner D, , Van Meir EG, Brat DJ, Marie Mastrogianakis G, Olson JJ, , Mikkelsen T, Lehman N, , Aldape K, Alfred Yung WK,

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Nature, 2008 Sep 4 - Who cited this? | PubMed ID: 18772890 | Fulltext

Dissecting direct reprogramming through integrative genomic analysis.

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Mikkelsen TS, Hanna J, Zhang X, Ku M, Wernig M, Schorderet P, Bernstein BE, Jaenisch R, Lander ES, and Meissner A

Nature 454(7205):794, 2008 Aug 7 - Who cited this? | PubMed ID: 18685707 | Fulltext

Genome-scale DNA methylation maps of pluripotent and differentiated cells.

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Meissner A, Mikkelsen TS, Gu H, Wernig M, Hanna J, Sivachenko A, Zhang X, Bernstein BE, Nusbaum C, Jaffe DB, Gnirke A, Jaenisch R, and Lander ES

Nature, 2008 Jul 6 - Who cited this? | PubMed ID: 18600261 | Fulltext

cDNA Sequences for Transcription Factors and Signaling Proteins of the Hemichordate Saccoglossus kowalevskii: Efficacy of the Expressed Sequence Tag (EST) Approach for Evolutionary and Developmental Studies of a New Organism.

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Freeman RM, Wu M, Cordonnier-Pratt MM, Pratt LH, Gruber CE, Smith M, Lander ES, Stange-Thomann N, Lowe CJ, Gerhart J, and Kirschner M

The Biological bulletin 214(3):284, 2008 Jun - Who cited this? | PubMed ID: 18574105 | Fulltext

Dissecting direct reprogramming through integrative genomic analysis.

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Mikkelsen TS, Hanna J, Zhang X, Ku M, Wernig M, Schorderet P, Bernstein BE, Jaenisch R, Lander ES, and Meissner A

Nature, 2008 May 28 - Who cited this? | PubMed ID: 18509334 | Fulltext

Loss of E-cadherin promotes metastasis via multiple downstream transcriptional pathways.

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Onder TT, Gupta PB, Mani SA, Yang J, Lander ES, and Weinberg RA

Cancer research 68(10):3645, 2008 May 15 - Who cited this? | PubMed ID: 18483246 | Fulltext

ALLPATHS: de novo assembly of whole-genome shotgun microreads.

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Butler J, MacCallum I, Kleber M, Shlyakhter IA, Belmonte MK, Lander ES, Nusbaum C, and Jaffe DB

Genome research 18(5):810, 2008 May - Who cited this? | PubMed ID: 18340039 | Fulltext

Quality scores and SNP detection in sequencing-by-synthesis systems.

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Brockman W, Alvarez P, Young S, Garber M, Giannoukos G, Lee WL, Russ C, Lander ES, Nusbaum C, and Jaffe DB

Genome research 18(5):763, 2008 May - Who cited this? | PubMed ID: 18212088 | Fulltext

Genome-wide SNP genotyping highlights the role of natural selection in Plasmodium falciparum population divergence.

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Neafsey DE, Schaffner SF, Volkman SK, Park D, Montgomery P, Milner DA, Lukens A, Rosen D, Daniels R, Houde N, Cortese JF, Tyndall E, Gates C, Stange-Thomann N, Sarr O, Ndiaye D,

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Genome biology 9(12):R171, 2008 - Who cited this? | PubMed ID: 19077304 | Fulltext

Distinct physiological states of Plasmodium falciparum in malaria-infected patients.

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Daily JP, Scanfeld D, Pochet N, Le Roch K, Plouffe D, Kamal M, Sarr O, Mboup S, Ndir O, Wypij D, Levasseur K, Thomas E, Tamayo P, Dong C, Zhou Y, Lander ES,

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Nature 450(7172):1091, 2007 Dec 13 - Who cited this? | PubMed ID: 18046333 | Fulltext

Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma.

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Beroukhim R, Getz G, Nghiemphu L, Barretina J, Hsueh T, Linhart D, Vivanco I, Lee JC, Huang JH, Alexander S, Du J, Kau T, Thomas RK, Shah K, Soto H, Perner S,

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Proceedings of the National Academy of Sciences of the United States of America 104(50):20007, 2007 Dec 11 - Who cited this? | PubMed ID: 18077431 | Fulltext

Characterizing the cancer genome in lung adenocarcinoma.

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Weir BA, Woo MS, Getz G, Perner S, Ding L, Beroukhim R, Lin WM, Province MA, Kraja A, Johnson LA, Shah K, Sato M, Thomas RK, Barletta JA, Borecki IB, Broderick S,

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Nature 450(7171):893-8, 2007 Dec 6 - Who cited this? | PubMed ID: 17982442 | Fulltext

Distinguishing protein-coding and noncoding genes in the human genome.

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Clamp M, Fry B, Kamal M, Xie X, Cuff J, Lin MF, Kellis M, Lindblad-Toh K, and Lander ES

Proceedings of the National Academy of Sciences of the United States of America 104(49):19428-33, 2007 Dec 4 - Who cited this? | PubMed ID: 18040051 | Fulltext

28-way vertebrate alignment and conservation track in the UCSC Genome Browser.

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Miller W, Rosenbloom K, Hardison RC, Hou M, Taylor J, Raney B, Burhans R, King DC, Baertsch R, Blankenberg D, Kosakovsky Pond SL, Nekrutenko A, Giardine B, Harris RS, Tyekucheva S, Diekhans M,

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Genome research 17(12):1797, 2007 Dec - Who cited this? | PubMed ID: 17984227 | Fulltext

Efficient mapping of mendelian traits in dogs through genome-wide association.

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Karlsson EK, Baranowska I, Wade CM, Salmon Hillbertz NH, Zody MC, Anderson N, Biagi TM, Patterson N, Pielberg GR, Kulbokas EJ, Comstock KE, Keller ET, Mesirov JP, von Euler H, Kämpe O, Hedhammar A,

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Nature genetics 39(11):1321-8, 2007 Nov - Who cited this? | PubMed ID: 17906626 | Fulltext

Genome-wide detection and characterization of positive selection in human populations.

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Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll SA, Gaudet R, Schaffner SF, Lander ES, , Frazer KA, Ballinger DG, Cox DR,

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Nature 449(7164):913, 2007 Oct 18 - Who cited this? | PubMed ID: 17943131 | Fulltext

Comment on "The consensus coding sequences of human breast and colorectal cancers".

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Getz G, Höfling H, Mesirov JP, Golub TR, Meyerson M, Tibshirani R, and Lander ES

Science (New York, N.Y.) 317(5844):1500, 2007 Sep 14 - Who cited this? | PubMed ID: 17872428 | Fulltext

Risk alleles for multiple sclerosis identified by a genomewide study.

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, Hafler DA, Compston A, Sawcer S, Lander ES, Daly MJ, De Jager PL, de Bakker PI, Gabriel SB, Mirel DB, Ivinson AJ, Pericak-Vance MA, Gregory SG, Rioux JD, McCauley JL, Haines JL,

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The New England journal of medicine 357(9):851, 2007 Aug 30 - Who cited this? | PubMed ID: 17660530 | Fulltext

Genome-wide maps of chromatin state in pluripotent and lineage-committed cells.

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Mikkelsen TS, Ku M, Jaffe DB, Issac B, Lieberman E, Giannoukos G, Alvarez P, Brockman W, Kim TK, Koche RP, Lee W, Mendenhall E, O'Donovan A, Presser A, Russ C, Xie X,

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Nature 448(7153):553, 2007 Aug 2 - Who cited this? | PubMed ID: 17603471 | Fulltext

Integrative genomic approaches identify IKBKE as a breast cancer oncogene.

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Boehm JS, Zhao JJ, Yao J, Kim SY, Firestein R, Dunn IF, Sjostrom SK, Garraway LA, Weremowicz S, Richardson AL, Greulich H, Stewart CJ, Mulvey LA, Shen RR, Ambrogio L, Hirozane-Kishikawa T,

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Cell 129(6):1065-79, 2007 Jun 15 - Who cited this? | PubMed ID: 17574021 | Fulltext

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.

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, 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,

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Nature 447(7146):799, 2007 Jun 14 - Who cited this? | PubMed ID: 17571346 | Fulltext

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.

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, 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,

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Nature 447(7146):799, 2007 Jun 14 - Who cited this? | PubMed ID: 17611759 | Fulltext

Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.

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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,

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Genome research 17(6):760, 2007 Jun - Who cited this? | PubMed ID: 17567995 | Fulltext

Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences.

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Mikkelsen TS, Wakefield MJ, Aken B, Amemiya CT, Chang JL, Duke S, Garber M, Gentles AJ, Goodstadt L, Heger A, Jurka J, Kamal M, Mauceli E, Searle SM, Sharpe T, Baker ML,

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Nature 447(7141):167, 2007 May 10 - Who cited this? | PubMed ID: 17495919 | Fulltext

Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites.

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Xie X, Mikkelsen TS, Gnirke A, Lindblad-Toh K, Kellis M, and Lander ES

Proceedings of the National Academy of Sciences of the United States of America 104(17):7145, 2007 Apr 24 - Who cited this? | PubMed ID: 17442748 | Fulltext

A second major histocompatibility complex susceptibility locus for multiple sclerosis.

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Yeo TW, De Jager PL, Gregory SG, Barcellos LF, Walton A, Goris A, Fenoglio C, Ban M, Taylor CJ, Goodman RS, Walsh E, Wolfish CS, Horton R, Traherne J, Beck S, Trowsdale J,

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Annals of neurology 61(3):228-36, 2007 Mar - Who cited this? | PubMed ID: 17252545 | Fulltext

The mammalian epigenome.

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Bernstein BE, Meissner A, and Lander ES

Cell 128(4):669, 2007 Feb 23 - Who cited this? | PubMed ID: 17320505 | Fulltext

Sleep-related epilepsy in the A/J mouse.

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Strohl KP, Gallaugher L, Lynn A, Friedman L, Hill A, Singer JB, Lander ES, and Nadeau J

Sleep 30(2):169-76, 2007 Feb 1 - Who cited this? | PubMed ID: 17326542 | Fulltext

A genome-wide map of diversity in Plasmodium falciparum.

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Volkman SK, Sabeti PC, DeCaprio D, Neafsey DE, Schaffner SF, Milner DA, Daily JP, Sarr O, Ndiaye D, Ndir O, Mboup S, Duraisingh MT, Lukens A, Derr A, Stange-Thomann N, Waggoner S,

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Nature genetics 39(1):113, 2007 Jan - Who cited this? | PubMed ID: 17159979 | Fulltext

A second fatty acid amide hydrolase with variable distribution among placental mammals.

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Wei BQ, Mikkelsen TS, McKinney MK, Lander ES, and Cravatt BF

The Journal of biological chemistry 281(48):36569, 2006 Dec 1 - Who cited this? | PubMed ID: 17015445 | Fulltext

Deuterostome phylogeny reveals monophyletic chordates and the new phylum Xenoturbellida.

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Bourlat SJ, Juliusdottir T, Lowe CJ, Freeman R, Aronowicz J, Kirschner M, Lander ES, Thorndyke M, Nakano H, Kohn AB, Heyland A, Moroz LL, Copley RR, and Telford MJ

Nature 444(7115):85, 2006 Nov 2 - Who cited this? | PubMed ID: 17051155 | Fulltext

The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease.

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Lamb J, Crawford ED, Peck D, Modell JW, Blat IC, Wrobel MJ, Lerner J, Brunet JP, Subramanian A, Ross KN, Reich M, Hieronymus H, Wei G, Armstrong SA, Haggarty SJ, Clemons PA,

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Science (New York, N.Y.) 313(5795):1929-35, 2006 Sep 29 - Who cited this? | PubMed ID: 17008526 | Fulltext

Genome-scale loss-of-function screening with a lentiviral RNAi library.

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Root DE, Hacohen N, Hahn WC, Lander ES, and Sabatini DM

Nature methods 3(9):715-9, 2006 Sep - Who cited this? | PubMed ID: 16929317 | Fulltext

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