David E. Root - Publications

Affiliations: 
 

195 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Drosos Y, Myers JA, Xu B, Mathias KM, Beane EC, Radko-Juettner S, Mobley RJ, Larsen ME, Piccioni F, Ma X, Low J, Hansen BS, Peters ST, Bhanu NV, Dhanda SK, ... ... Root DE, et al. NSD1 mediates antagonism between SWI/SNF and polycomb complexes and is required for transcriptional activation upon EZH2 inhibition. Molecular Cell. PMID 35537449 DOI: 10.1016/j.molcel.2022.04.015  0.338
2022 Bondeson DP, Paolella BR, Asfaw A, Rothberg MV, Skipper TA, Langan C, Mesa G, Gonzalez A, Surface LE, Ito K, Kazachkova M, Colgan WN, Warren A, Dempster JM, Krill-Burger JM, ... ... Root DE, et al. Phosphate dysregulation via the XPR1-KIDINS220 protein complex is a therapeutic vulnerability in ovarian cancer. Nature Cancer. PMID 35437317 DOI: 10.1038/s43018-022-00360-7  0.331
2022 Rees MG, Brenan L, do Carmo M, Duggan P, Bajrami B, Arciprete M, Boghossian A, Vaimberg E, Ferrara SJ, Lewis TA, Rosenberg D, Sangpo T, Roth JA, Kaushik VK, Piccioni F, ... ... Root DE, et al. Systematic identification of biomarker-driven drug combinations to overcome resistance. Nature Chemical Biology. PMID 35332332 DOI: 10.1038/s41589-022-00996-7  0.31
2021 Dempster JM, Boyle I, Vazquez F, Root DE, Boehm JS, Hahn WC, Tsherniak A, McFarland JM. Chronos: a cell population dynamics model of CRISPR experiments that improves inference of gene fitness effects. Genome Biology. 22: 343. PMID 34930405 DOI: 10.1186/s13059-021-02540-7  0.313
2021 Ito T, Young MJ, Li R, Jain S, Wernitznig A, Krill-Burger JM, Lemke CT, Monducci D, Rodriguez DJ, Chang L, Dutta S, Pal D, Paolella BR, Rothberg MV, Root DE, et al. Paralog knockout profiling identifies DUSP4 and DUSP6 as a digenic dependence in MAPK pathway-driven cancers. Nature Genetics. PMID 34857952 DOI: 10.1038/s41588-021-00967-z  0.371
2021 Dai C, Rennhack JP, Arnoff TE, Thaker M, Younger ST, Doench JG, Huang AY, Yang A, Aguirre AJ, Wang B, Mun E, O'Connell JT, Huang Y, Labella K, Talamas JA, ... ... Root DE, et al. SMAD4 represses FOSL1 expression and pancreatic cancer metastatic colonization. Cell Reports. 36: 109443. PMID 34320363 DOI: 10.1016/j.celrep.2021.109443  0.318
2021 Malone CF, Dharia NV, Kugener G, Forman AB, Rothberg MV, Abdusamad M, Gonzalez A, Kuljanin M, Robichaud AL, Saur Conway A, Dempster JM, Paolella BR, Dumont N, Hovestadt V, Mancias JD, ... ... Root DE, et al. Selective modulation of a pan-essential protein as a therapeutic strategy in cancer. Cancer Discovery. PMID 33883167 DOI: 10.1158/2159-8290.CD-20-1213  0.375
2021 Prensner JR, Enache OM, Luria V, Krug K, Clauser KR, Dempster JM, Karger A, Wang L, Stumbraite K, Wang VM, Botta G, Lyons NJ, Goodale A, Kalani Z, Fritchman B, ... ... Root DE, et al. Noncanonical open reading frames encode functional proteins essential for cancer cell survival. Nature Biotechnology. PMID 33510483 DOI: 10.1038/s41587-020-00806-2  0.31
2020 Shen YJ, Mishima Y, Shi J, Sklavenitis-Pistofidis R, Redd RA, Moschetta M, Manier S, Roccaro AM, Sacco A, Tai YT, Mercier FE, Kawano Y, Su NK, Berrios B, Doench J, ... Root DE, et al. Progression signature underlies clonal evolution and dissemination of multiple myeloma. Blood. PMID 33150374 DOI: 10.1016/J.Clml.2019.09.028  0.343
2020 Eller C, Heydmann L, Colpitts CC, El Saghire H, Piccioni F, Jühling F, Majzoub K, Pons C, Bach C, Lucifora J, Lupberger J, Nassal M, Cowley GS, Fujiwara N, Hsieh SY, ... ... Root DE, et al. A genome-wide gain-of-function screen identifies CDKN2C as a HBV host factor. Nature Communications. 11: 2707. PMID 32483149 DOI: 10.1038/S41467-020-16517-W  0.334
2020 Milton CK, Self AJ, Clarke PA, Banerji U, Piccioni F, Root DE, Whittaker SR. A genome-scale CRISPR screen identifies the ERBB and mTOR signalling networks as key determinants of response to PI3K inhibition in pancreatic cancer. Molecular Cancer Therapeutics. PMID 32371585 DOI: 10.1158/1535-7163.Mct-19-1131  0.401
2020 Guyon C, Jmari N, Padonou F, Li YC, Ucar O, Fujikado N, Coulpier F, Blanchet C, Root DE, Giraud M. Aire-dependent genes undergo Clp1-mediated 3'UTR shortening associated with higher transcript stability in the thymus. Elife. 9. PMID 32338592 DOI: 10.7554/Elife.52985  0.334
2020 Persky NS, Hernandez D, Do Carmo M, Brenan L, Cohen O, Kitajima S, Nayar U, Walker A, Pantel S, Lee Y, Cordova J, Sathappa M, Zhu C, Hayes TK, Ram P, ... ... Root DE, et al. Defining the landscape of ATP-competitive inhibitor resistance residues in protein kinases. Nature Structural & Molecular Biology. 27: 92-104. PMID 31925410 DOI: 10.1038/S41594-019-0358-Z  0.311
2020 Durbin AD, Kugener G, Zimmerman MW, Yan C, Dharia NV, Frank ES, Chen X, Ross KN, Paolella B, Krill-Burger M, Root DE, Boehm JS, Vazquez F, Hong AL, Tsherniak A, et al. Abstract B10: Rhabdomyosarcoma requires MYC family genomic events to pathogenically subvert core-regulatory circuitry Cancer Research. 80. DOI: 10.1158/1538-7445.Pedca19-B10  0.461
2020 Neggers JE, Paolella BR, Asfaw A, Rothberg MV, Skipper TA, Kalekar RL, Krill-Burger JM, Hong AL, Kugener G, Kalfon J, Yang A, Yuan C, Dumont N, Gonzalez A, Abdusamad M, ... ... Root DE, et al. Abstract LB-053: VPS4A is a synthetic lethal target in VPS4B-deficient cancers due to co-deletion with SMAD4 Cancer Research. 80. DOI: 10.1158/1538-7445.Am2020-Lb-053  0.485
2020 Nayar U, Piccioni F, Yang X, Root D, Neal JT, Eli LD, Diala I, Lalani AS, Wagle N. Abstract 1914: Phenotypic characterization of a comprehensive set of HER2 missense mutants in ER+ breast cancer Cancer Research. 80: 1914-1914. DOI: 10.1158/1538-7445.Am2020-1914  0.398
2019 Dempster JM, Pacini C, Pantel S, Behan FM, Green T, Krill-Burger J, Beaver CM, Younger ST, Zhivich V, Najgebauer H, Allen F, Gonçalves E, Shepherd R, Doench JG, Yusa K, ... ... Root DE, et al. Agreement between two large pan-cancer CRISPR-Cas9 gene dependency data sets. Nature Communications. 10: 5817. PMID 31862961 DOI: 10.1038/S41467-019-13805-Y  0.455
2019 Hwang JH, Seo JH, Beshiri ML, Wankowicz S, Liu D, Cheung A, Li J, Qiu X, Hong AL, Botta G, Golumb L, Richter C, So J, Sandoval GJ, Giacomelli AO, ... ... Root DE, et al. CREB5 Promotes Resistance to Androgen-Receptor Antagonists and Androgen Deprivation in Prostate Cancer. Cell Reports. 29: 2355-2370.e6. PMID 31747605 DOI: 10.1016/J.Celrep.2019.10.068  0.335
2019 To TL, Cuadros AM, Shah H, Hung WHW, Li Y, Kim SH, Rubin DHF, Boe RH, Rath S, Eaton JK, Piccioni F, Goodale A, Kalani Z, Doench JG, Root DE, et al. A Compendium of Genetic Modifiers of Mitochondrial Dysfunction Reveals Intra-organelle Buffering. Cell. 179: 1222-1238.e17. PMID 31730859 DOI: 10.1016/J.Cell.2019.10.032  0.324
2019 Sulahian R, Kwon JJ, Walsh KH, Pailler E, Bosse TL, Thaker M, Almanza D, Dempster JM, Pan J, Piccioni F, Dumont N, Gonzalez A, Rennhack J, Nabet B, Bachman JA, ... ... Root DE, et al. Synthetic Lethal Interaction of SHOC2 Depletion with MEK Inhibition in RAS-Driven Cancers. Cell Reports. 29: 118-134.e8. PMID 31577942 DOI: 10.1016/J.Celrep.2019.08.090  0.418
2019 Oberlick EM, Rees MG, Seashore-Ludlow B, Vazquez F, Nelson GM, Dharia NV, Weir BA, Tsherniak A, Ghandi M, Krill-Burger JM, Meyers RM, Wang X, Montgomery P, Root DE, Bieber JM, et al. Small-Molecule and CRISPR Screening Converge to Reveal Receptor Tyrosine Kinase Dependencies in Pediatric Rhabdoid Tumors. Cell Reports. 28: 2331-2344.e8. PMID 31461650 DOI: 10.1016/J.Celrep.2019.07.021  0.493
2019 Boettcher S, Miller PG, Sharma R, McConkey M, Leventhal M, Krivtsov AV, Giacomelli AO, Wong W, Kim J, Chao S, Kurppa KJ, Yang X, Milenkowic K, Piccioni F, Root DE, et al. A dominant-negative effect drives selection of missense mutations in myeloid malignancies. Science (New York, N.Y.). 365: 599-604. PMID 31395785 DOI: 10.1126/Science.Aax3649  0.321
2019 Bandopadhayay P, Piccioni F, O'Rourke R, Ho P, Gonzalez EM, Buchan G, Qian K, Gionet G, Girard E, Coxon M, Rees MG, Brenan L, Dubois F, Shapira O, Greenwald NF, ... ... Root DE, et al. Neuronal differentiation and cell-cycle programs mediate response to BET-bromodomain inhibition in MYC-driven medulloblastoma. Nature Communications. 10: 2400. PMID 31160565 DOI: 10.1038/S41467-019-10307-9  0.401
2019 Nandakumar SK, McFarland SK, Mateyka LM, Lareau CA, Ulirsch JC, Ludwig LS, Agarwal G, Engreitz JM, Przychodzen B, McConkey M, Cowley GS, Doench JG, Maciejewski JP, Ebert BL, Root DE, et al. Gene-centric functional dissection of human genetic variation uncovers regulators of hematopoiesis. Elife. 8. PMID 31070582 DOI: 10.7554/Elife.44080  0.428
2019 Li H, Ning S, Ghandi M, Kryukov GV, Gopal S, Deik A, Souza A, Pierce K, Keskula P, Hernandez D, Ann J, Shkoza D, Apfel V, Zou Y, Vazquez F, ... ... Root DE, et al. The landscape of cancer cell line metabolism. Nature Medicine. 25: 850-860. PMID 31068703 DOI: 10.1038/S41591-019-0404-8  0.39
2019 Chan EM, Shibue T, McFarland JM, Gaeta B, Ghandi M, Dumont N, Gonzalez A, McPartlan JS, Li T, Zhang Y, Bin Liu J, Lazaro JB, Gu P, Piett CG, Apffel A, ... ... Root DE, et al. WRN helicase is a synthetic lethal target in microsatellite unstable cancers. Nature. PMID 30971823 DOI: 10.1038/S41586-019-1102-X  0.378
2019 Hong AL, Tseng YY, Wala JA, Kim WJ, Kynnap BD, Doshi MB, Kugener G, Sandoval GJ, Howard TP, Li J, Yang X, Tillgren M, Ghandi M, Sayeed A, Deasy R, ... ... Root DE, et al. Renal medullary carcinomas depend upon loss and are sensitive to proteasome inhibition. Elife. 8. PMID 30860482 DOI: 10.7554/Elife.44161  0.403
2019 Hayes TK, Luo F, Cohen O, Goodale AB, Lee Y, Pantel S, Bagul M, Piccioni F, Root DE, Garraway LA, Meyerson M, Johannessen CM. A functional landscape of resistance to MEK1/2 and CDK4/6 inhibition in NRAS mutant melanoma. Cancer Research. PMID 30819666 DOI: 10.1158/0008-5472.Can-18-2711  0.401
2019 Sharifnia T, Wawer MJ, Chen T, Huang QY, Weir BA, Sizemore A, Lawlor MA, Goodale A, Cowley GS, Vazquez F, Ott CJ, Francis JM, Sassi S, Cogswell P, Sheppard HE, ... ... Root DE, et al. Small-molecule targeting of brachyury transcription factor addiction in chordoma. Nature Medicine. PMID 30664779 DOI: 10.1038/S41591-018-0312-3  0.467
2019 Nandakumar SK, McFarland SK, Mateyka LM, Lareau CA, Ulirsch JC, Ludwig LS, Agarwal G, Engreitz JM, Przychodzen B, McConkey M, Cowley GS, Doench JG, Maciejewski JP, Ebert BL, Root DE, et al. Author response: Gene-centric functional dissection of human genetic variation uncovers regulators of hematopoiesis Elife. DOI: 10.7554/Elife.44080.041  0.319
2019 Stalmann US, Ticconi F, Li R, Wong AB, Cowley G, Root DE, Heckl D, Snoeren I, Martinez S, Brümmendorf TH, Schuppert A, Costa I, Ebert BL, Schneider RK. Deconstructing the Clonal Advantage and Clonal Stability of 5q- Candidate Genes in Del(5q) MDS on a Single Cell Level Blood. 134: 559-559. DOI: 10.1182/Blood-2019-122588  0.34
2019 Malone CF, Dharia NV, Kugener G, Paolella B, Rothberg M, Abdusamad M, Gonzalez A, Dumont N, Younger S, Root D, Vazquez F, Stegmaier K. Abstract 2878: CRISPR-Cas9 screens identify the nuclear export factor NXT1 as a novel therapeutic target inMYCN-amplified neuroblastoma Cancer Research. DOI: 10.1158/1538-7445.Sabcs18-2878  0.363
2019 Prensner JR, Enache O, Ji Z, Krug K, Clauser KR, Yang X, Piccioni F, Root DE, Golub TR. Abstract 4344: Integrative functional proteogenomics for unannotated or uncharacterized proteins in cancer Cancer Research. 79: 4344-4344. DOI: 10.1158/1538-7445.Am2019-4344  0.421
2019 Larpenteur K, Waal Ld, Wang L, Kocak M, Bryan J, Bender S, Barkho S, Kukurugya M, Goodale A, Paolella B, Cho M, McFarland J, Rothberg M, Zhu C, Trepiccio C, ... ... Root D, et al. Abstract C022: Large scale phenotypic screening using PRISM, integrated with functional genomic screening and transcriptional profiling accelerates target identification of cytotoxic small molecules Molecular Cancer Therapeutics. 18. DOI: 10.1158/1535-7163.Targ-19-C022  0.469
2018 Sanson KR, Hanna RE, Hegde M, Donovan KF, Strand C, Sullender ME, Vaimberg EW, Goodale A, Root DE, Piccioni F, Doench JG. Optimized libraries for CRISPR-Cas9 genetic screens with multiple modalities. Nature Communications. 9: 5416. PMID 30575746 DOI: 10.1038/S41467-018-07901-8  0.429
2018 He YJ, Meghani K, Caron MC, Yang C, Ronato DA, Bian J, Sharma A, Moore J, Niraj J, Detappe A, Doench JG, Legube G, Root DE, D'Andrea AD, Drané P, et al. DYNLL1 binds to MRE11 to limit DNA end resection in BRCA1-deficient cells. Nature. 563: 522-526. PMID 30464262 DOI: 10.1038/S41586-018-0670-5  0.332
2018 McFarland JM, Ho ZV, Kugener G, Dempster JM, Montgomery PG, Bryan JG, Krill-Burger JM, Green TM, Vazquez F, Boehm JS, Golub TR, Hahn WC, Root DE, Tsherniak A. Improved estimation of cancer dependencies from large-scale RNAi screens using model-based normalization and data integration. Nature Communications. 9: 4610. PMID 30389920 DOI: 10.1038/S41467-018-06916-5  0.453
2018 Oser MG, Fonseca R, Chakraborty AA, Brough R, Spektor A, Jennings RB, Flaifel A, Novak JS, Gulati A, Buss E, Younger ST, McBrayer SK, Cowley GS, Bonal DM, Nguyen QD, ... ... Root DE, et al. Cells Lacking the RB1 Tumor Suppressor Gene are Hyperdependent on Aurora B Kinase for Survival. Cancer Discovery. PMID 30373918 DOI: 10.1158/2159-8290.Cd-18-0389  0.425
2018 Granit RZ, Masury H, Condiotti R, Fixler Y, Gabai Y, Glikman T, Dalin S, Winter E, Nevo Y, Carmon E, Sella T, Sonnenblick A, Peretz T, Lehmann U, Paz K, ... ... Root DE, et al. Regulation of Cellular Heterogeneity and Rates of Symmetric and Asymmetric Divisions in Triple-Negative Breast Cancer. Cell Reports. 24: 3237-3250. PMID 30232005 DOI: 10.1016/J.Celrep.2018.08.053  0.334
2018 Giacomelli AO, Yang X, Lintner RE, McFarland JM, Duby M, Kim J, Howard TP, Takeda DY, Ly SH, Kim E, Gannon HS, Hurhula B, Sharpe T, Goodale A, Fritchman B, ... ... Root DE, et al. Mutational processes shape the landscape of TP53 mutations in human cancer. Nature Genetics. PMID 30224644 DOI: 10.1038/S41588-018-0204-Y  0.377
2018 Durbin AD, Zimmerman MW, Dharia NV, Abraham BJ, Iniguez AB, Weichert-Leahey N, He S, Krill-Burger JM, Root DE, Vazquez F, Tsherniak A, Hahn WC, Golub TR, Young RA, Look AT, et al. Selective gene dependencies in MYCN-amplified neuroblastoma include the core transcriptional regulatory circuitry. Nature Genetics. PMID 30127528 DOI: 10.1038/S41588-018-0191-Z  0.473
2018 Li J, Choi PS, Chaffer CL, Labella K, Hwang JH, Giacomelli AO, Kim JW, Ilic N, Doench JG, Ly SH, Dai C, Hagel K, Hong AL, Gjoerup O, Goel S, ... ... Root DE, et al. An alternative splicing switch in FLNB promotes the mesenchymal cell state in human breast cancer. Elife. 7. PMID 30059005 DOI: 10.7554/Elife.37184  0.434
2018 Redelman-Sidi G, Binyamin A, Gaeta I, Palm W, Thompson CB, Romesser PB, Lowe SW, Bagul M, Doench JG, Root DE, Glickman MS. The Canonical Wnt Pathway Drives Macropinocytosis in Cancer. Cancer Research. PMID 29871936 DOI: 10.1158/0008-5472.Can-17-3199  0.403
2018 Ng SY, Yoshida N, Christie AL, Ghandi M, Dharia NV, Dempster J, Murakami M, Shigemori K, Morrow SN, Van Scoyk A, Cordero NA, Stevenson KE, Puligandla M, Haas B, Lo C, ... ... Root D, et al. Targetable vulnerabilities in T- and NK-cell lymphomas identified through preclinical models. Nature Communications. 9: 2024. PMID 29789628 DOI: 10.1038/S41467-018-04356-9  0.337
2018 Piccioni F, Younger ST, Root DE. Pooled Lentiviral-Delivery Genetic Screens. Current Protocols in Molecular Biology. 121: 32.1.1-32.1.21. PMID 29337374 DOI: 10.1002/cpmb.52  0.342
2018 Li J, Choi PS, Chaffer CL, Labella K, Hwang JH, Giacomelli AO, Kim JW, Ilic N, Doench JG, Ly SH, Dai C, Hagel K, Hong AL, Gjoerup O, Goel S, ... ... Root DE, et al. Author response: An alternative splicing switch in FLNB promotes the mesenchymal cell state in human breast cancer Elife. DOI: 10.7554/Elife.37184.034  0.31
2018 Feng R, Doerfler PA, Yao Y, Tang X, Wang Y, Li C, Root DE, Cheng Y, Weiss MJ. The DNA Methylation Maintenance Protein UHRF1 Regulates Fetal Globin Expression Independent of HBG Promoter DNA Methylation Blood. 132: 410-410. DOI: 10.1182/Blood-2018-99-115589  0.369
2018 Shen Y, Mishima Y, Shi J, Moschetta M, Manier S, Roccaro AM, Mercier F, Takagi S, Kawano Y, Tsukamoto S, Sahin I, Sacco A, Huynh D, Berrios B, Pistofidis R, ... ... Root DE, et al. Deciphering Clonal Evolution and Dissemination of Multiple Myeloma Cells In Vivo Blood. 132: 55-55. DOI: 10.1182/Blood-2018-99-113916  0.464
2018 Sklavenitis-Pistofidis R, Reidy M, Huynh D, Salem KZ, Park J, Glavey S, Leleu X, Root D, Ghobrial IM, Manier S. Founding Precision Therapy in 1q-Amplified Multiple Myeloma Blood. 132: 1007-1007. DOI: 10.1182/Blood-2018-99-112673  0.397
2018 Dharia NV, Malone C, Iniguez AB, Guenther L, Chen L, Alexe G, Durbin AD, Zimmerman MW, Hong A, Bandopadhayay P, Filbin MG, Howard T, Paolella B, Fung I, Lee J, ... ... Root DE, et al. Abstract 2352: Defining a pediatric cancer dependency map Cancer Research. 78: 2352-2352. DOI: 10.1158/1538-7445.Am2018-2352  0.458
2018 Durbin AD, Zimmerman MW, Dharia NV, Abraham BJ, Balboni-Iniguez A, Weichert-Leahey N, He S, Krill-Burger JM, Root DE, Vazquez F, Tsherniak A, Hahn WC, Golub TR, Young RA, Look AT, et al. Abstract 2062: Selective gene dependencies in MYCN-amplified neuroblastoma include the core transcriptional regulatory circuitry Cancer Research. 78: 2062-2062. DOI: 10.1158/1538-7445.Am2018-2062  0.465
2017 Najm FJ, Strand C, Donovan KF, Hegde M, Sanson KR, Vaimberg EW, Sullender ME, Hartenian E, Kalani Z, Fusi N, Listgarten J, Younger ST, Bernstein BE, Root DE, Doench JG. Orthologous CRISPR-Cas9 enzymes for combinatorial genetic screens. Nature Biotechnology. PMID 29251726 DOI: 10.1038/Nbt.4048  0.303
2017 Chen L, Alexe G, Dharia NV, Ross L, Iniguez AB, Conway AS, Wang EJ, Veschi V, Lam N, Qi J, Gustafson WC, Nasholm N, Vazquez F, Weir BA, Cowley GS, ... ... Root DE, et al. CRISPR-Cas9 screen reveals a MYCN-amplified neuroblastoma dependency on EZH2. The Journal of Clinical Investigation. PMID 29202477 DOI: 10.1172/Jci90793  0.465
2017 Subramanian A, Narayan R, Corsello SM, Peck DD, Natoli TE, Lu X, Gould J, Davis JF, Tubelli AA, Asiedu JK, Lahr DL, Hirschman JE, Liu Z, Donahue M, Julian B, ... ... Root DE, et al. A Next Generation Connectivity Map: L1000 Platform and the First 1,000,000 Profiles. Cell. 171: 1437-1452.e17. PMID 29195078 DOI: 10.1016/J.Cell.2017.10.049  0.34
2017 Smith I, Greenside PG, Natoli T, Lahr DL, Wadden D, Tirosh I, Narayan R, Root DE, Golub TR, Subramanian A, Doench JG. Evaluation of RNAi and CRISPR technologies by large-scale gene expression profiling in the Connectivity Map. Plos Biology. 15: e2003213. PMID 29190685 DOI: 10.1371/Journal.Pbio.2003213  0.409
2017 Meyers RM, Bryan JG, McFarland JM, Weir BA, Sizemore AE, Xu H, Dharia NV, Montgomery PG, Cowley GS, Pantel S, Goodale A, Ali LD, Jiang G, Lubonja R, Harrington WF, ... ... Root DE, et al. Computational correction of copy number effect improves specificity of CRISPR-Cas9 essentiality screens in cancer cells. Nature Genetics. PMID 29083409 DOI: 10.1038/Ng.3984  0.485
2017 Gönen M, Weir BA, Cowley GS, Vazquez F, Guan Y, Jaiswal A, Karasuyama M, Uzunangelov V, Wang T, Tsherniak A, Howell S, Marbach D, Hoff B, Norman TC, Airola A, ... ... Root DE, et al. A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines. Cell Systems. PMID 28988802 DOI: 10.1016/J.Cels.2017.09.004  0.419
2017 Lee PY, Sykes DB, Ameri S, Kalaitzidis D, Charles JF, Nelson-Maney N, Wei K, Cunin P, Morris A, Cardona AE, Root DE, Scadden DT, Nigrovic PA. The metabolic regulator mTORC1 controls terminal myeloid differentiation. Science Immunology. 2. PMID 28763796 DOI: 10.1126/Sciimmunol.Aam6641  0.378
2017 Tsherniak A, Vazquez F, Montgomery PG, Weir BA, Kryukov G, Cowley GS, Gill S, Harrington WF, Pantel S, Krill-Burger JM, Meyers RM, Ali L, Goodale A, Lee Y, Jiang G, ... ... Root DE, et al. Defining a Cancer Dependency Map. Cell. 170: 564-576.e16. PMID 28753430 DOI: 10.1016/J.Cell.2017.06.010  0.462
2017 Manguso RT, Pope HW, Zimmer MD, Brown FD, Yates KB, Miller BC, Collins NB, Bi K, LaFleur MW, Juneja VR, Weiss SA, Lo J, Fisher DE, Miao D, Van Allen E, ... Root DE, et al. In vivo CRISPR screening identifies Ptpn2 as a cancer immunotherapy target. Nature. PMID 28723893 DOI: 10.1038/Nature23270  0.446
2017 Chakraborty AA, Nakamura E, Qi J, Creech A, Jaffe JD, Paulk J, Novak JS, Nagulapalli K, McBrayer SK, Cowley GS, Pineda J, Song J, Wang YE, Carr SA, Root DE, et al. HIF activation causes synthetic lethality between the VHL tumor suppressor and the EZH1 histone methyltransferase. Science Translational Medicine. 9. PMID 28701475 DOI: 10.1126/Scitranslmed.Aal5272  0.416
2017 Rolland DCM, Basrur V, Jeon YK, McNeil-Schwalm C, Fermin D, Conlon KP, Zhou Y, Ng SY, Tsou CC, Brown NA, Thomas DG, Bailey NG, Omenn GS, Nesvizhskii AI, Root DE, et al. Functional proteogenomics reveals biomarkers and therapeutic targets in lymphomas. Proceedings of the National Academy of Sciences of the United States of America. PMID 28607076 DOI: 10.1073/Pnas.1701263114  0.388
2017 Zwang Y, Jonas O, Chen C, Rinne ML, Doench JG, Piccioni F, Tan L, Huang HT, Wang J, Ham YJ, O'Connell J, Bhola P, Doshi M, Whitman M, Cima M, ... ... Root DE, et al. Synergistic interactions with PI3K inhibition that induce apoptosis. Elife. 6. PMID 28561737 DOI: 10.7554/Elife.24523  0.448
2017 Rosenbluh J, Xu H, Harrington W, Gill S, Wang X, Vazquez F, Root DE, Tsherniak A, Hahn WC. Complementary information derived from CRISPR Cas9 mediated gene deletion and suppression. Nature Communications. 8: 15403. PMID 28534478 DOI: 10.1038/Ncomms15403  0.47
2017 Ma Y, Walsh MJ, Bernhardt K, Ashbaugh CW, Trudeau SJ, Ashbaugh IY, Jiang S, Jiang C, Zhao B, Root DE, Doench JG, Gewurz BE. CRISPR/Cas9 Screens Reveal Epstein-Barr Virus-Transformed B Cell Host Dependency Factors. Cell Host & Microbe. 21: 580-591.e7. PMID 28494239 DOI: 10.1016/J.Chom.2017.04.005  0.404
2017 Vu LP, Prieto C, Amin EM, Chhangawala S, Krivtsov A, Calvo-Vidal MN, Chou T, Chow A, Minuesa G, Park SM, Barlowe TS, Taggart J, Tivnan P, Deering RP, Chu LP, ... ... Root D, et al. Functional screen of MSI2 interactors identifies an essential role for SYNCRIP in myeloid leukemia stem cells. Nature Genetics. PMID 28436985 DOI: 10.1038/Ng.3854  0.422
2017 Wang B, Krall EB, Aguirre AJ, Kim M, Widlund HR, Doshi MB, Sicinska E, Sulahian R, Goodale A, Cowley GS, Piccioni F, Doench JG, Root DE, Hahn WC. ATXN1L, CIC, and ETS Transcription Factors Modulate Sensitivity to MAPK Pathway Inhibition. Cell Reports. 18: 1543-1557. PMID 28178529 DOI: 10.1016/J.Celrep.2017.01.031  0.452
2017 Paolella BR, Gibson WJ, Urbanski LM, Alberta JA, Zack TI, Bandopadhayay P, Nichols CA, Agarwalla PK, Brown MS, Lamothe R, Yu Y, Choi PS, Obeng EA, Heckl D, Wei G, ... ... Root DE, et al. Copy-number and gene dependency analysis reveals partial copy loss of wild-type SF3B1 as a novel cancer vulnerability. Elife. 6. PMID 28177281 DOI: 10.7554/Elife.23268  0.461
2017 Donovan KF, Hegde M, Sullender M, Vaimberg EW, Johannessen CM, Root DE, Doench JG. Creation of Novel Protein Variants with CRISPR/Cas9-Mediated Mutagenesis: Turning a Screening By-Product into a Discovery Tool. Plos One. 12: e0170445. PMID 28118392 DOI: 10.1371/Journal.Pone.0170445  0.439
2017 Paolella BR, Gibson WJ, Urbanski LM, Alberta JA, Zack TI, Bandopadhayay P, Nichols CA, Agarwalla PK, Brown MS, Lamothe R, Yu Y, Choi PS, Obeng EA, Heckl D, Wei G, ... ... Root DE, et al. Author response: Copy-number and gene dependency analysis reveals partial copy loss of wild-type SF3B1 as a novel cancer vulnerability Elife. DOI: 10.7554/Elife.23268.025  0.381
2017 Tsherniak A, Vazquez F, Weir B, Montgomery P, Cowley G, Gill S, Kryukov G, Pantel S, Harrington W, Burger M, Meyers R, Ali L, Goodale A, Lee Y, Garraway L, ... ... Root D, et al. Abstract PR02: Towards a Cancer Dependency Map Clinical Cancer Research. 23. DOI: 10.1158/1557-3265.Pmccavuln16-Pr02  0.432
2017 Meyers RM, Aguirre AJ, Weir BA, Vazquez F, Zhang C, Ben-David U, Cook A, Ha G, Harrington WF, Doshi M, Gill S, Xu H, Ali LD, Jiang G, Pantel S, ... ... Root DE, et al. Abstract B39: Genomic copy number alterations introduce a gene-independent viability bias in CRISPR-Cas9 knock-out screens of cancer cell lines Clinical Cancer Research. 23. DOI: 10.1158/1557-3265.Pmccavuln16-B39  0.489
2017 Vu L, Prieto C, Amin EM, Minuesa G, Chhangawala S, Vidal MC, Krivtsov A, Chou T, Chow A, Barlowe T, Taggart J, Tivnan P, Deering RP, Chu LP, Gonen M, ... ... Root D, et al. Abstract IA13: RNA regulators and the control of self-renewal Clinical Cancer Research. 23. DOI: 10.1158/1557-3265.Hemmal17-Ia13  0.423
2017 Hong AL, Tseng Y, Kynnap BD, Doshi MB, Sandoval G, Oh C, Sayeed A, Shubhroz G, Church AJ, Keskula P, Peng A, Clemons PA, Tsherniak A, Vazquez F, Rodriguez-Galindo C, ... ... Root DE, et al. Abstract B17: Identification of Druggable Targets through Functional Multi-Omics in Renal Medullary Carcinoma Molecular Cancer Therapeutics. 16. DOI: 10.1158/1538-8514.Synthleth-B17  0.424
2017 Tseng Y(, Hong A, Gill S, Keskula P, Raghavan S, Cheah J, Tsherniak A, Vazquez F, Alkhairy S, Peng A, Sayeed A, Deasy R, Ronning P, Kantoff P, Garraway L, ... ... Root D, et al. Abstract A02: Expanding tumor chemical-genetic interaction map using next-generation cancer models Molecular Cancer Therapeutics. 16. DOI: 10.1158/1538-8514.Synthleth-A02  0.417
2017 Wang VE, Doench J, Root D, Bernards R, Settleman J, McCormick F. Abstract 3182: Cytoskeletal modulation results in increased tumor survival and drug resistance through attenuation of p53 dependent apoptosis Cancer Research. 77: 3182-3182. DOI: 10.1158/1538-7445.Am2017-3182  0.394
2017 Tseng Y, Hong A, Keskula P, Gill S, Cheah J, Kryukov G, Tsherniak A, Vazquez F, Cowley G, Alkhairy S, Oh C, Peng A, Deasy R, Sayeed A, Ronning P, ... ... Root D, et al. Abstract 1953: Accelerating prediction of pediatric and rare cancer vulnerabilities using next-generation cancer models Cancer Research. 77: 1953-1953. DOI: 10.1158/1538-7445.Am2017-1953  0.31
2017 Manguso RT, Pope HW, Zimmer MD, Brown FD, Yates KB, Miller BC, Collins NB, Bi K, Lafleur MW, Juneja VR, Weiss SA, Fisher DE, Root DE, Sharpe AH, Doench JG, et al. Abstract 1019:In vivoCRISPR screening identifies Ptpn2 as a target for cancer immunotherapy Cancer Research. 77: 1019-1019. DOI: 10.1158/1538-7445.Am2017-1019  0.452
2017 Paolella B, Gibson W, Urbanski L, Alberta J, Zack T, Bandopadhayay P, Nichols C, Brown M, Lamothe R, Yu Y, Choi P, Obeng E, Wei G, Wong B, Tsherniak A, ... ... Root D, et al. BIOL-04. INTEGRATED COPY-NUMBER AND CANCER DEPENDENCY ANALYSIS REVEALS ALTERED SPLICEOSOME STOICHIOMETRY AS A NOVEL VULNERABILITY IN GENOMICALLY DISRUPTED CANCERS Neuro-Oncology. 19: iv4-iv4. DOI: 10.1093/Neuonc/Nox083.012  0.372
2016 Brenan L, Andreev A, Cohen O, Pantel S, Kamburov A, Cacchiarelli D, Persky NS, Zhu C, Bagul M, Goetz EM, Burgin AB, Garraway LA, Getz G, Mikkelsen TS, Piccioni F, ... Root DE, et al. Phenotypic Characterization of a Comprehensive Set of MAPK1/ERK2 Missense Mutants. Cell Reports. 17: 1171-1183. PMID 27760319 DOI: 10.1016/J.Celrep.2016.09.061  0.366
2016 Rosenbluh J, Mercer J, Shrestha Y, Oliver R, Tamayo P, Doench JG, Tirosh I, Piccioni F, Hartenian E, Horn H, Fagbami L, Root DE, Jaffe J, Lage K, Boehm JS, et al. Genetic and Proteomic Interrogation of Lower Confidence Candidate Genes Reveals Signaling Networks in β-Catenin-Active Cancers. Cell Systems. 3: 302-316.e4. PMID 27684187 DOI: 10.1016/J.Cels.2016.09.001  0.451
2016 Arroyo JD, Jourdain AA, Calvo SE, Ballarano CA, Doench JG, Root DE, Mootha VK. A Genome-wide CRISPR Death Screen Identifies Genes Essential for Oxidative Phosphorylation. Cell Metabolism. PMID 27667664 DOI: 10.1016/J.Cmet.2016.08.017  0.418
2016 Barrow JJ, Balsa E, Verdeguer F, Tavares CD, Soustek MS, Hollingsworth LR, Jedrychowski M, Vogel R, Paulo JA, Smeitink J, Gygi SP, Doench J, Root DE, Puigserver P. Bromodomain Inhibitors Correct Bioenergetic Deficiency Caused by Mitochondrial Disease Complex I Mutations. Molecular Cell. PMID 27666594 DOI: 10.1016/J.Molcel.2016.08.023  0.362
2016 Shan J, Logan DJ, Root DE, Carpenter AE, Bhatia SN. High-Throughput Platform for Identifying Molecular Factors Involved in Phenotypic Stabilization of Primary Human Hepatocytes In Vitro. Journal of Biomolecular Screening. 21: 897-911. PMID 27650791 DOI: 10.1177/1087057116660277  0.331
2016 Berger AH, Brooks AN, Wu X, Shrestha Y, Chouinard C, Piccioni F, Bagul M, Kamburov A, Imielinski M, Hogstrom L, Zhu C, Yang X, Pantel S, Sakai R, Watson J, ... ... Root DE, et al. High-throughput Phenotyping of Lung Cancer Somatic Mutations. Cancer Cell. PMID 27478040 DOI: 10.1016/J.Ccell.2016.06.022  0.358
2016 Hong AL, Tseng YY, Cowley GS, Jonas O, Cheah JH, Kynnap BD, Doshi MB, Oh C, Meyer SC, Church AJ, Gill S, Bielski CM, Keskula P, Imamovic A, Howell S, ... ... Root DE, et al. Integrated genetic and pharmacologic interrogation of rare cancers. Nature Communications. 7: 11987. PMID 27329820 DOI: 10.1038/Ncomms11987  0.461
2016 Aguirre AJ, Meyers RM, Weir BA, Vazquez F, Zhang CZ, Ben-David U, Cook A, Ha G, Harrington WF, Doshi MB, Kost-Alimova M, Gill S, Xu H, Ali LD, Jiang G, ... ... Root DE, et al. Genomic copy number dictates a gene-independent cell response to CRISPR-Cas9 targeting. Cancer Discovery. PMID 27260156 DOI: 10.1158/2159-8290.Cd-16-0154  0.468
2016 Kim E, Ilic N, Shrestha Y, Zou L, Kamburov A, Zhu C, Yang X, Lubonja R, Tran N, Nguyen C, Lawrence MS, Piccioni F, Bagul M, Doench JG, Chouinard CR, ... ... Root DE, et al. Systematic functional interrogation of rare cancer variants identifies oncogenic alleles. Cancer Discovery. PMID 27147599 DOI: 10.1158/2159-8290.Cd-16-0160  0.433
2016 Kryukov GV, Wilson FH, Ruth JR, Paulk J, Tsherniak A, Marlow SE, Vazquez F, Weir BA, Fitzgerald ME, Tanaka M, Bielski CM, Scott JM, Dennis C, Cowley GS, Boehm JS, ... Root DE, et al. MTAP deletion confers enhanced dependency on the PRMT5 arginine methyltransferase in cancer cells. Science (New York, N.Y.). PMID 26912360 DOI: 10.1126/Science.Aad5214  0.475
2016 Doench JG, Fusi N, Sullender M, Hegde M, Vaimberg EW, Donovan KF, Smith I, Tothova Z, Wilen C, Orchard R, Virgin HW, Listgarten J, Root DE. Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9. Nature Biotechnology. 34: 184-91. PMID 26780180 DOI: 10.1038/Nbt.3437  0.375
2016 Vu LP, Prieto C, Amin E, Minuesa G, Chhangawala S, Vidal MJ, Krivtsov AV, Chou T, Barlowe T, Taggart J, Tivnan P, Deering RP, Gonen M, Figueroa ME, Paietta E, ... ... Root D, et al. RNA Binding Protein Syncrip Regulates the Leukemia Stem Cell Program Blood. 128: 739-739. DOI: 10.1182/Blood.V128.22.739.739  0.414
2016 Shen Y, Manier S, Park J, Mishima Y, Capelletti M, Roccaro AM, Huynh D, Sacco A, Tahri S, Cowley G, Doench JG, Root D, Ghobrial IM. In Vivo Genome-Wide Crispr Library Screen in a Xenograft Mouse Model of Tumor Growth and Metastasis of Multiple Myeloma Blood. 128: 1137-1137. DOI: 10.1182/Blood.V128.22.1137.1137  0.428
2016 Hong AL, Tseng Y, Cowley G, Jonas O, Cheah J, Doshi M, Kynnap B, Oy C, Keskula P, Kryukov G, Cima M, Langer R, Schreiber S, Root D, Boehm J, et al. Abstract PR04: Integration of CRISPR-Cas9, RNAi and pharmacologic screens identify actionable targets in a rare cancer Clinical Cancer Research. 22. DOI: 10.1158/1557-3265.Pdx16-Pr04  0.429
2016 Tseng Y, Keskula P, Hong AL, Gill S, Cheah JH, Kryukov GV, Tsherniak A, Vazquez F, Cowley G, Oh C, Peng A, Sayeed A, Deasy R, Ronning P, Kantoff P, ... ... Root D, et al. Abstract B26: Accelerating prediction of tumor vulnerabilities using next-generation cancer models Clinical Cancer Research. 22. DOI: 10.1158/1557-3265.Pdx16-B26  0.408
2016 Hong AL, Cowley GS, Tseng Y, Cheah JH, Jonas O, Doshi MB, Kynnap BD, Oh C, Meyer S, Clemons P, Burger M, Vazquez F, Weir B, Kryukov GV, Church A, ... ... Root DE, et al. Abstract B38: Developing a functional genomics platform to interrogate rare pediatric cancers Cancer Research. 76. DOI: 10.1158/1538-7445.Pedca15-B38  0.455
2016 Aguirre AJ, Shao W, Xu H, Weir B, Vazquez F, Meyers R, Zhang C, Doshi M, Cowley GS, Ewachiw T, Rasheed Z, Golub TR, Stegmaier K, Roberts CW, Garraway LA, ... ... Root DE, et al. Abstract PR05: Genome-scale CRISPR-Cas9 screening to identify essential genes and pathways in pancreatic cancer Cancer Research. 76. DOI: 10.1158/1538-7445.Panca16-Pr05  0.437
2016 Berger AH, Brooks AN, Wu X, Shrestha Y, Chouinard C, Piccioni F, Bagul M, Kamburov A, Imielinski M, Hogstrom L, Zhu C, Yang X, Pantel S, Sakai R, Kaplan N, ... Root D, et al. Abstract 4368: High-throughput phenotyping of lung cancer somatic mutations Cancer Research. 76: 4368-4368. DOI: 10.1158/1538-7445.Am2016-4368  0.406
2016 Tseng Y, Hong A, Keskula P, Gill S, Cheah J, Kryukov G, Tsherniak A, Vazquez F, Cowley G, Oh C, Peng A, Sayeed A, Deasy R, Ronning P, Kantoff P, ... ... Root D, et al. Abstract 4367: Accelerating prediction of tumor vulnerabilities using next-generation cancer models Cancer Research. 76: 4367-4367. DOI: 10.1158/1538-7445.Am2016-4367  0.421
2015 Graham DB, Root DE. Resources for the design of CRISPR gene editing experiments. Genome Biology. 16: 260. PMID 26612492 DOI: 10.1186/S13059-015-0823-X  0.314
2015 Whittaker SR, Cowley GS, Wagner S, Luo F, Root DE, Garraway LA. Combined pan-RAF and MEK inhibition overcomes multiple resistance mechanisms to selective RAF inhibitors. Molecular Cancer Therapeutics. PMID 26351322 DOI: 10.1158/1535-7163.Mct-15-0136-T  0.407
2015 Wheeler DB, Zoncu R, Root DE, Sabatini DM, Sawyers CL. Identification of an oncogenic RAB protein. Science (New York, N.Y.). 350: 211-7. PMID 26338797 DOI: 10.1126/Science.Aaa4903  0.382
2015 Singh S, Wu X, Ljosa V, Bray MA, Piccioni F, Root DE, Doench JG, Boehm JS, Carpenter AE. Morphological Profiles of RNAi-Induced Gene Knockdown Are Highly Reproducible but Dominated by Seed Effects. Plos One. 10: e0131370. PMID 26197079 DOI: 10.1371/Journal.Pone.0131370  0.404
2015 Graham DB, Becker CE, Doan A, Goel G, Villablanca EJ, Knights D, Mok A, Ng AC, Doench JG, Root DE, Clish CB, Xavier RJ. Functional genomics identifies negative regulatory nodes controlling phagocyte oxidative burst. Nature Communications. 6: 7838. PMID 26194095 DOI: 10.1038/Ncomms8838  0.312
2015 Guda S, Brendel C, Renella R, Du P, Bauer DE, Canver MC, Grenier JK, Grimson AW, Kamran SC, Thornton J, de Boer H, Root DE, Milsom MD, Orkin SH, Gregory RI, et al. miRNA-embedded shRNAs for Lineage-specific BCL11A Knockdown and Hemoglobin F Induction. Molecular Therapy : the Journal of the American Society of Gene Therapy. 23: 1465-74. PMID 26080908 DOI: 10.1038/Mt.2015.113  0.313
2015 Chen CW, Koche RP, Sinha AU, Deshpande AJ, Zhu N, Eng R, Doench JG, Xu H, Chu SH, Qi J, Wang X, Delaney C, Bernt KM, Root DE, Hahn WC, et al. DOT1L inhibits SIRT1-mediated epigenetic silencing to maintain leukemic gene expression in MLL-rearranged leukemia. Nature Medicine. 21: 335-43. PMID 25822366 DOI: 10.1038/Nm.3832  0.409
2015 Wilson FH, Johannessen CM, Piccioni F, Tamayo P, Kim JW, Van Allen EM, Corsello SM, Capelletti M, Calles A, Butaney M, Sharifnia T, Gabriel SB, Mesirov JP, Hahn WC, Engelman JA, ... ... Root DE, et al. A functional landscape of resistance to ALK inhibition in lung cancer. Cancer Cell. 27: 397-408. PMID 25759024 DOI: 10.1016/J.Ccell.2015.02.005  0.332
2015 Wein MN, Spatz J, Nishimori S, Doench J, Root D, Babij P, Nagano K, Baron R, Brooks D, Bouxsein M, Pajevic PD, Kronenberg HM. HDAC5 controls MEF2C-driven sclerostin expression in osteocytes. Journal of Bone and Mineral Research : the Official Journal of the American Society For Bone and Mineral Research. 30: 400-11. PMID 25271055 DOI: 10.1002/Jbmr.2381  0.34
2015 Berger A, Brooks A, Wu X, Hogstrom L, Tirosh I, Piccioni F, Bagul M, Zhu C, Shretha Y, Root D, Tamayo P, Sakai R, Wong B, Subramanian A, Golub T, et al. Abstract PR12: High-throughput gene expression profiling as a generalizable assay for determination of mutation impact on gene function Cancer Research. 75. DOI: 10.1158/1538-7445.Transcagen-Pr12  0.418
2015 Berger AH, Kim E, Brooks A, Ilic N, Shrestha Y, Tseng Y, Wu X, Zou L, Kamburov A, Yang X, Zhu C, Keskula P, Seepo S, Hong A, Kantoff P, ... ... Root DE, et al. Abstract PR07: Towards precision functional genomics via next-generation functional mapping of cancer variants Cancer Research. 75: 957-957. DOI: 10.1158/1538-7445.Transcagen-Pr07  0.443
2015 Berger A, Brooks A, Wu X, Hogstrom L, Tirosh I, Piccioni F, Bagul M, Zhu C, Shretha Y, Root D, Tamayo P, Sakai R, Wong B, Subramanian A, Golub T, et al. Abstract PR04: High-throughput gene expression profiling as a generalizable assay for determination of mutation impact on gene function Cancer Research. 75. DOI: 10.1158/1538-7445.Compsysbio-Pr04  0.416
2015 Berger A, Kim E, Brooks A, Shrestha Y, Tseng Y, Wu X, Ilic N, Zou L, Kamburov A, Yang X, Zhu C, Keskula P, Seepo S, Hong A, Doench J, ... ... Root D, et al. Abstract 957: Towards precision functional genomics via next-generation functional mapping of cancer variants Molecular and Cellular Biology. DOI: 10.1158/1538-7445.Am2015-957  0.325
2015 Whittaker SR, Cowley GS, Wagner S, Luo F, Root DE, Garraway LA. Abstract C72: Combined pan-RAF and MEK inhibition overcomes multiple resistance mechanisms to selective RAF inhibitors Molecular Cancer Therapeutics. 14. DOI: 10.1158/1535-7163.Targ-15-C72  0.471
2014 Cowley GS, Weir BA, Vazquez F, Tamayo P, Scott JA, Rusin S, East-Seletsky A, Ali LD, Gerath WF, Pantel SE, Lizotte PH, Jiang G, Hsiao J, Tsherniak A, Dwinell E, ... ... Root DE, et al. Parallel genome-scale loss of function screens in 216 cancer cell lines for the identification of context-specific genetic dependencies. Scientific Data. 1: 140035. PMID 25984343 DOI: 10.1038/Sdata.2014.35  0.446
2014 Cowley GS, Weir BA, Vazquez F, Tamayo P, Scott JA, Rusin S, East-Seletsky A, Ali LD, Gerath WF, Pantel SE, Lizotte PH, Jiang G, Hsiao J, Tsherniak A, Dwinell E, ... ... Root DE, et al. Erratum: Parallel genome-scale loss of function screens in 216 cancer cell lines for the identification of context-specific genetic dependencies. Scientific Data. 1: 140044. PMID 25982629 DOI: 10.1038/Sdata.2014.44  0.373
2014 Doench JG, Hartenian E, Graham DB, Tothova Z, Hegde M, Smith I, Sullender M, Ebert BL, Xavier RJ, Root DE. Rational design of highly active sgRNAs for CRISPR-Cas9-mediated gene inactivation. Nature Biotechnology. 32: 1262-7. PMID 25184501 DOI: 10.1038/Nbt.3026  0.391
2014 Shao DD, Xue W, Krall EB, Bhutkar A, Piccioni F, Wang X, Schinzel AC, Sood S, Rosenbluh J, Kim JW, Zwang Y, Roberts TM, Root DE, Jacks T, Hahn WC. KRAS and YAP1 converge to regulate EMT and tumor survival. Cell. 158: 171-84. PMID 24954536 DOI: 10.1016/J.Cell.2014.06.004  0.423
2014 Placke T, Faber K, Nonami A, Putwain SL, Salih HR, Heidel FH, Krämer A, Root DE, Barbie DA, Krivtsov AV, Armstrong SA, Hahn WC, Huntly BJ, Sykes SM, Milsom MD, et al. Requirement for CDK6 in MLL-rearranged acute myeloid leukemia. Blood. 124: 13-23. PMID 24764564 DOI: 10.1182/Blood-2014-02-558114  0.413
2014 Nieland TJ, Logan DJ, Saulnier J, Lam D, Johnson C, Root DE, Carpenter AE, Sabatini BL. High content image analysis identifies novel regulators of synaptogenesis in a high-throughput RNAi screen of primary neurons. Plos One. 9: e91744. PMID 24633176 DOI: 10.1371/Journal.Pone.0091744  0.328
2014 Järås M, Miller PG, Chu LP, Puram RV, Fink EC, Schneider RK, Al-Shahrour F, Peña P, Breyfogle LJ, Hartwell KA, McConkey ME, Cowley GS, Root DE, Kharas MG, Mullally A, et al. Csnk1a1 inhibition has p53-dependent therapeutic efficacy in acute myeloid leukemia. The Journal of Experimental Medicine. 211: 605-12. PMID 24616378 DOI: 10.1084/Jem.20131033  0.369
2014 Knoechel B, Roderick JE, Williamson KE, Zhu J, Lohr JG, Cotton MJ, Gillespie SM, Fernandez D, Ku M, Wang H, Piccioni F, Silver SJ, Jain M, Pearson D, Kluk MJ, ... ... Root DE, et al. An epigenetic mechanism of resistance to targeted therapy in T cell acute lymphoblastic leukemia. Nature Genetics. 46: 364-70. PMID 24584072 DOI: 10.1038/Ng.2913  0.379
2014 Filone CM, Caballero IS, Dower K, Mendillo ML, Cowley GS, Santagata S, Rozelle DK, Yen J, Rubins KH, Hacohen N, Root DE, Hensley LE, Connor J. The master regulator of the cellular stress response (HSF1) is critical for orthopoxvirus infection. Plos Pathogens. 10: e1003904. PMID 24516381 DOI: 10.1371/Journal.Ppat.1003904  0.378
2014 Oh HS, Bryant KF, Nieland TJ, Mazumder A, Bagul M, Bathe M, Root DE, Knipe DM. A targeted RNA interference screen reveals novel epigenetic factors that regulate herpesviral gene expression. Mbio. 5: e01086-13. PMID 24496796 DOI: 10.1128/Mbio.01086-13  0.418
2014 Zhou P, Shaffer DR, Alvarez Arias DA, Nakazaki Y, Pos W, Torres AJ, Cremasco V, Dougan SK, Cowley GS, Elpek K, Brogdon J, Lamb J, Turley SJ, Ploegh HL, Root DE, et al. In vivo discovery of immunotherapy targets in the tumour microenvironment. Nature. 506: 52-7. PMID 24476824 DOI: 10.1038/Nature12988  0.365
2014 Chudnovsky Y, Kim D, Zheng S, Whyte WA, Bansal M, Bray MA, Gopal S, Theisen MA, Bilodeau S, Thiru P, Muffat J, Yilmaz OH, Mitalipova M, Woolard K, Lee J, ... ... Root DE, et al. ZFHX4 interacts with the NuRD core member CHD4 and regulates the glioblastoma tumor-initiating cell state. Cell Reports. 6: 313-24. PMID 24440720 DOI: 10.1016/J.Celrep.2013.12.032  0.412
2014 Giraud M, Jmari N, Du L, Carallis F, Nieland TJ, Perez-Campo FM, Bensaude O, Root DE, Hacohen N, Mathis D, Benoist C. An RNAi screen for Aire cofactors reveals a role for Hnrnpl in polymerase release and Aire-activated ectopic transcription. Proceedings of the National Academy of Sciences of the United States of America. 111: 1491-6. PMID 24434558 DOI: 10.1073/Pnas.1323535111  0.361
2014 Dunn GP, Cheung HW, Agarwalla PK, Thomas S, Zektser Y, Karst AM, Boehm JS, Weir BA, Berlin AM, Zou L, Getz G, Liu JF, Hirsch M, Vazquez F, Root DE, et al. In vivo multiplexed interrogation of amplified genes identifies GAB2 as an ovarian cancer oncogene. Proceedings of the National Academy of Sciences of the United States of America. 111: 1102-7. PMID 24385586 DOI: 10.1073/Pnas.1311909111  0.455
2014 Shalem O, Sanjana NE, Hartenian E, Shi X, Scott DA, Mikkelsen TS, Heckl D, Ebert BL, Root DE, Doench JG, Zhang F. Genome-scale CRISPR-Cas9 knockout screening in human cells. Science (New York, N.Y.). 343: 84-7. PMID 24336571 DOI: 10.1126/Science.1247005  0.474
2014 Mariño-Enríquez A, Ou WB, Cowley G, Luo B, Jonker AH, Mayeda M, Okamoto M, Eilers G, Czaplinski JT, Sicinska E, Wang Y, Taguchi T, Demetri GD, Root DE, Fletcher JA. Genome-wide functional screening identifies CDC37 as a crucial HSP90-cofactor for KIT oncogenic expression in gastrointestinal stromal tumors. Oncogene. 33: 1872-6. PMID 23584476 DOI: 10.1038/Onc.2013.127  0.383
2014 Knoechel B, Roderick J, Williamson K, Zhu J, Lohr J, Cotton M, Gillespie S, Fernandez D, Ku M, Wang H, Piccioni F, Silver S, Jain M, Pearson D, Kluk M, ... ... Root D, et al. Abstract 4782: Epigenetic resistance to Notch inhibition in T cell acute lymphoblastic leukemia Cancer Research. 74: 4782-4782. DOI: 10.1158/1538-7445.Am2014-4782  0.416
2014 Place CS, Cowley GS, Root DE, Garraway LA. Abstract 3429: Synthetic lethal RNAi screens to nominate potential therapeutic combinations for uveal melanoma Cancer Research. 74: 3429-3429. DOI: 10.1158/1538-7445.Am2014-3429  0.466
2013 Li L, Shen C, Nakamura E, Ando K, Signoretti S, Beroukhim R, Cowley GS, Lizotte P, Liberzon E, Bair S, Root DE, Tamayo P, Tsherniak A, Cheng SC, Tabak B, et al. SQSTM1 is a pathogenic target of 5q copy number gains in kidney cancer. Cancer Cell. 24: 738-50. PMID 24332042 DOI: 10.1016/J.Ccr.2013.10.025  0.314
2013 Johannessen CM, Johnson LA, Piccioni F, Townes A, Frederick DT, Donahue MK, Narayan R, Flaherty KT, Wargo JA, Root DE, Garraway LA. A melanocyte lineage program confers resistance to MAP kinase pathway inhibition. Nature. 504: 138-42. PMID 24185007 DOI: 10.1038/Nature12688  0.387
2013 Wagner JP, Wolf-Yadlin A, Sevecka M, Grenier JK, Root DE, Lauffenburger DA, MacBeath G. Receptor tyrosine kinases fall into distinct classes based on their inferred signaling networks. Science Signaling. 6: ra58. PMID 23861540 DOI: 10.4172/2153-0602.C1.003  0.305
2013 Dang M, Armbruster N, Miller MA, Cermeno E, Hartmann M, Bell GW, Root DE, Lauffenburger DA, Lodish HF, Herrlich A. Regulated ADAM17-dependent EGF family ligand release by substrate-selecting signaling pathways. Proceedings of the National Academy of Sciences of the United States of America. 110: 9776-81. PMID 23720309 DOI: 10.1073/Pnas.1307478110  0.308
2013 Liu Y, Marks K, Cowley GS, Carretero J, Liu Q, Nieland TJ, Xu C, Cohoon TJ, Gao P, Zhang Y, Chen Z, Altabef AB, Tchaicha JH, Wang X, Choe S, ... ... Root DE, et al. Metabolic and functional genomic studies identify deoxythymidylate kinase as a target in LKB1-mutant lung cancer. Cancer Discovery. 3: 870-9. PMID 23715154 DOI: 10.1158/2159-8290.Cd-13-0015  0.417
2013 Whittaker SR, Theurillat JP, Van Allen E, Wagle N, Hsiao J, Cowley GS, Schadendorf D, Root DE, Garraway LA. A genome-scale RNA interference screen implicates NF1 loss in resistance to RAF inhibition. Cancer Discovery. 3: 350-62. PMID 23288408 DOI: 10.1158/2159-8290.Cd-12-0470  0.403
2013 Shao DD, Tsherniak A, Gopal S, Weir BA, Tamayo P, Stransky N, Schumacher SE, Zack TI, Beroukhim R, Garraway LA, Margolin AA, Root DE, Hahn WC, Mesirov JP. ATARiS: computational quantification of gene suppression phenotypes from multisample RNAi screens. Genome Research. 23: 665-78. PMID 23269662 DOI: 10.1101/Gr.143586.112  0.472
2013 Leussis MP, Berry-Scott EM, Saito M, Jhuang H, de Haan G, Alkan O, Luce CJ, Madison JM, Sklar P, Serre T, Root DE, Petryshen TL. The ANK3 bipolar disorder gene regulates psychiatric-related behaviors that are modulated by lithium and stress. Biological Psychiatry. 73: 683-90. PMID 23237312 DOI: 10.1016/J.Biopsych.2012.10.016  0.315
2013 Gruener BM, Chuang C, Linde I, Chiou S, Readhead B, Dudley J, Doench J, Root D, Winslow MM. Abstract B230: Targeting mitochondria for metastatic lung adenocarcinoma specific lethality. Molecular Cancer Therapeutics. 12. DOI: 10.1158/1535-7163.Targ-13-B230  0.458
2013 Whittaker SR, Luo F, Hsiao J, Cowley GS, Root DE, Garraway LA. Abstract B108: A genome-scale shRNA synthetic lethal screen identifies enhancers of sensitivity to RAF inhibition. Molecular Cancer Therapeutics. 12. DOI: 10.1158/1535-7163.Targ-13-B108  0.509
2013 Johannessen CM, Johnson LA, Piccioni F, Townes A, Frederick DT, Flaherty KT, Wargo JA, Root DE, Garraway LA. Abstract PR10: A cyclic AMP-regulated melanocyte lineage program confers resistance to MAP kinase pathway inhibition Molecular Cancer Therapeutics. 12. DOI: 10.1158/1535-7163.Pms-Pr10  0.376
2013 Whittaker SR, Luo F, Hsiao J, Cowley GS, Root DE, Garraway LA. Abstract B27: Probing synthetic lethal interactions with RAF inhibition in BRAF-mutant colorectal cancer Molecular Cancer Therapeutics. 12. DOI: 10.1158/1535-7163.Pms-B27  0.5
2013 Rosenbluh J, Nijhawan D, Cox AG, Li X, Neal JT, Schafer EJ, Zack TI, Wang X, Tsherniak A, Schinzel AC, Shao DD, Schumacher SE, Weir BA, Vazquez F, Cowley GS, ... Root DE, et al. Erratum: β-catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis (Cell (2012) 151 (1457-1473)) Cell. 153: 267-270. DOI: 10.1016/J.Cell.2013.03.007  0.323
2012 Rosenbluh J, Nijhawan D, Cox AG, Li X, Neal JT, Schafer EJ, Zack TI, Wang X, Tsherniak A, Schinzel AC, Shao DD, Schumacher SE, Weir BA, Vazquez F, Cowley GS, ... Root DE, et al. β-Catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis. Cell. 151: 1457-73. PMID 23245941 DOI: 10.1016/J.Cell.2012.11.026  0.422
2012 Nijhawan D, Zack TI, Ren Y, Strickland MR, Lamothe R, Schumacher SE, Tsherniak A, Besche HC, Rosenbluh J, Shehata S, Cowley GS, Weir BA, Goldberg AL, Mesirov JP, Root DE, et al. Cancer vulnerabilities unveiled by genomic loss. Cell. 150: 842-54. PMID 22901813 DOI: 10.1016/J.Cell.2012.07.023  0.348
2012 Ren Y, Cheung HW, von Maltzhan G, Agrawal A, Cowley GS, Weir BA, Boehm JS, Tamayo P, Karst AM, Liu JF, Hirsch MS, Mesirov JP, Drapkin R, Root DE, Lo J, et al. Targeted tumor-penetrating siRNA nanocomplexes for credentialing the ovarian cancer oncogene ID4. Science Translational Medicine. 4: 147ra112. PMID 22896676 DOI: 10.1126/Scitranslmed.3003778  0.411
2012 Ashton JM, Balys M, Neering SJ, Hassane DC, Cowley G, Root DE, Miller PG, Ebert BL, McMurray HR, Land H, Jordan CT. Gene sets identified with oncogene cooperativity analysis regulate in vivo growth and survival of leukemia stem cells. Cell Stem Cell. 11: 359-72. PMID 22863534 DOI: 10.1016/J.Stem.2012.05.024  0.44
2012 Wen Q, Goldenson B, Silver SJ, Schenone M, Dancik V, Huang Z, Wang LZ, Lewis TA, An WF, Li X, Bray MA, Thiollier C, Diebold L, Gilles L, Vokes MS, ... ... Root DE, et al. Identification of regulators of polyploidization presents therapeutic targets for treatment of AMKL. Cell. 150: 575-89. PMID 22863010 DOI: 10.1016/J.Cell.2012.06.032  0.419
2012 Wood KC, Konieczkowski DJ, Johannessen CM, Boehm JS, Tamayo P, Botvinnik OB, Mesirov JP, Hahn WC, Root DE, Garraway LA, Sabatini DM. MicroSCALE screening reveals genetic modifiers of therapeutic response in melanoma. Science Signaling. 5: rs4. PMID 22589389 DOI: 10.1126/Scisignal.2002612  0.351
2012 Ren Y, Cheung HW, Drapkin R, Root D, Lo J, Fogal V, Ruoslahti E, Hahn W, Bhatia S, von Maltzahn G, Agrawal A, Cowley G, Weir B, Boehm J, Tamayo P, et al. Abstract PR5: Treatment of ovarian cancer with targeted tumor-penetrating siRNA nanocomplexes Cancer Research. 72: PR5-PR5. DOI: 10.1158/1538-7445.Nonrna12-Pr5  0.416
2012 Liu Y, Cowley GS, Cohoon TJ, Root DE, Kwok-kin W. Abstract LB-260: Identification of DTYMK and CHEK1 as therapeutic targets in LKB1 mutant non-small cell lung cancer Cancer Research. 72. DOI: 10.1158/1538-7445.Am2012-Lb-260  0.437
2012 Sánchez-Rivera FJ, Feldser DM, Doench J, Bhutkar A, Meacham CE, Root DE, Hemann MT, Jacks T. Abstract 2957: Uncovering tumor-specific components of the p53 pathway using mouse models and RNAi Cancer Research. 72: 2957-2957. DOI: 10.1158/1538-7445.Am2012-2957  0.392
2012 Johannessen CM, Johnson LA, Lam D, Hamm L, Piccioni F, Root D, Garraway L. Abstract PR5: Identifying mechanisms of drug resistance to MAPK pathway inhibition via genome-scale rescue screens Clinical Cancer Research. 18. DOI: 10.1158/1078-0432.Mechres-Pr5  0.427
2012 Whittaker S, Hodis E, Wagle N, Hsiao J, Cowley G, Root D, Garraway L. Abstract B20: A genome-scale RNA interference screen for resistance mechanisms to BRAF inhibition in melanoma Clinical Cancer Research. 18. DOI: 10.1158/1078-0432.Mechres-B20  0.474
2011 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 TR, Jänne PA, Hahn WC. Amplification of CRKL induces transformation and epidermal growth factor receptor inhibitor resistance in human non-small cell lung cancers. Cancer Discovery. 1: 608-25. PMID 22586683 DOI: 10.1158/2159-8290.Cd-11-0046  0.362
2011 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, ... ... Root DE, et al. Systematic discovery of TLR signaling components delineates viral-sensing circuits. Cell. 147: 853-67. PMID 22078882 DOI: 10.1016/J.Cell.2011.10.022  0.326
2011 Guttman M, Donaghey J, Carey BW, Garber M, Grenier JK, Munson G, Young G, Lucas AB, Ach R, Bruhn L, Yang X, Amit I, Meissner A, Regev A, Rinn JL, ... Root DE, et al. lincRNAs act in the circuitry controlling pluripotency and differentiation. Nature. 477: 295-300. PMID 21874018 DOI: 10.1038/Nature10398  0.395
2011 Possemato R, Marks KM, Shaul YD, Pacold ME, Kim D, Birsoy K, Sethumadhavan S, Woo HK, Jang HG, Jha AK, Chen WW, Barrett FG, Stransky N, Tsun ZY, Cowley GS, ... ... Root DE, et al. Functional genomics reveal that the serine synthesis pathway is essential in breast cancer. Nature. 476: 346-50. PMID 21760589 DOI: 10.1038/Nature10350  0.447
2011 Cheung HW, Cowley GS, Weir BA, Boehm JS, Rusin S, Scott JA, East A, Ali LD, Lizotte PH, Wong TC, Jiang G, Hsiao J, Mermel CH, Getz G, Barretina J, ... ... Root DE, et al. Systematic investigation of genetic vulnerabilities across cancer cell lines reveals lineage-specific dependencies in ovarian cancer. Proceedings of the National Academy of Sciences of the United States of America. 108: 12372-7. PMID 21746896 DOI: 10.1073/Pnas.1109363108  0.452
2011 Yang X, Boehm JS, Yang X, Salehi-Ashtiani K, Hao T, Shen Y, Lubonja R, Thomas SR, Alkan O, Bhimdi T, Green TM, Johannessen CM, Silver SJ, Nguyen C, Murray RR, ... ... Root DE, et al. A public genome-scale lentiviral expression library of human ORFs. Nature Methods. 8: 659-61. PMID 21706014 DOI: 10.1038/Nmeth.1638  0.388
2011 Marotta LL, Almendro V, Marusyk A, Shipitsin M, Schemme J, Walker SR, Bloushtain-Qimron N, Kim JJ, Choudhury SA, Maruyama R, Wu Z, Gönen M, Mulvey LA, Bessarabova MO, Huh SJ, ... ... Root DE, et al. The JAK2/STAT3 signaling pathway is required for growth of CD44⁺CD24⁻ stem cell-like breast cancer cells in human tumors. The Journal of Clinical Investigation. 121: 2723-35. PMID 21633165 DOI: 10.1172/Jci44745  0.353
2011 Ketela T, Heisler LE, Brown KR, Ammar R, Kasimer D, Surendra A, Ericson E, Blakely K, Karamboulas D, Smith AM, Durbic T, Arnoldo A, Cheung-Ong K, Koh JL, Gopal S, ... ... Root DE, et al. A comprehensive platform for highly multiplexed mammalian functional genetic screens. Bmc Genomics. 12: 213. PMID 21548937 DOI: 10.1186/1471-2164-12-213  0.438
2011 Brigham PMGS, Miller W, Al-Shahrour F, Hartwell KA, Chu LP, Marcus J, Puram RV, Puissant A, Callahan K, Ashton JM, McConkey ME, Poveromo L, Cowley G, Kharas MG, Labelle M, ... ... Root DE, et al. In Vivo RNA Interference Screening Identifies a Leukemia-Specific Dependence on Integrin Beta 3 Signaling Blood. 118: 758-758. DOI: 10.1182/Blood.V118.21.758.758  0.451
2011 Ashton JM, Balys M, Neering S, Cowley G, Root DE, Miller PG, Ebert B, McMurray H, Hassane DC, Land H, Jordan CT. Oncogene Cooperativity Analysis Reveals a Novel Set of Genes That Regulate the In Vivo Growth and Survival of Leukemia Stem Cells Blood. 118: 553-553. DOI: 10.1182/Blood.V118.21.553.553  0.458
2011 Banerji S, Barretina J, Crago A, Frederick A, Okamoto M, Weir B, Cowley G, Root D, Ladanyi M, Singer S, Meyerson ML. Abstract 4972: High-throughput functional profiling of dedifferentiated liposarcoma cell lines Cancer Research. 71: 4972-4972. DOI: 10.1158/1538-7445.Am2011-4972  0.478
2010 Johannessen CM, Boehm JS, Kim SY, Thomas SR, Wardwell L, Johnson LA, Emery CM, Stransky N, Cogdill AP, Barretina J, Caponigro G, Hieronymus H, Murray RR, Salehi-Ashtiani K, Hill DE, ... ... Root DE, et al. COT drives resistance to RAF inhibition through MAP kinase pathway reactivation. Nature. 468: 968-72. PMID 21107320 DOI: 10.1038/Nature09627  0.378
2010 Smolen GA, Zhang J, Zubrowski MJ, Edelman EJ, Luo B, Yu M, Ng LW, Scherber CM, Schott BJ, Ramaswamy S, Irimia D, Root DE, Haber DA. A genome-wide RNAi screen identifies multiple RSK-dependent regulators of cell migration. Genes & Development. 24: 2654-65. PMID 21062900 DOI: 10.1101/Gad.1989110  0.46
2010 Vicent S, Chen R, Sayles LC, Lin C, Walker RG, Gillespie AK, Subramanian A, Hinkle G, Yang X, Saif S, Root DE, Huff V, Hahn WC, Sweet-Cordero EA. Wilms tumor 1 (WT1) regulates KRAS-driven oncogenesis and senescence in mouse and human models. The Journal of Clinical Investigation. 120: 3940-52. PMID 20972333 DOI: 10.1172/Jci44165  0.444
2010 Pavri R, Gazumyan A, Jankovic M, Di Virgilio M, Klein I, Ansarah-Sobrinho C, Resch W, Yamane A, Reina San-Martin B, Barreto V, Nieland TJ, Root DE, Casellas R, Nussenzweig MC. Activation-induced cytidine deaminase targets DNA at sites of RNA polymerase II stalling by interaction with Spt5. Cell. 143: 122-33. PMID 20887897 DOI: 10.1016/J.Cell.2010.09.017  0.317
2010 Schreiber SL, Shamji AF, Clemons PA, Hon C, Koehler AN, Munoz B, Palmer M, Stern AM, Wagner BK, Powers S, Lowe SW, Guo X, Krasnitz A, Sawey ET, ... ... Root DE, et al. Towards patient-based cancer therapeutics. Nature Biotechnology. 28: 904-6. PMID 20829823 DOI: 10.1038/Nbt0910-904  0.312
2010 Barretina J, Taylor BS, Banerji S, Ramos AH, Lagos-Quintana M, Decarolis PL, Shah K, Socci ND, Weir BA, Ho A, Chiang DY, Reva B, Mermel CH, Getz G, Antipin Y, ... ... Root DE, et al. Subtype-specific genomic alterations define new targets for soft-tissue sarcoma therapy. Nature Genetics. 42: 715-21. PMID 20601955 DOI: 10.1038/Ng.619  0.403
2010 Gohil VM, Nilsson R, Belcher-Timme CA, Luo B, Root DE, Mootha VK. Mitochondrial and nuclear genomic responses to loss of LRPPRC expression. The Journal of Biological Chemistry. 285: 13742-7. PMID 20220140 DOI: 10.1074/Jbc.M109.098400  0.415
2010 Kim SY, Dunn IF, Firestein R, Gupta P, Wardwell L, Repich K, Schinzel AC, Wittner B, Silver SJ, Root DE, Boehm JS, Ramaswamy S, Lander ES, Hahn WC. CK1epsilon is required for breast cancers dependent on beta-catenin activity. Plos One. 5: e8979. PMID 20126544 DOI: 10.1371/Journal.Pone.0008979  0.341
2010 Wen QJ, Silver S, Lewis T, Ponduru S, Dancik V, Goldenson B, Bray M, Carpenter A, Clemons P, Root D, Stern A, Gould R, Crispino J. A Kinome shRNA Screen to Identify Pathways That Regulate Megakaryocyte Polyploidization and New Targets for Differentiation Therapy Blood. 116: 89-89. DOI: 10.1182/Blood.V116.21.89.89  0.455
2009 Zhang Q, Gu J, Li L, Liu J, Luo B, Cheung HW, Boehm JS, Ni M, Geisen C, Root DE, Polyak K, Brown M, Richardson AL, Hahn WC, Kaelin WG, et al. Control of cyclin D1 and breast tumorigenesis by the EglN2 prolyl hydroxylase. Cancer Cell. 16: 413-24. PMID 19878873 DOI: 10.1016/J.Ccr.2009.09.029  0.337
2009 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, ... ... Root DE, et al. Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1. Nature. 462: 108-12. PMID 19847166 DOI: 10.1038/Nature08460  0.46
2009 Hahn CK, Berchuck JE, Ross KN, Kakoza RM, Clauser K, Schinzel AC, Ross L, Galinsky I, Davis TN, Silver SJ, Root DE, Stone RM, DeAngelo DJ, Carroll M, Hahn WC, et al. Proteomic and genetic approaches identify Syk as an AML target. Cancer Cell. 16: 281-94. PMID 19800574 DOI: 10.1016/J.Ccr.2009.08.018  0.418
2009 Amit I, Garber M, Chevrier N, Leite AP, Donner Y, Eisenhaure T, Guttman M, Grenier JK, Li W, Zuk O, Schubert LA, Birditt B, Shay T, Goren A, Zhang X, ... ... Root DE, et al. Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses. Science (New York, N.Y.). 326: 257-63. PMID 19729616 DOI: 10.1126/Science.1179050  0.352
2009 Scholl C, Fröhling S, Dunn IF, Schinzel AC, Barbie DA, Kim SY, Silver SJ, Tamayo P, Wadlow RC, Ramaswamy S, Döhner K, Bullinger L, Sandy P, Boehm JS, Root DE, et al. Synthetic lethal interaction between oncogenic KRAS dependency and STK33 suppression in human cancer cells. Cell. 137: 821-34. PMID 19490892 DOI: 10.1016/J.Cell.2009.03.017  0.468
2009 Jones TR, Carpenter AE, Lamprecht MR, Moffat J, Silver SJ, Grenier JK, Castoreno AB, Eggert US, Root DE, Golland P, Sabatini DM. Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning. Proceedings of the National Academy of Sciences of the United States of America. 106: 1826-31. PMID 19188593 DOI: 10.1073/Pnas.0808843106  0.323
2009 Boehm JS, Cowley G, Weir B, Barretina J, Luo B, Cheung HW, Rusin S, Scott J, Derr A, Tsherniak A, Gopalakrishnan S, Tamayo P, Barbie D, Yang X, Piqani B, ... ... Root D, et al. Abstract A23: An integrated platform for the functional annotation of the cancer genome Cancer Research. 69. DOI: 10.1158/0008-5472.Fbcr09-A23  0.51
2008 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, ... ... Root DE, et al. Highly parallel identification of essential genes in cancer cells. Proceedings of the National Academy of Sciences of the United States of America. 105: 20380-5. PMID 19091943 DOI: 10.1073/Pnas.0810485105  0.5
2008 Firestein R, Bass AJ, Kim SY, Dunn IF, Silver SJ, Guney I, Freed E, Ligon AH, Vena N, Ogino S, Chheda MG, Tamayo P, Finn S, Shrestha Y, Boehm JS, ... ... Root DE, et al. CDK8 is a colorectal cancer oncogene that regulates beta-catenin activity. Nature. 455: 547-51. PMID 18794900 DOI: 10.1038/Nature07179  0.386
2008 Ebert BL, Pretz J, Bosco J, Chang CY, Tamayo P, Galili N, Raza A, Root DE, Attar E, Ellis SR, Golub TR. Identification of RPS14 as a 5q- syndrome gene by RNA interference screen. Nature. 451: 335-9. PMID 18202658 DOI: 10.1038/Nature06494  0.367
2007 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, ... ... Root DE, et al. Integrative genomic approaches identify IKBKE as a breast cancer oncogene. Cell. 129: 1065-79. PMID 17574021 DOI: 10.1016/J.Cell.2007.03.052  0.413
2007 Ebert BL, Pretz J, Bosco J, Chang CY, Tamayo P, Galili N, Raza A, Root D, Attar E, Ellis SR, Golub TR. Identification of RPS14 as the 5q-Syndrome Gene by RNA Interference Screen. Blood. 110: 1-1. DOI: 10.1182/Blood.V110.11.1.1  0.359
2006 Echeverri CJ, Beachy PA, Baum B, Boutros M, Buchholz F, Chanda SK, Downward J, Ellenberg J, Fraser AG, Hacohen N, Hahn WC, Jackson AL, Kiger A, Linsley PS, Lum L, ... ... Root DE, et al. Minimizing the risk of reporting false positives in large-scale RNAi screens. Nature Methods. 3: 777-9. PMID 16990807 DOI: 10.1038/Nmeth1006-777  0.323
2006 Root DE, Hacohen N, Hahn WC, Lander ES, Sabatini DM. Genome-scale loss-of-function screening with a lentiviral RNAi library. Nature Methods. 3: 715-9. PMID 16929317 DOI: 10.1038/Nmeth924  0.404
2006 Moffat J, Grueneberg DA, Yang X, Kim SY, Kloepfer AM, Hinkle G, Piqani B, Eisenhaure TM, Luo B, Grenier JK, Carpenter AE, Foo SY, Stewart SA, Stockwell BR, Hacohen N, ... ... Root DE, et al. A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell. 124: 1283-98. PMID 16564017 DOI: 10.1016/J.Cell.2006.01.040  0.466
2004 Kelley BP, Lunn MR, Root DE, Flaherty SP, Martino AM, Stockwell BR. A flexible data analysis tool for chemical genetic screens. Chemistry & Biology. 11: 1495-503. PMID 15556000 DOI: 10.1016/J.Chembiol.2004.08.026  0.558
2004 Lunn MR, Root DE, Martino AM, Flaherty SP, Kelley BP, Coovert DD, Burghes AH, Man NT, Morris GE, Zhou J, Androphy EJ, Sumner CJ, Stockwell BR. Indoprofen upregulates the survival motor neuron protein through a cyclooxygenase-independent mechanism. Chemistry & Biology. 11: 1489-93. PMID 15555999 DOI: 10.1016/J.Chembiol.2004.08.024  0.574
2003 Root DE, Kelley BP, Stockwell BR. Detecting spatial patterns in biological array experiments. Journal of Biomolecular Screening. 8: 393-8. PMID 14567791 DOI: 10.1177/1087057103254282  0.535
2003 Root DE, Flaherty SP, Kelley BP, Stockwell BR. Biological mechanism profiling using an annotated compound library. Chemistry & Biology. 10: 881-92. PMID 14522058 DOI: 10.1016/J.Chembiol.2003.08.009  0.573
2003 Kelley BP, Sharan R, Karp RM, Sittler T, Root DE, Stockwell BR, Ideker T. Conserved pathways within bacteria and yeast as revealed by global protein network alignment. Proceedings of the National Academy of Sciences of the United States of America. 100: 11394-9. PMID 14504397 DOI: 10.1073/Pnas.1534710100  0.536
2002 Root DE, Kelley BP, Stockwell BR. Global analysis of large-scale chemical and biological experiments. Current Opinion in Drug Discovery & Development. 5: 355-60. PMID 12058610  0.56
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