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David Root

Research Profile

Anatomy

Tumor Cell Line

Living Beings

Disorders

Chemicals & Drugs

Physiology

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Publications

TOP 3
Diane D Shao; Nicolas Stransky; Pablo Tamayo; Aviad Tsherniak; Barbara A Weir; Travis I Zack; Rameen Beroukhim; Levi A Garraway; Shuba Gopal; William C Hahn; Adam A Margolin; David E Root; Steven E Schumacher; Jill P Mesirov
ATARiS: computational quantification of gene suppression phenotypes from multisample RNAi screens.
Julie-Aurore Losman; Christine McMahon; David E Root; Rebekka K Schneider; Glenn S Cowley; Benjamin L Ebert; Peppi Koivunen; Sungwoo Lee; Ryan E Looper; William G Kaelin
(R)-2-hydroxyglutarate is sufficient to promote leukemogenesis and its effects are reversible.
Joseph Rosenbluh; Eric J Schafer; Anna C Schinzel; Steven E Schumacher; Diane D Shao; Aviad Tsherniak; Francisca Vazquez; Xiaoxing Wang; Barbara A Weir; Travis I Zack; Rameen Beroukhim; Glenn S Cowley; Andrew G Cox; Wolfram Goessling; Calvin J Kuo; Xingnan Li; Jill P Mesirov; James T Neal; Deepak Nijhawan; David E Root; William C Hahn
β-Catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis.

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All Publications

2013: Diane D Shao; Nicolas Stransky; Pablo Tamayo; Aviad Tsherniak; Barbara A Weir; Travis I Zack; Rameen Beroukhim; Levi A Garraway; Shuba Gopal; William C Hahn; Adam A Margolin; David E Root; Steven E Schumacher; Jill P Mesirov
ATARiS: computational quantification of gene suppression phenotypes from multisample RNAi screens.
Genome research 2013;23(4):665-78.
2013: Julie-Aurore Losman; Christine McMahon; David E Root; Rebekka K Schneider; Glenn S Cowley; Benjamin L Ebert; Peppi Koivunen; Sungwoo Lee; Ryan E Looper; William G Kaelin
(R)-2-hydroxyglutarate is sufficient to promote leukemogenesis and its effects are reversible.
Science (New York, N.Y.) 2013;339(6127):1621-5.
2012: Joseph Rosenbluh; Eric J Schafer; Anna C Schinzel; Steven E Schumacher; Diane D Shao; Aviad Tsherniak; Francisca Vazquez; Xiaoxing Wang; Barbara A Weir; Travis I Zack; Rameen Beroukhim; Glenn S Cowley; Andrew G Cox; Wolfram Goessling; Calvin J Kuo; Xingnan Li; Jill P Mesirov; James T Neal; Deepak Nijhawan; David E Root; William C Hahn
β-Catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis.
Cell 2012;151(7):1457-73.
2012: Deepak Nijhawan; Yin Ren; David E Root; Joseph Rosenbluh; Steven E Schumacher; Shyemaa Shehata; Matthew R Strickland; Aviad Tsherniak; Barbara A Weir; Travis I Zack; Rameen Beroukhim; Henrike C Besche; Sangeeta N Bhatia; Glenn S Cowley; Alfred L Goldberg; Rebecca Lamothe; Jill P Mesirov; William C Hahn
Cancer vulnerabilities unveiled by genomic loss.
Cell 2012;150(4):842-54.
2012: Yin Ren; David E Root; Erkki Ruoslahti; Pablo Tamayo; Geoffrey von Maltzhan; Barbara A Weir; Amit Agrawal; Jesse S Boehm; Hiu Wing Cheung; Glenn S Cowley; Ronny Drapkin; Valentina Fogal; William C Hahn; Michelle S Hirsch; Alison M Karst; Joyce F Liu; Justin Lo; Jill P Mesirov; Sangeeta N Bhatia
Targeted tumor-penetrating siRNA nanocomplexes for credentialing the ovarian cancer oncogene ID4.
Science translational medicine 2012;4(147):147ra112.
2011: Hihu Wing Cheung; Jinyan Du; Jeffrey A Engelman; Todd R Golub; Jesse S Boehm; Mohit Butaney; Frank He; Pasi A Janne; Biao Luo; Matthew Meyerson; David E Root; Lecia V Sequist; Xiaoxing Wang; Barbara A Weir; William C Hahn
Amplification of CRKL induces transformation and epidermal growth factor receptor inhibitor resistance in human non-small cell lung cancers.
Cancer discovery 2011;1(7):608-25.
2011: Nicolas Chevrier; Mark F Ciaccio; Karl R Clauser; Marciela M DeGrace; Thomas M Eisenhaure; Manuel Garber; Irit Gat-Viks; Matteo Iannacone; Richard B Jones; Philipp Mertins; Hongkun Park; Aviv Regev; Jacob Robinson; David E Root; Alex K Shalek; Amy Sutton; Elena Tonti; Ulrich von Andrian; Nir Yosef; Ido Amit; Mette S Andersen; Maxim N Artyomov; Steven A Carr; Nir Hacohen
Systematic discovery of TLR signaling components delineates viral-sensing circuits.
Cell 2011;147(4):853-67.
2011: Mitchell Guttman; Robert Ach; Ido Amit; Laurakay Bruhn; Bryce W Carey; Julie Donaghey; Manuel Garber; Jennifer K Grenier; Anne Bergstrom Lucas; Alexander Meissner; Glen Munson; Aviv Regev; John L Rinn; David E Root; Xiaoping Yang; Geneva Young; Eric S Lander
lincRNAs act in the circuitry controlling pluripotency and differentiation.
Nature 2011;477(7364):295-300.
2011: Richard Possemato; David E Root; Shalini Sethumadhavan; Yoav D Shaul; Nicolas Stransky; Zhi-Yang Tsun; Hin-Koon Woo; Bingbing Yuan; Jordi Barretina; Francesca G Barrett; kivanc birsoy; Elena F Brachtel; Albert M Chan; Walter W Chen; Glenn S Cowley; Edward M Driggers; Levi A Garraway; Peggy P Hsu; Hyun G Jang; Abhishek K Jha; Nada Y Kalaany; Dohoon Kim; Kevin M Marks; Mari Mino-Kenudson; Kathleen Ottina; Michael E Pacold; David M Sabatini
Functional genomics reveal that the serine synthesis pathway is essential in breast cancer.
Nature 2011;476(7360):346-50.
2011: Hiu Wing Cheung; Glenn S Cowley; Ronny Drapkin; Alexandra East; Levi A Garraway; Gad Getz; Shuba Gopal; Joshua Gould; Levi D Ali; Jordi Barretina; Sangeeta N Bhatia; Jesse S Boehm; Jessica Hsiao; Guozhi Jiang; Eric S Lander; Patrick H Lizotte; Biao Luo; Craig H Mermel; Jill P Mesirov; Matthew Meyerson; Yin Ren; David E Root; Scott Rusin; Justine A Scott; Nicolas Stransky; Pablo Tamayo; Aviad Tsherniak; Barbara A Weir; Terence C Wong; William C Hahn
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 2011;108(30):12372-7.
2011: Lauren L C Marotta; Andriy Marusyk; Reo Maruyama; Laura A Mulvey; Tatiana Nikolskaya; Yuri Nikolsky; So Yeon Park; VANESSA ALMENDRO; Karen S Anderson; Marina O Bessarabova; Noga Bloushtain-Qimron; Sibgat A Choudhury; David A Frank; Mithat Gönen; William C Hahn; Sung Jin Huh; Jessica J Kim; So Young Kim; Hee Eun Lee; X Shirley Liu; Andrea L Richardson; David E Root; Janina Schemme; Michail Shipitsin; Serena J Silver; Sarah R Walker; Zhenhua Wu; Kornelia Polyak
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 2011;121(7):2723-35.
2010: So Young Kim; Ian F Dunn; Ron Firestein; Piyush Gupta; Leslie Wardwell; Kara Repich; Anna C Schinzel; Ben Wittner; Serena J Silver; David E Root; Jesse S Boehm; Sridhar Ramaswamy; Eric S Lander; William C Hahn
CK1epsilon is required for breast cancers dependent on beta-catenin activity.
PloS one 2010;5(2):e8979.
2009: Sagi D Shapira; Irit Gat-Viks; Bennett O V Shum; Amelie Dricot; Marciela M de Grace; Liguo Wu; Piyush B Gupta; Tong Hao; Serena J Silver; David E Root; David E Hill; Aviv Regev; Nir Hacohen
A physical and regulatory map of host-influenza interactions reveals pathways in H1N1 infection.
Cell 2009;139(7):1255-67.
2009: Qing Zhang; Jinming Gu; Lianjie Li; Jiayun Liu; Biao Luo; Hiu Wing Cheung; Jesse S Boehm; Min Ni; Christoph Geisen; David E Root; Kornelia Polyak; Myles Brown; Andrea L Richardson; William C Hahn; William G Kaelin; Archana Bommi-Reddy
Control of cyclin D1 and breast tumorigenesis by the EglN2 prolyl hydroxylase.
Cancer cell 2009;16(5):413-24.
2009: Ido Amit; manuel garber; Nicolas Chevrier; Ana Paula Leite; Yoni Donner; Thomas Eisenhaure; Mitchell Guttman; Jennifer K Grenier; Weibo Li; Or Zuk; Lisa A Schubert; Brian Birditt; Tal Shay; Alon Goren; Xiaolan Zhang; Zachary Smith; Raquel Deering; Rebecca C McDonald; Moran Cabili; Bradley E Bernstein; John L Rinn; Alex Meissner; David E Root; Nir Hacohen; Aviv Regev
Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses.
Science (New York, N.Y.) 2009;326(5950):257-63.
2008: Ron Firestein; Adam J Bass; So Young Kim; Ian F Dunn; Serena J Silver; Isil Guney; Ellen Freed; Azra H Ligon; Natalie Vena; Shuji Ogino; Milan G Chheda; Pablo Tamayo; Stephen Finn; Yashaswi Shrestha; Jesse S Boehm; Supriya Jain; Emeric Bojarski; Craig Mermel; Jordi Barretina; Jennifer A Chan; Jose Baselga; Josep Tabernero; David E Root; Charles S Fuchs; Massimo Loda; Ramesh A Shivdasani; Matthew Meyerson; William C Hahn
CDK8 is a colorectal cancer oncogene that regulates beta-catenin activity.
Nature 2008;455(7212):547-51.
2008: Benjamin L Ebert; Jennifer Pretz; Jocelyn Bosco; Cindy Y Chang; Pablo Tamayo; Naomi Galili; Azra Raza; David E Root; Eyal Attar; Steven R Ellis; Todd R Golub
Identification of RPS14 as a 5q- syndrome gene by RNA interference screen.
Nature 2008;451(7176):335-9.
2007: Jesse S Boehm; Jean J Zhao; Jun Yao; So Young Kim; Ron Firestein; Ian F Dunn; Sarah K Sjostrom; Levi A Garraway; Stanislawa Weremowicz; Andrea L Richardson; Heidi Greulich; Carly J Stewart; Laura A Mulvey; Rhine R Shen; Lauren Ambrogio; Tomoko Hirozane-Kishikawa; David E Hill; Marc Vidal; Matthew Meyerson; Jennifer K Grenier; Greg Hinkle; David E Root; Thomas M Roberts; Eric S Lander; Kornelia Polyak; William C Hahn
Integrative genomic approaches identify IKBKE as a breast cancer oncogene.
Cell 2007;129(6):1065-79.
2006: Christophe Echeverri; Philip A Beachy; Buzz Baum; Michael Boutros; Frank Buchholz; Sumit K Chanda; Julian Downward; Jan Ellenberg; Andrew G Fraser; Nir Hacohen; William C Hahn; Aimee L Jackson; Amy Kiger; Peter Linsley; Lawrence Lum; Yong Ma; Bernard Mathey-Prévôt; David E Root; David M Sabatini; Jussi Taipale; Norbert Perrimon; René Bernards
Minimizing the risk of reporting false positives in large-scale RNAi screens.
Nature methods 2006;3(10):777-9.
2006: David E Root; Nir Hacohen; William C Hahn; Eric S Lander; David M Sabatini
Genome-scale loss-of-function screening with a lentiviral RNAi library.
Nature methods 2006;3(9):715-9.
2006: Jason Moffat; Dorre A Grueneberg; Xiaoping Yang; So Young Kim; Angela M Kloepfer; Gregory Hinkle; Bruno Piqani; Thomas M Eisenhaure; Biao Luo; Jennifer K Grenier; Anne E Carpenter; Shi Yin Foo; Sheila A Stewart; Brent R Stockwell; Nir Hacohen; William C Hahn; Eric S Lander; David M Sabatini; David E Root
A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen.
Cell 2006;124(6):1283-98.
2004: Brian P Kelley; Mitchell R Lunn; David E Root; Stephen P Flaherty; Allison M Martino; Brent R Stockwell
A flexible data analysis tool for chemical genetic screens.
Chemistry & biology 2004;11(11):1495-503.
2004: Mitchell R Lunn; David E Root; Allison M Martino; Stephen P Flaherty; Brian P Kelley; Daniel D Coovert; Arthur H Burghes; Nguyen Thi Man; Glenn E Morris; Jianhua Zhou; Elliot J Androphy; CHARLOTTE SUMNER; Brent R Stockwell
Indoprofen upregulates the survival motor neuron protein through a cyclooxygenase-independent mechanism.
Chemistry & biology 2004;11(11):1489-93.
2003: Brian P Kelley; Roded Sharan; Richard M Karp; Taylor Sittler; David E Root; Brent R Stockwell; Trey Ideker
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 2003;100(20):11394-9.
2003: David E Root; Stephen P Flaherty; Brian P Kelley; Brent R Stockwell
Biological mechanism profiling using an annotated compound library.
Chemistry & biology 2003;10(9):881-92.
2003: David E Root; Brian P Kelley; Brent R Stockwell
Detecting spatial patterns in biological array experiments.
Journal of biomolecular screening 2003;8(4):393-8.
2002: David E Root; Brian P Kelley; Brent R Stockwell
Global analysis of large-scale chemical and biological experiments.
Current opinion in drug discovery & development 2002;5(3):355-60.