Josh Kaminker
Senior Director & Senior Principal Scientist B CB, Bioinformatics and Computational Biology, Computational Sciences
Postdoc Mentor
"Genentech is a place where Bioinformatics plays a very real and profound role in making scientific discoveries that may ultimately benefit patients."
21
Years at Genentech
44
Publications at Genentech
1
Awards & Honors
I studied Mathematics and Biology as an undergraduate, moving on to pure bench work in graduate school. With a continued interest in computational biology, I moved to a genomics group at Berkeley for my postdoc. I joined the Bioinformatics department at Genentech in 2004 with the aim of having an impact on the treatment of human diseases. I have continued to be engaged in extremely interesting and rewarding scientific projects in oncology and neuroscience. Throughout my career I have been immensely impressed by the scientific talent and collaborative nature of research at Genentech.
Postdoctoral Mentor
Sensory neurons play a fundamental role in transducing external stimuli from the periphery to the central nervous system. We are interested in using cutting edge single cell-based approaches to understand the biology of sensory neurons in pain and airway inflammation. Our work is highly collaborative and we work closely with multiple laboratories in both neuroscience and immunology, creating a unique and stimulating environment that fully integrates computational biology with bench experimentation.
Featured Publication
Untangling the brain0s neuroinflammatory and neurodegenerative transcriptional responses.
Nat Commun. 2016 Apr 21;7:11295.
Srinivasan K, Friedman BA, Larson JL, Lauffer BE, Goldstein LD, Appling LL, Borneo J, Poon C, Ho T, Cai F, Steiner P, van der Brug MP, Modrusan Z, Kaminker JS, Hansen DV.
My Focus
My group is deeply interested in using bioinformatics approaches to understand how transcriptional changes at the cellular level impact disease biology. Within Neuroscience our efforts are focused on understanding the role of such changes in driving neurodegenerative disease such as Alzheimer’s and ALS. We collaborate very closely with bench scientists to develop and pursue computational and biological hypotheses. We are also applying similar computational approaches to help define the role of different populations of sensory neurons in pain perception.
Genentech Publications
Nature, ISSN: 14764687 00280836
Graham Heimberg; Tony Kuo; Daryle J. DePianto; Omar Salem; Tobias Heigl; Nathaniel Diamant; Gabriele Scalia; Tommasso Biancalani; Shannon J. Turley; Jason Rock; Hector Corrada Bravo; Joshua S. Kaminker; Jason A. Vander Heiden; Aviv Regev
Genome Medicine,
Zia Khan; Min Jung; Megan Crow; Rajat Mohindra; Maiya; Joshua S. Kaminker; David Hackos; G. Scott Chandler; Mark I. McCarthy; Tushar Bhangale
Nature Communications, ISSN: 20411723
Min Jung; Michelle Dourado; James Maksymetz; Amanda Jacobson; Benjamin I. Laufer; Miriam Baca; Oded Foreman; David Hackos; Lorena Riol-Blanco; Joshua S. Kaminker
Journal of Immunology, ISSN: 00221767
Jose Heredia; Min Jung; Alessia Balestrini; Jonas Martin Doerr; Andres Paler Martinez; Alessandro Mozzarelli; Lorena Riol-Blanco; Joshua S. Kaminker; Ning Ding
Neuron, ISSN: 08966273
Lunbin Deng; Michelle Dourado; Rebecca M. Reese; Kevin Huang; Shannon D. Shields; Kimberly L. Stark; James Maksymetz; Han Lin; Joshua S. Kaminker; Min Jung; Oded Foreman; Janet Tao; Hai Ngu; Victory Joseph; Merone Roose-Girma; Lucinda Tam; Susanne Lardell; Linnea Strid Orrhult; Paul Karila; Julien Allard; David Hackos
Cell Genomics,
Luz D. Orozco; Leah Owen; Jeffrey Hofmann; Amy Stockwell; Jianhua Tao; Susan Haller; Vineeth T. Mukundan; Christine Clarke; Jessica Lund; Akshayalakshmi Sridhar; Oleg Mayba; Julie L. Barr; Rylee A. Zavala; Elijah C. Graves; Charles Zhang; Nadine Husami; Robert Finley; Elizabeth Au; John H. Lillvis; Michael H. Farkas; Akbar Shakoor; Richard Sherva; Ivana K. Kim; Joshua S. Kaminker; Michael J. Townsend; Lindsay A. Farrer; Brian L. Yaspan; Hsu-Hsin Chen; Margaret M. DeAngelis
Cell Reports, ISSN: 22111247
Shristi Pandey; Kimberle Shen; Seung-Hye Lee; Yun-An A. Shen; Yuanyuan Wang; Marcos Otero-Garcia; Natalya Kotova; Stephen T. Vito; Benjamin I. Laufer; Dwight F. Newton; Mitchell G. Rezzonico; Jesse E. Hanson; Joshua S. Kaminker; Christopher J. Bohlen; Tracy J. Yuen; Brad A. Friedman
Cell Reports,
Shristi Pandey; Kimberle Shen; Seung-Hye Lee; Yun-An A. Shen; Yuanyuan Wang; Marcos Otero-Garcia; Natalya Kotova; Stephen T. Vito; Benjamin I. Laufer; Dwight F. Newton; Mitchell G. Rezzonico; Jesse E. Hanson; Joshua S. Kaminker; Christopher J. Bohlen; Tracy J. Yuen; Brad A. Friedman
Cell Reports, ISSN: 22111247
Jia Zhou; Yang Geng; Tonghui Su; Qiuyan Wang; Yongfei Ren; Jing Zhao; Chaoying Fu; Martin Weber; Han Lin; Joshua S. Kaminker; Nan Liu; Morgan Sheng; Yelin Chen
Bioinformatics, ISSN: 14602059 13674803
Janina Reeder; Mo Huang; Joshua S. Kaminker; Joseph N. Paulson
Journal of Neuroscience, ISSN: 15292401 02706474
Melanie A. Huntley; Karpagam Srinivasan; Brad A. Friedman; Tzu-Ming Wang; Ada X. Yee; Yuanyuan Wang; Joshua S. Kaminker; Morgan Sheng; David V. Hansen; Jesse E. Hanson
Proceedings of the National Academy of Sciences of the United States of America, ISSN: 10916490 00278424
Hany S. Girgis; Cory D. DuPai; Jessica Lund; Janina Reeder; Joseph Guillory; Durinck; Yuxin Liang; Joshua S. Kaminker; Peter A. Smith; Elizabeth Skippington
Cell Reports, ISSN: 22111247
Brad A. Friedman; Karpagam Srinivasan; Gai Ayalon; William J. Meilandt; Han Lin; Melanie A. Huntley; Yi Cao; Seung-Hye Lee; Patrick C. G. Haddick; Hai Ngu; Zora Modrusan; Jessica L. Larson; Joshua S. Kaminker; Marcel P Van Der Brug; David V. Hansen
Science Translational Medicine, ISSN: 19466242 19466234
Claire E. Le Pichon; William J. Meilandt; Sara L. Dominguez; Hilda Solanoy; Han Lin; Hai Ngu; Alvin Gogineni; Arundhati Sengupta Ghosh; Zhiyu Jiang; Seung-Hye Lee; Janice Maloney; Vineela D. Gandham; Christine D. Pozniak; Bei Wang; Sebum Lee; Michael Siu; Snahel Patel; Zora Modrusan; Xingrong Liu; York Rudhard; Miriam Baca; Amy Gustafson; Joshua S. Kaminker; Richard A. D. Carano; Eric J. Huang; Oded Foreman; Robby M. Weimer; Kimberly Scearce-Levie; Joe Lewcock
eLife, ISSN: 2050084X
Martin Larhammar; Sarah Huntwork-Rodriguez; Zhiyu Jiang; Hilda Solanoy; Arundhati Sengupta Ghosh; Bei Wang; Joshua S. Kaminker; Kevin Huang; Jeffrey Eastham-Anderson; Michael Siu; Zora Modrusan; Madeline M. Farley; Marc Tessier-Lavigne; Joe Lewcock; Trent A. Watkins
Journal of Experimental Medicine, ISSN: 15409538 00221007
Michael C. Chang; Karpagam Srinivasan; Brad A. Friedman; Eric Suto; Zora Modrusan; Wyne P. Lee; Joshua S. Kaminker; David V. Hansen; Morgan Sheng
Journal of Alzheimer's Disease, ISSN: 18758908 13872877
Patrick C. G. Haddick; Jessica L. Larson; Nisha Rathore; Tushar Bhangale; Qui Phung; Karpagam Srinivasan; David V. Hansen; Jennie R. Lill; Brian W. Kunkle; Jonathan L. Haines; Lindsay A. Farrer; John S.K. Kauwe; Gerard D. Schellenberg; Paul K. Crane; Alison M. Goate; Timothy W. Behrens; Ryan J. Watts; Robert R. Graham; Joshua S. Kaminker; Marcel P Van Der Brug
Nature Communications, ISSN: 20411723
Karpagam Srinivasan; Brad A. Friedman; Jessica L. Larson; Benjamin E. Lauffer; Leonard D. Goldstein; Laurie L. Appling; Jovencio Borneo; Chungkee Poon; Terence Ho; Fang Cai; Pascal Steiner; Marcel P Van Der Brug; Zora Modrusan; Joshua S. Kaminker; David V. Hansen
BMC Genomics, ISSN: 14712164
Melanie A. Huntley; Melanie Lou; Leonard D. Goldstein; Michael Lawrence; Gerrit J. P. Dijkgraaf; Joshua S. Kaminker; Robert Gentleman
Nature, ISSN: 14764687 00280836
Mamie Yu; Suresh K Selvaraj; May M. Y. Liang-Chu; Sahar Aghajani; Matthew Busse; Jean Yuan; Genee Y. Lee; Franklin V. Peale Jr.; Christiaan N. Klijn; Richard Bourgon; Joshua S. Kaminker; Richard M. Neve
Journal of Neuroscience, ISSN: 15292401 02706474
Yelin Chen; Yuanyuan Wang; Zora Modrusan; Morgan Sheng; Joshua S. Kaminker
Neuron, ISSN: 10974199 08966273
Yelin Chen; Yuanyuan Wang; Ali Ertürk; Dara Y. Kallop; Zhiyu Jiang; Robby M. Weimer; Joshua S. Kaminker; Morgan Sheng
Bioinformatics, ISSN: 14602059 13674803
Melanie A. Huntley; Jessica L. Larson; Christina Chaivorapol; Gabriel Becker; Michael Lawrence; Jason A. Hackney; Joshua S. Kaminker; Martin Bishop
Clinical Cancer Research, ISSN: 10780432 15573265
Matthew J. Brauer; Guanglei Zhuang; Maike Schmidt; Jenny Yao; Xiumin Wu; Joshua S. Kaminker; Stefanie S. Jurinka; Ganesh Kolumam; Alicia S Chung; Adrian M. Jubb; Zora Modrusan; Tomoko Ozawa; C. David James; Phillips; Benjamin Haley; Rachel Tam; Anne C. Clermont; Jason H. Cheng; Sherry X. Yang; Sandra M. Swain; Daniel S. Chen; Stefan J. Scherer; Koeppen; Ru-Fang Yeh; Peng Yue; Jean-Philippe Stephan; Priti Hegde; Napoleone Ferrara; Mallika Singh; Carlos Bais
Proceedings of the National Academy of Sciences of the United States of America, ISSN: 00278424 10916490
Trent A. Watkins; Bei Wang; Sarah Huntwork-Rodriguez; Jing Yang; Zhiyu Jiang; Jeffrey Eastham-Anderson; Zora Modrusan; Joshua S. Kaminker; Marc Tessier-Lavigne; Joe Lewcock
Proceedings of the 2012 IEEE 16th International Enterprise Distributed Object Computing Conference Workshops, EDOCW 2012,
Rebecca Lawler; Hui Yang; Kathryn Woods; Joshua S. Kaminker
Journal of Neuroscience, ISSN: 02706474 15292401
Mark Chen; Janice Maloney; Dara Y. Kallop; Jasvinder K. Atwal; Stephen Tam; Kristin Baer; Holger Kissel; Joshua S. Kaminker; Joe Lewcock; Robby M. Weimer; Ryan J. Watts
Developmental Cell, ISSN: 15345807 18781551
Stephen Tam; David L. Richmond; Joshua S. Kaminker; Zora Modrusan; Baby Martin-McNulty; Tim C. Cao; Robby M. Weimer; Richard A. D. Carano; Nicholas Vanbruggen; Ryan J. Watts
Nature, ISSN: 00280836 14764687
Ingrid E. Wertz; Saritha Kusam; Cynthia Lam; Toru Okamoto; Wendy N. Sandoval; Daniel J Anderson; Elizabeth Helgason; James A. Ernst; Mike Eby; Jinfeng Liu; Lisa D. Belmont; Joshua S. Kaminker; Karen M. O'Rourke; Kanan Pujara; Pawan Bir Kohli; Adam R. Johnson; Mark L. Chiu; Jennie R. Lill; Peter K Jackson; Wayne J. Fairbrother; Somasekar Seshagiri; Mary J. C. Ludlam; Kevin G. Leong; Erin C. Dueber; Heather Maecker; David C.S. Huang; Vishva M. Dixit
Proceedings of the National Academy of Sciences of the United States of America, ISSN: 00278424 10916490
Marcin Kowanetz; Xiumin Wu; John Lee; Martha Tan; Thijs Hagenbeek; Xueping Qu; Lanlan Yu; Ross; Nina Korsisaari; Tim C. Cao; Hani Bou-Reslan; Dara Y. Kallop; Robby M. Weimer; Mary J. C. Ludlam; Joshua S. Kaminker; Zora Modrusan; Nicholas Van Bruggen; Franklin V. Peale Jr.; Richard A. D. Carano; Meng; Napoleone Ferrara
Blood, ISSN: 15280020 00064971
Raquel del Toro; Claudia Prahst; Thomas Mathivet; Geraldine Siegfried; Joshua S. Kaminker; Bruno Larrivee; Christiane Bréant; Antonio Duarte; Nobuyuki Takakura; Akiyoshi Fukamizu; Josef Penninger; Anne Eichmann
Nature, ISSN: 00280836 14764687
Zhengyan Kan; Bijay S. Jaiswal; Stinson; Vasantharajan Janakiraman; Deepali Bhatt; Howard M. Stern; Peng Yue; Matthias Peter; Richard Bourgon; Jianbiao Zheng; Martin Moorhead; Subhra Chaudhuri; Lynn P. Tomsho; Brock A. Peters; Kanan Pujara; Shaun Cordes; David P. Davis; Victoria E. H. Carlton; Yuan; Li Li; Weiru Wang; Eigenbrot; Joshua S. Kaminker; Eberhard; Waring; Stephan C. Schuster; Zora Modrusan; Zemin Zhang; David Stokoe; Frederic J. De Sauvage; Malek Faham; Somasekar Seshagiri
Blood, ISSN: 15280020 00064971
Geraldine Strasser; Joshua S. Kaminker; Marc Tessier-Lavigne
Human Mutation, ISSN: 10597794 10981004
Peng Yue; William F. Forrest; Joshua S. Kaminker; Scott Lohr; Zemin Zhang; Guy Cavet
Cancer Cell, ISSN: 15356108
Bijay S. Jaiswal; Vasantharajan Janakiraman; Noelyn Kljavin; Subhra Chaudhuri; Howard M. Stern; Weiru Wang; Zhengyan Kan; Hashem A. Dbouk; Brock A. Peters; Waring; Trisha Dela Vega; Denise M. Kenski; Krista K. Bowman; Maria N. Lorenzo; Hong Li; Jiansheng Wu; Zora Modrusan; Stinson; Mike Eby; Peng Yue; Joshua S. Kaminker; Frederic J. De Sauvage; Jonathan M. Backer; Somasekar Seshagiri
BMC Medical Genomics, ISSN: 17558794
Matthias Peter; Lawrence S. Hon; Joshua S. Kaminker; John Chant; Zemin Zhang
Cancer Cell, ISSN: 15356108
Yongping Crawford; Ian Kasman; Lanlan Yu; Cuiling Zhong; Xiumin Wu; Zora Modrusan; Joshua S. Kaminker; Napoleone Ferrara
Human Mutation, ISSN: 10597794
Lawrence S. Hon; Yan Zhang; Joshua S. Kaminker; Zemin Zhang
Current Bioinformatics, ISSN: 15748936
Lawrence S. Hon; Joshua S. Kaminker; Zemin Zhang
Science, ISSN: 00368075 10959203
Laura D. Wood; D. Williams Parsons; Siân Jones; Jimmy Lin; Tobias Sjöblom; Rebecca J. Leary; Dong Shen; Simina M. Boca; Thomas Barber; Janine Ptak; Natalie Silliman; Steve Szabo; Zoltan Dezso; Vadim Ustyanksky; Tatiana Nikolskaya; Yuri Nikolsky; Karchin; Paul A. Wilson; Joshua S. Kaminker; Zemin Zhang; Randal Croshaw; Joseph Willis; Dawn Dawson; Michail Shipitsin; James K. V. Willson; Saraswati Sukumar; Kornelia Polyak; Ben H. Park; Charit L. Pethiyagoda; P. V. Krishna Pant; Dennis G. Ballinger; Andrew B. Sparks; James Hartigan; Douglas R. Smith; Erick Suh; Nickolas Papadopoulos; Phillip Buckhaults; Sanford D. Markowitz; Giovanni Parmigiani; Kenneth W. Kinzler; Victor E. Velculescu; Bert Vogelstein
Nucleic Acids Research, ISSN: 03051048 13624962
Joshua S. Kaminker; Yan Zhang; Colin K. Watanabe; Zemin Zhang
Cancer Research, ISSN: 00085472
Joshua S. Kaminker; Yan Zhang; Allison Waugh; Matthias Peter; Brock A. Peters; Dragan Sebisanovic; Stinson; William F. Forrest; J.Fernando Bazan; Somasekar Seshagiri; Zemin Zhang
PLoS Computational Biology, ISSN: 1553734X 15537358
Mark Yandell; Chris J. Mungall; Chris Smith; Simon Prochnik; Joshua S. Kaminker; George Hartzell; Suzanna E. Lewis; Gerald M. Rubin
PLoS Computational Biology, ISSN: 15537358 1553734X
Mark Yandell; Chris J. Mungall; Chris Smith; Simon Prochnik; Joshua S. Kaminker; George Hartzell; Suzanna E. Lewis; Gerald M. Rubin
Education
- University of California, Berkeley, Postdoctoral Fellow – 2004
- University of California, Los Angeles, PhD in Molecular, Cell, and Developmental Biology – 2001
- Indiana University, B.S. in Biology – 1995
- Indiana University, B.S. in Mathematics – 1995
Awards & Honors
- NIH Research Training in Cellular and Molecular Biology – 1996