Eran Hodis

Eran Hodis

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Eran Hodis

Eran Hodis

Publications by authors named "Eran Hodis"

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22Publications

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Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq.

Authors:
Dylan Kotliar Adrian Veres M Aurel Nagy Shervin Tabrizi Eran Hodis Douglas A Melton Pardis C Sabeti

Elife 2019 07 8;8. Epub 2019 Jul 8.

Department of Systems Biology, Harvard Medical School, Boston, United States.

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http://dx.doi.org/10.7554/eLife.43803DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6639075PMC
July 2019

Systematic genomic and translational efficiency studies of uveal melanoma.

Authors:
Chelsea Place Johnson Ivana K Kim Bita Esmaeli Ali Amin-Mansour Daniel J Treacy Scott L Carter Eran Hodis Nikhil Wagle Sara Seepo Xiaoxing Yu Anne Marie Lane Evangelos S Gragoudas Francisca Vazquez Elizabeth Nickerson Kristian Cibulskis Aaron McKenna Stacey B Gabriel Gad Getz Eliezer M Van Allen Peter A C 't Hoen Levi A Garraway Scott E Woodman

PLoS One 2017 8;12(6):e0178189. Epub 2017 Jun 8.

Department of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0178189PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5464544PMC
September 2017

The genomic landscape and evolution of endometrial carcinoma progression and abdominopelvic metastasis.

Authors:
William J Gibson Erling A Hoivik Mari K Halle Amaro Taylor-Weiner Andrew D Cherniack Anna Berg Frederik Holst Travis I Zack Henrica M J Werner Kjersti M Staby Mara Rosenberg Ingunn M Stefansson Kanthida Kusonmano Aaron Chevalier Karen K Mauland Jone Trovik Camilla Krakstad Marios Giannakis Eran Hodis Kathrine Woie Line Bjorge Olav K Vintermyr Jeremiah A Wala Michael S Lawrence Gad Getz Scott L Carter Rameen Beroukhim Helga B Salvesen

Nat Genet 2016 08 27;48(8):848-55. Epub 2016 Jun 27.

Department of Clinical Science, Center for Cancer Biomarkers, University of Bergen, Bergen, Norway.

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http://www.nature.com/articles/ng.3602
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http://dx.doi.org/10.1038/ng.3602DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4963271PMC
August 2016

Molecular dissection of the genetic mechanisms that underlie expression conservation in orthologous yeast ribosomal promoters.

Authors:
Danny Zeevi Shai Lubliner Maya Lotan-Pompan Eran Hodis Rita Vesterman Adina Weinberger Eran Segal

Genome Res 2014 Dec 7;24(12):1991-9. Epub 2014 Oct 7.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, 7610001, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, 7610001, Israel

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http://dx.doi.org/10.1101/gr.179259.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4248315PMC
December 2014

RNF43 is frequently mutated in colorectal and endometrial cancers.

Authors:
Marios Giannakis Eran Hodis Xinmeng Jasmine Mu Mai Yamauchi Joseph Rosenbluh Kristian Cibulskis Gordon Saksena Michael S Lawrence Zhi Rong Qian Reiko Nishihara Eliezer M Van Allen William C Hahn Stacey B Gabriel Eric S Lander Gad Getz Shuji Ogino Charles S Fuchs Levi A Garraway

Nat Genet 2014 Dec 26;46(12):1264-6. Epub 2014 Oct 26.

1] Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts, USA. [2] Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts, USA. [3] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1038/ng.3127DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4283570PMC
December 2014

Activating mTOR mutations in a patient with an extraordinary response on a phase I trial of everolimus and pazopanib.

Authors:
Nikhil Wagle Brian C Grabiner Eliezer M Van Allen Eran Hodis Susanna Jacobus Jeffrey G Supko Michelle Stewart Toni K Choueiri Leena Gandhi James M Cleary Aymen A Elfiky Mary Ellen Taplin Edward C Stack Sabina Signoretti Massimo Loda Geoffrey I Shapiro David M Sabatini Eric S Lander Stacey B Gabriel Philip W Kantoff Levi A Garraway Jonathan E Rosenberg

Cancer Discov 2014 May 13;4(5):546-53. Epub 2014 Mar 13.

Departments of 1Medical Oncology and 2Biostatistics and Computational Biology, 3Center for Molecular Oncologic Pathology, Dana-Farber Cancer Institute; Departments of 4Medicine and 5Pathology, Brigham and Women's Hospital, Harvard Medical School; 6Division of Hematology/Oncology, Massachusetts General Hospital, Boston; 7Broad Institute of Harvard and MIT; 8Department of Biology, Whitehead Institute for Biomedical Research; 9Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts; and 10Department of Medicine, Memorial Sloan-Kettering Cancer Center, New York, New York.

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http://dx.doi.org/10.1158/2159-8290.CD-13-0353DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4122326PMC
May 2014

The genetic landscape of clinical resistance to RAF inhibition in metastatic melanoma.

Authors:
Eliezer M Van Allen Nikhil Wagle Antje Sucker Daniel J Treacy Cory M Johannessen Eva M Goetz Chelsea S Place Amaro Taylor-Weiner Steven Whittaker Gregory V Kryukov Eran Hodis Mara Rosenberg Aaron McKenna Kristian Cibulskis Deborah Farlow Lisa Zimmer Uwe Hillen Ralf Gutzmer Simone M Goldinger Selma Ugurel Helen J Gogas Friederike Egberts Carola Berking Uwe Trefzer Carmen Loquai Benjamin Weide Jessica C Hassel Stacey B Gabriel Scott L Carter Gad Getz Levi A Garraway Dirk Schadendorf

Cancer Discov 2014 Jan 21;4(1):94-109. Epub 2013 Nov 21.

1Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School; 2Department of Pathology, Massachusetts General Hospital Cancer Center, Boston; 3Broad Institute of MIT and Harvard; 4Harvard-MIT Division of Health Sciences and Technology, Massachusetts Institute of Technology (MIT), Cambridge, Massachusetts; 5Department of Dermatology, University Hospital, West German Cancer Center, University Duisburg-Essen, Essen; 6German Cancer Consortium (DKTK); 7Department of Dermatology, Heidelberg University Hospital, Heidelberg; 8Department of Dermatology and Allergy, Hannover Medical School, Hannover; 9Department of Dermatology, University of Wuerzburg, Wuerzburg; 10Department of Dermatology, Venerology and Allergology, University of Schleswig-Holstein Hospital, Kiel; 11Department of Dermatology and Allergology, Ludwig-Maximilian University, Munich; 12Department of Dermatology, Venerology and Allergy, Charité Universitätsmedizin Berlin, Humboldt University, Berlin; 13Department of Dermatology, University of Mainz, Mainz; 14University Medical Center, University of Tübingen, Tübingen, Germany; 15Department of Genome Sciences, University of Washington, Seattle, Washington; 16Department of Dermatology, University Hospital Zurich, Zurich, Switzerland; and 17First Department of Medicine, Medical School, University of Athens, Athens, Greece.

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http://dx.doi.org/10.1158/2159-8290.CD-13-0617DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3947264PMC
January 2014

MAP kinase pathway alterations in BRAF-mutant melanoma patients with acquired resistance to combined RAF/MEK inhibition.

Authors:
Nikhil Wagle Eliezer M Van Allen Daniel J Treacy Dennie T Frederick Zachary A Cooper Amaro Taylor-Weiner Mara Rosenberg Eva M Goetz Ryan J Sullivan Deborah N Farlow Dennis C Friedrich Kristin Anderka Danielle Perrin Cory M Johannessen Aaron McKenna Kristian Cibulskis Gregory Kryukov Eran Hodis Donald P Lawrence Sheila Fisher Gad Getz Stacey B Gabriel Scott L Carter Keith T Flaherty Jennifer A Wargo Levi A Garraway

Cancer Discov 2014 Jan 21;4(1):61-8. Epub 2013 Nov 21.

1Department of Medical Oncology, Dana-Farber Cancer Institute; 2Department of Medicine, Brigham and Women's Hospital; 3Massachusetts General Hospital Cancer Center, Harvard Medical School, Boston; 4Broad Institute of Harvard and MIT; and 5Harvard-MIT Division of Health Sciences and Technology, Massachusetts Institute of Technology (MIT), Cambridge, Massachusetts.

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http://dx.doi.org/10.1158/2159-8290.CD-13-0631DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3947296PMC
January 2014

Mutational heterogeneity in cancer and the search for new cancer-associated genes.

Authors:
Michael S Lawrence Petar Stojanov Paz Polak Gregory V Kryukov Kristian Cibulskis Andrey Sivachenko Scott L Carter Chip Stewart Craig H Mermel Steven A Roberts Adam Kiezun Peter S Hammerman Aaron McKenna Yotam Drier Lihua Zou Alex H Ramos Trevor J Pugh Nicolas Stransky Elena Helman Jaegil Kim Carrie Sougnez Lauren Ambrogio Elizabeth Nickerson Erica Shefler Maria L Cortés Daniel Auclair Gordon Saksena Douglas Voet Michael Noble Daniel DiCara Pei Lin Lee Lichtenstein David I Heiman Timothy Fennell Marcin Imielinski Bryan Hernandez Eran Hodis Sylvan Baca Austin M Dulak Jens Lohr Dan-Avi Landau Catherine J Wu Jorge Melendez-Zajgla Alfredo Hidalgo-Miranda Amnon Koren Steven A McCarroll Jaume Mora Brian Crompton Robert Onofrio Melissa Parkin Wendy Winckler Kristin Ardlie Stacey B Gabriel Charles W M Roberts Jaclyn A Biegel Kimberly Stegmaier Adam J Bass Levi A Garraway Matthew Meyerson Todd R Golub Dmitry A Gordenin Shamil Sunyaev Eric S Lander Gad Getz

Nature 2013 Jul 16;499(7457):214-218. Epub 2013 Jun 16.

The Broad Institute of MIT and Harvard, Cambridge, MA, 02141, USA.

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https://dash.harvard.edu/bitstream/handle/1/11879842/3919509
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http://www.nature.com/doifinder/10.1038/nature12213
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http://dx.doi.org/10.1038/nature12213DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3919509PMC
July 2013

Proteopedia: 3D visualization and annotation of transcription factor-DNA readout modes.

Authors:
Ana Carolina Dantas Machado Skyler B Saleebyan Bailey T Holmes Maria Karelina Julia Tam Sharon Y Kim Keziah H Kim Iris Dror Eran Hodis Eric Martz Patricia A Compeau Remo Rohs

Biochem Mol Biol Educ 2012 Nov-Dec;40(6):400-1. Epub 2012 Oct 13.

Molecular and Computational Biology Program, Departments of Biological Sciences, Chemistry, and Physics and Astronomy, University of Southern California, 1050 Childs Way, Los Angeles, CA 90089, USA.

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http://dx.doi.org/10.1002/bmb.20650DOI Listing
May 2013

Highly recurrent TERT promoter mutations in human melanoma.

Authors:
Franklin W Huang Eran Hodis Mary Jue Xu Gregory V Kryukov Lynda Chin Levi A Garraway

Science 2013 Feb 24;339(6122):957-9. Epub 2013 Jan 24.

Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1126/science.1229259DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4423787PMC
February 2013

Proteopedia entry: "Tutorial: How we get the oxygen we breathe".

Authors:
Jaime Prilusky Eran Hodis

Biochem Mol Biol Educ 2012 Sep-Oct;40(5):339

Bioinformatics Unit, Weizmann Institute of Science, Rehovot, Israel 76100.

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http://dx.doi.org/10.1002/bmb.20646DOI Listing
January 2013

Mapping the hallmarks of lung adenocarcinoma with massively parallel sequencing.

Authors:
Marcin Imielinski Alice H Berger Peter S Hammerman Bryan Hernandez Trevor J Pugh Eran Hodis Jeonghee Cho James Suh Marzia Capelletti Andrey Sivachenko Carrie Sougnez Daniel Auclair Michael S Lawrence Petar Stojanov Kristian Cibulskis Kyusam Choi Luc de Waal Tanaz Sharifnia Angela Brooks Heidi Greulich Shantanu Banerji Thomas Zander Danila Seidel Frauke Leenders Sascha Ansén Corinna Ludwig Walburga Engel-Riedel Erich Stoelben Jürgen Wolf Chandra Goparju Kristin Thompson Wendy Winckler David Kwiatkowski Bruce E Johnson Pasi A Jänne Vincent A Miller William Pao William D Travis Harvey I Pass Stacey B Gabriel Eric S Lander Roman K Thomas Levi A Garraway Gad Getz Matthew Meyerson

Cell 2012 Sep;150(6):1107-20

Broad Institute of Harvard and MIT, 7 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1016/j.cell.2012.08.029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3557932PMC
September 2012

A landscape of driver mutations in melanoma.

Authors:
Eran Hodis Ian R Watson Gregory V Kryukov Stefan T Arold Marcin Imielinski Jean-Philippe Theurillat Elizabeth Nickerson Daniel Auclair Liren Li Chelsea Place Daniel Dicara Alex H Ramos Michael S Lawrence Kristian Cibulskis Andrey Sivachenko Douglas Voet Gordon Saksena Nicolas Stransky Robert C Onofrio Wendy Winckler Kristin Ardlie Nikhil Wagle Jennifer Wargo Kelly Chong Donald L Morton Katherine Stemke-Hale Guo Chen Michael Noble Matthew Meyerson John E Ladbury Michael A Davies Jeffrey E Gershenwald Stephan N Wagner Dave S B Hoon Dirk Schadendorf Eric S Lander Stacey B Gabriel Gad Getz Levi A Garraway Lynda Chin

Cell 2012 Jul;150(2):251-63

The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1016/j.cell.2012.06.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3600117PMC
July 2012

Melanoma genome sequencing reveals frequent PREX2 mutations.

Authors:
Michael F Berger Eran Hodis Timothy P Heffernan Yonathan Lissanu Deribe Michael S Lawrence Alexei Protopopov Elena Ivanova Ian R Watson Elizabeth Nickerson Papia Ghosh Hailei Zhang Rhamy Zeid Xiaojia Ren Kristian Cibulskis Andrey Y Sivachenko Nikhil Wagle Antje Sucker Carrie Sougnez Robert Onofrio Lauren Ambrogio Daniel Auclair Timothy Fennell Scott L Carter Yotam Drier Petar Stojanov Meredith A Singer Douglas Voet Rui Jing Gordon Saksena Jordi Barretina Alex H Ramos Trevor J Pugh Nicolas Stransky Melissa Parkin Wendy Winckler Scott Mahan Kristin Ardlie Jennifer Baldwin Jennifer Wargo Dirk Schadendorf Matthew Meyerson Stacey B Gabriel Todd R Golub Stephan N Wagner Eric S Lander Gad Getz Lynda Chin Levi A Garraway

Nature 2012 May 9;485(7399):502-6. Epub 2012 May 9.

The Broad Institute of Harvard and MIT, Cambridge, Massachusetts 02142, USA.

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http://elifesciences.org/content/elife/3/e04180.full.pdf
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http://www.ima.org.il/FilesUpload/IMAJ/0/39/19607.pdf
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http://www.nature.com/doifinder/10.1038/nature11071
Publisher Site
http://dx.doi.org/10.1038/nature11071DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3367798PMC
May 2012

Proteopedia: a status report on the collaborative, 3D web-encyclopedia of proteins and other biomolecules.

Authors:
Jaime Prilusky Eran Hodis David Canner Wayne A Decatur Karl Oberholser Eric Martz Alexander Berchanski Michal Harel Joel L Sussman

J Struct Biol 2011 Aug 23;175(2):244-52. Epub 2011 Apr 23.

Bioinformatics Unit, Biological Services Unit, Weizmann Institute of Science, Rehovot 76100, Israel.

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https://linkinghub.elsevier.com/retrieve/pii/S10478477110011
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http://dx.doi.org/10.1016/j.jsb.2011.04.011DOI Listing
August 2011

Overlapping codes within protein-coding sequences.

Authors:
Shalev Itzkovitz Eran Hodis Eran Segal

Genome Res 2010 Nov 14;20(11):1582-9. Epub 2010 Sep 14.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel

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http://dx.doi.org/10.1101/gr.105072.110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2963821PMC
November 2010

Proteopedia: A collaborative, virtual 3D web-resource for protein and biomolecule structure and function.

Authors:
Eran Hodis Jaime Prilusky Joel L Sussman

Biochem Mol Biol Educ 2010 Sep;38(5):341-2

Department of Computer Science and Applied Mathematics, The Weizmann Institute of Science.

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http://doi.wiley.com/10.1002/bmb.20431
Publisher Site
http://dx.doi.org/10.1002/bmb.20431DOI Listing
September 2010

Fabrication of a layered microstructured polycaprolactone construct for 3-D tissue engineering.

Authors:
Sumona Sarkar Brett C Isenberg Eran Hodis Jennie B Leach Tejal A Desai Joyce Y Wong

J Biomater Sci Polym Ed 2008 ;19(10):1347-62

Department of Biomedical Engineering, Boston University, 44 Cummington Street, Boston, MA 02215, USA.

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http://dx.doi.org/10.1163/156856208786052371DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2737474PMC
March 2009

An encyclopedic effort to make 3D structures easier to understand.

Authors:
Eran Hodis Joel L Sussman

Trends Biochem Sci 2009 Mar 18;34(3):100-1. Epub 2009 Feb 18.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1016/j.tibs.2009.01.001DOI Listing
March 2009

Proteopedia - a scientific 'wiki' bridging the rift between three-dimensional structure and function of biomacromolecules.

Authors:
Eran Hodis Jaime Prilusky Eric Martz Israel Silman John Moult Joel L Sussman

Genome Biol 2008 3;9(8):R121. Epub 2008 Aug 3.

Department of Structural Biology, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1186/gb-2008-9-8-r121DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2575511PMC
December 2008

eMovie: a storyboard-based tool for making molecular movies.

Authors:
Eran Hodis Gideon Schreiber Kristian Rother Joel L Sussman

Trends Biochem Sci 2007 May 19;32(5):199-204. Epub 2007 Apr 19.

Department of Structural Biology, The Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1016/j.tibs.2007.03.008DOI Listing
May 2007