Publications by authors named "Lynda Chin"

100Publications

A Pan-Cancer Compendium of Genes Deregulated by Somatic Genomic Rearrangement across More Than 1,400 Cases.

Cell Rep 2018 07;24(2):515-527

Dan L. Duncan Comprehensive Cancer Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Department of Medicine, Baylor College of Medicine, Houston, TX 77030, USA; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2018.06.025DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6092947PMC
July 2018

A Pan-Cancer Proteogenomic Atlas of PI3K/AKT/mTOR Pathway Alterations.

Cancer Cell 2017 06 18;31(6):820-832.e3. Epub 2017 May 18.

Dan L. Duncan Comprehensive Cancer Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Department of Medicine, Baylor College of Medicine, Houston, TX 77030, USA; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ccell.2017.04.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5502825PMC
June 2017

Genome engineering - Matching supply with demand.

Cell Cycle 2016 06 6;15(11):1395-6. Epub 2016 Apr 6.

a Department of Genomic Medicine , The University of Texas MD Anderson Cancer Center , Houston , TX , USA.

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http://dx.doi.org/10.1080/15384101.2016.1171647DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4934084PMC
June 2016

Truncating PREX2 mutations activate its GEF activity and alter gene expression regulation in NRAS-mutant melanoma.

Proc Natl Acad Sci U S A 2016 Mar 16;113(9):E1296-305. Epub 2016 Feb 16.

Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX 77030; Institute for Applied Cancer Science (IACS), The University of Texas MD Anderson Cancer Center, Houston, TX 77030;

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http://dx.doi.org/10.1073/pnas.1513801113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4780599PMC
March 2016

Post-translational Regulation of Cas9 during G1 Enhances Homology-Directed Repair.

Cell Rep 2016 Feb 4;14(6):1555-1566. Epub 2016 Feb 4.

Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Institute for Applied Cancer Science, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.01.019DOI Listing
February 2016

Dual Roles of RNF2 in Melanoma Progression.

Cancer Discov 2015 Dec 8;5(12):1314-27. Epub 2015 Oct 8.

Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas. Institute for Applied Cancer Science, The University of Texas MD Anderson Cancer Center, Houston, Texas. Institute for Health Transformation, The University of Texas System, Houston, Texas.

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http://dx.doi.org/10.1158/2159-8290.CD-15-0493DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4670809PMC
December 2015

HiCPlotter integrates genomic data with interaction matrices.

Genome Biol 2015 Sep 21;16:198. Epub 2015 Sep 21.

Department of Genomic Medicine, Division of Cancer Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1186/s13059-015-0767-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4576377PMC
September 2015

Cancer Genomics in Clinical Context.

Trends Cancer 2015 Sep 28;1(1):36-43. Epub 2015 Sep 28.

Department of Genomic Medicine, University of Texas MD Anderson Cancer Center, 1515 Holcombe Boulevard, Houston, TX 77030, USA.

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http://dx.doi.org/10.1016/j.trecan.2015.07.010DOI Listing
September 2015

Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas.

Authors:
Daniel J Brat Roel G W Verhaak Kenneth D Aldape W K Alfred Yung Sofie R Salama Lee A D Cooper Esther Rheinbay C Ryan Miller Mark Vitucci Olena Morozova A Gordon Robertson Houtan Noushmehr Peter W Laird Andrew D Cherniack Rehan Akbani Jason T Huse Giovanni Ciriello Laila M Poisson Jill S Barnholtz-Sloan Mitchel S Berger Cameron Brennan Rivka R Colen Howard Colman Adam E Flanders Caterina Giannini Mia Grifford Antonio Iavarone Rajan Jain Isaac Joseph Jaegil Kim Katayoon Kasaian Tom Mikkelsen Bradley A Murray Brian Patrick O'Neill Lior Pachter Donald W Parsons Carrie Sougnez Erik P Sulman Scott R Vandenberg Erwin G Van Meir Andreas von Deimling Hailei Zhang Daniel Crain Kevin Lau David Mallery Scott Morris Joseph Paulauskis Robert Penny Troy Shelton Mark Sherman Peggy Yena Aaron Black Jay Bowen Katie Dicostanzo Julie Gastier-Foster Kristen M Leraas Tara M Lichtenberg Christopher R Pierson Nilsa C Ramirez Cynthia Taylor Stephanie Weaver Lisa Wise Erik Zmuda Tanja Davidsen John A Demchok Greg Eley Martin L Ferguson Carolyn M Hutter Kenna R Mills Shaw Bradley A Ozenberger Margi Sheth Heidi J Sofia Roy Tarnuzzer Zhining Wang Liming Yang Jean Claude Zenklusen Brenda Ayala Julien Baboud Sudha Chudamani Mark A Jensen Jia Liu Todd Pihl Rohini Raman Yunhu Wan Ye Wu Adrian Ally J Todd Auman Miruna Balasundaram Saianand Balu Stephen B Baylin Rameen Beroukhim Moiz S Bootwalla Reanne Bowlby Christopher A Bristow Denise Brooks Yaron Butterfield Rebecca Carlsen Scott Carter Lynda Chin Andy Chu Eric Chuah Kristian Cibulskis Amanda Clarke Simon G Coetzee Noreen Dhalla Tim Fennell Sheila Fisher Stacey Gabriel Gad Getz Richard Gibbs Ranabir Guin Angela Hadjipanayis D Neil Hayes Toshinori Hinoue Katherine Hoadley Robert A Holt Alan P Hoyle Stuart R Jefferys Steven Jones Corbin D Jones Raju Kucherlapati Phillip H Lai Eric Lander Semin Lee Lee Lichtenstein Yussanne Ma Dennis T Maglinte Harshad S Mahadeshwar Marco A Marra Michael Mayo Shaowu Meng Matthew L Meyerson Piotr A Mieczkowski Richard A Moore Lisle E Mose Andrew J Mungall Angeliki Pantazi Michael Parfenov Peter J Park Joel S Parker Charles M Perou Alexei Protopopov Xiaojia Ren Jeffrey Roach Thaís S Sabedot Jacqueline Schein Steven E Schumacher Jonathan G Seidman Sahil Seth Hui Shen Janae V Simons Payal Sipahimalani Matthew G Soloway Xingzhi Song Huandong Sun Barbara Tabak Angela Tam Donghui Tan Jiabin Tang Nina Thiessen Timothy Triche David J Van Den Berg Umadevi Veluvolu Scot Waring Daniel J Weisenberger Matthew D Wilkerson Tina Wong Junyuan Wu Liu Xi Andrew W Xu Lixing Yang Travis I Zack Jianhua Zhang B Arman Aksoy Harindra Arachchi Chris Benz Brady Bernard Daniel Carlin Juok Cho Daniel DiCara Scott Frazer Gregory N Fuller JianJiong Gao Nils Gehlenborg David Haussler David I Heiman Lisa Iype Anders Jacobsen Zhenlin Ju Sol Katzman Hoon Kim Theo Knijnenburg Richard Bailey Kreisberg Michael S Lawrence William Lee Kalle Leinonen Pei Lin Shiyun Ling Wenbin Liu Yingchun Liu Yuexin Liu Yiling Lu Gordon Mills Sam Ng Michael S Noble Evan Paull Arvind Rao Sheila Reynolds Gordon Saksena Zack Sanborn Chris Sander Nikolaus Schultz Yasin Senbabaoglu Ronglai Shen Ilya Shmulevich Rileen Sinha Josh Stuart S Onur Sumer Yichao Sun Natalie Tasman Barry S Taylor Doug Voet Nils Weinhold John N Weinstein Da Yang Kosuke Yoshihara Siyuan Zheng Wei Zhang Lihua Zou Ty Abel Sara Sadeghi Mark L Cohen Jenny Eschbacher Eyas M Hattab Aditya Raghunathan Matthew J Schniederjan Dina Aziz Gene Barnett Wendi Barrett Darell D Bigner Lori Boice Cathy Brewer Chiara Calatozzolo Benito Campos Carlos Gilberto Carlotti Timothy A Chan Lucia Cuppini Erin Curley Stefania Cuzzubbo Karen Devine Francesco DiMeco Rebecca Duell J Bradley Elder Ashley Fehrenbach Gaetano Finocchiaro William Friedman Jordonna Fulop Johanna Gardner Beth Hermes Christel Herold-Mende Christine Jungk Ady Kendler Norman L Lehman Eric Lipp Ouida Liu Randy Mandt Mary McGraw Roger Mclendon Christopher McPherson Luciano Neder Phuong Nguyen Ardene Noss Raffaele Nunziata Quinn T Ostrom Cheryl Palmer Alessandro Perin Bianca Pollo Alexander Potapov Olga Potapova W Kimryn Rathmell Daniil Rotin Lisa Scarpace Cathy Schilero Kelly Senecal Kristen Shimmel Vsevolod Shurkhay Suzanne Sifri Rosy Singh Andrew E Sloan Kathy Smolenski Susan M Staugaitis Ruth Steele Leigh Thorne Daniela P C Tirapelli Andreas Unterberg Mahitha Vallurupalli Yun Wang Ronald Warnick Felicia Williams Yingli Wolinsky Sue Bell Mara Rosenberg Chip Stewart Franklin Huang Jonna L Grimsby Amie J Radenbaugh Jianan Zhang
June 2015

miR-182 integrates apoptosis, growth, and differentiation programs in glioblastoma.

Genes Dev 2015 Apr;29(7):732-45

Ken and Ruth Davee Department of Neurology, Feinberg School of Medicine, Chicago, Illinois 60611, USA; The Brain Tumor Institute, The Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, Illinois 60611, USA; Department of Chemistry, Northwestern University, Evanston, Illinois 60208, USA; International Institute for Nanotechnology, Northwestern University, Evanston, Illinois 60208, USA;

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http://dx.doi.org/10.1101/gad.257394.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4387715PMC
April 2015

Whole-genome and multisector exome sequencing of primary and post-treatment glioblastoma reveals patterns of tumor evolution.

Genome Res 2015 Mar 3;25(3):316-27. Epub 2015 Feb 3.

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030, USA; Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030, USA;

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http://dx.doi.org/10.1101/gr.180612.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4352879PMC
March 2015

Depletion of carcinoma-associated fibroblasts and fibrosis induces immunosuppression and accelerates pancreas cancer with reduced survival.

Cancer Cell 2014 Jun 22;25(6):719-34. Epub 2014 May 22.

Department of Cancer Biology, Metastasis Research Center, University of Texas MD Anderson Cancer Center, Houston, TX 77054, USA; Division of Matrix Biology, Department of Medicine, Beth Israel Deaconess Medical Center and Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ccr.2014.04.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4180632PMC
June 2014

MTSS1 is a metastasis driver in a subset of human melanomas.

Nat Commun 2014 Mar 17;5:3465. Epub 2014 Mar 17.

1] Division of Immunology, Allergy and Infectious Diseases (DIAID), Department of Dermatology, Medical University of Vienna, 1090 Vienna, Austria [2] Center for Molecular Medicine (CeMM), Austrian Academy of Sciences, 1090 Vienna, Austria.

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http://dx.doi.org/10.1038/ncomms4465DOI Listing
March 2014

Chromosome 10, frequently lost in human melanoma, encodes multiple tumor-suppressive functions.

Cancer Res 2014 Mar 22;74(6):1814-21. Epub 2014 Jan 22.

Authors' Affiliation: Department of Genomic Medicine, University of Texas MD Anderson Cancer Center, Houston, Texas.

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http://dx.doi.org/10.1158/0008-5472.CAN-13-1446DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3971520PMC
March 2014

Identification of double-stranded genomic DNA spanning all chromosomes with mutated KRAS and p53 DNA in the serum exosomes of patients with pancreatic cancer.

J Biol Chem 2014 Feb 7;289(7):3869-75. Epub 2014 Jan 7.

From the Department of Cancer Biology, Metastasis Research Center, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030.

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http://dx.doi.org/10.1074/jbc.C113.532267DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3924256PMC
February 2014

A systems biology approach to personalizing therapeutic combinations.

Cancer Discov 2013 Dec;3(12):1339-44

1Department of Genomic Medicine and 2Institute for Applied Cancer Science, The University of Texas MD Anderson Cancer Center, Houston, Texas.

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http://dx.doi.org/10.1158/2159-8290.CD-13-0394DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3864744PMC
December 2013

The somatic genomic landscape of glioblastoma.

Cell 2013 Oct;155(2):462-77

Human Oncology and Pathogenesis Program, Brain Tumor Center, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA; Department of Neurosurgery, Memorial Sloan-Kettering Cancer Center, Department of Neurological Surgery, Weill Cornell Medical Center, New York, NY 10065, USA. Electronic address:

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https://www.genome.gov/Multimedia/Slides/TCGA2/27_Verhaak.pd
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http://linkinghub.elsevier.com/retrieve/pii/S009286741301208
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http://dx.doi.org/10.1016/j.cell.2013.09.034DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3910500PMC
October 2013

Emerging patterns of somatic mutations in cancer.

Nat Rev Genet 2013 Oct 11;14(10):703-18. Epub 2013 Sep 11.

Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1038/nrg3539DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4014352PMC
October 2013

Double minute chromosomes in glioblastoma multiforme are revealed by precise reconstruction of oncogenic amplicons.

Cancer Res 2013 Oct 12;73(19):6036-45. Epub 2013 Aug 12.

Authors' Affiliations: Five3 Genomics, LLC; Center for Biomolecular Science and Engineering, University of California; Howard Hughes Medical Institute, Santa Cruz, California; Human Oncology & Pathogenesis Program and Department of Neurosurgery; Cytogenetics Laboratory, Department of Pathology, Memorial Sloan-Kettering Cancer Center, New York, New York; Departments of Neurology & Neurosurgery, Henry Ford Hospital, Detroit, Michigan; and Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas.

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http://dx.doi.org/10.1158/0008-5472.CAN-13-0186DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3800429PMC
October 2013

From the Cover: Neutralization of terminal differentiation in gliomagenesis.

Proc Natl Acad Sci U S A 2013 Sep 5;110(36):14520-7. Epub 2013 Aug 5.

Department of Cancer Biology, University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA.

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http://dx.doi.org/10.1073/pnas.1308610110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3767545PMC
September 2013

Recapitulating human cancer in a mouse.

Nat Biotechnol 2013 May;31(5):392-5

Department of Genomic Medicine, and the Institute for Applied Cancer Science, University of Texas MD Anderson Cancer Center, Houston, Texas, USA.

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http://dx.doi.org/10.1038/nbt.2575DOI Listing
May 2013

Nozzle: a report generation toolkit for data analysis pipelines.

Bioinformatics 2013 Apr 17;29(8):1089-91. Epub 2013 Feb 17.

Center for Biomedical Informatics, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt085DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3624805PMC
April 2013

Highly recurrent TERT promoter mutations in human melanoma.

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

Postnatal depression in mothers bringing infants to the emergency department.

Arch Dis Child 2013 Jan 12;98(1):36-40. Epub 2012 Nov 12.

Paediatric Emergency Physician, Royal Children's Hospital, Melbourne, Australia.

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http://dx.doi.org/10.1136/archdischild-2012-302679DOI Listing
January 2013

Integrative functional genomics identifies RINT1 as a novel GBM oncogene.

Neuro Oncol 2012 Nov 16;14(11):1325-31. Epub 2012 Oct 16.

Department of Medical Oncology, Dana-Farber Cancer Institute, Dana-Farber Cancer Institute, Boston, MA 02215, USA.

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http://dx.doi.org/10.1093/neuonc/nos246DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3480269PMC
November 2012

Spectrum of somatic mitochondrial mutations in five cancers.

Proc Natl Acad Sci U S A 2012 Aug 13;109(35):14087-91. Epub 2012 Aug 13.

Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.1211502109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3435197PMC
August 2012

Melanoma: from mutations to medicine.

Genes Dev 2012 Jun;26(11):1131-55

Department of Dermatology, Massachusetts General Hospital, Boston, Massachusetts 02114, USA.

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http://dx.doi.org/10.1101/gad.191999.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3371404PMC
June 2012

Temporal control of neural crest lineage generation by Wnt/β-catenin signaling.

Development 2012 Jun 9;139(12):2107-17. Epub 2012 May 9.

Cell and Developmental Biology, Institute of Anatomy, University of Zurich, CH-8057 Zurich, Switzerland.

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http://dx.doi.org/10.1242/dev.073064DOI Listing
June 2012

Guanylate binding protein 1 is a novel effector of EGFR-driven invasion in glioblastoma.

J Exp Med 2011 Dec 12;208(13):2657-73. Epub 2011 Dec 12.

Ludwig Institute for Cancer Research, School of Medicine, University of California, San Diego, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1084/jem.20111102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3244036PMC
December 2011

Making sense of cancer genomic data.

Genes Dev 2011 Mar;25(6):534-55

Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA.

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http://genesdev.cshlp.org/lookup/doi/10.1101/gad.2017311
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http://dx.doi.org/10.1101/gad.2017311DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3059829PMC
March 2011

Cancer genomics: from discovery science to personalized medicine.

Nat Med 2011 Mar;17(3):297-303

Belfer Institute for Applied Cancer Science, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nm.2323DOI Listing
March 2011

Lkb1 regulates quiescence and metabolic homeostasis of haematopoietic stem cells.

Nature 2010 Dec;468(7324):701-4

Belfer Institute for Applied Cancer Science, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nature09595DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3058342PMC
December 2010

Glioma oncoprotein Bcl2L12 inhibits the p53 tumor suppressor.

Genes Dev 2010 Oct 13;24(19):2194-204. Epub 2010 Sep 13.

Belfer Institute for Applied Cancer Science, Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1101/gad.1924710DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2947771PMC
October 2010

Non-germline genetically engineered mouse models for translational cancer research.

Nat Rev Cancer 2010 Jul;10(7):470-80

AVEO Pharmaceuticals, 75 Sidney Street, 4th floor, Cambridge, MA 02139, USA.

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http://www.nature.com/articles/nrc2877
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http://dx.doi.org/10.1038/nrc2877DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4602412PMC
July 2010

Pattern of retinoblastoma pathway inactivation dictates response to CDK4/6 inhibition in GBM.

Proc Natl Acad Sci U S A 2010 Jun 7;107(25):11501-6. Epub 2010 Jun 7.

Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.1001613107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2895056PMC
June 2010