Yiling Lu

Yiling Lu

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A-to-I-edited miRNA-379-5p inhibits cancer cell proliferation through CD97-induced apoptosis.

J Clin Invest 2019 Nov 4. Epub 2019 Nov 4.

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, USA.

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http://dx.doi.org/10.1172/JCI123396DOI Listing
November 2019

MCP-1/CCR-2 axis in adipocytes and cancer cell respectively facilitates ovarian cancer peritoneal metastasis.

Oncogene 2019 Nov 8. Epub 2019 Nov 8.

Department of Gynecology and Obstetrics, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, 430030, Hubei, PR China.

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http://dx.doi.org/10.1038/s41388-019-1090-1DOI Listing
November 2019

TCPA v3.0: An Integrative Platform to Explore the Pan-Cancer Analysis of Functional Proteomic Data.

Mol Cell Proteomics 2019 Aug 14;18(8 suppl 1):S15-S25. Epub 2019 Jun 14.

‡Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas

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http://dx.doi.org/10.1074/mcp.RA118.001260DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6692772PMC
August 2019

Sequential Therapy with PARP and WEE1 Inhibitors Minimizes Toxicity while Maintaining Efficacy.

Cancer Cell 2019 Jun;35(6):851-867.e7

Department of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Department of Cell, Development and Cancer Biology, Oregon Health and Sciences University, Portland, OR 97201, USA; Knight Cancer Institute, Portland, OR 97201, USA.

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http://dx.doi.org/10.1016/j.ccell.2019.05.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6642675PMC
June 2019

Deregulated Gab2 phosphorylation mediates aberrant AKT and STAT3 signaling upon PIK3R1 loss in ovarian cancer.

Nat Commun 2019 02 12;10(1):716. Epub 2019 Feb 12.

School of Biomedical Sciences, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Hong Kong, Hong Kong.

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http://dx.doi.org/10.1038/s41467-019-08574-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6372715PMC
February 2019

Systems biology approach reveals a link between mTORC1 and G2/M DNA damage checkpoint recovery.

Nat Commun 2018 09 28;9(1):3982. Epub 2018 Sep 28.

Department of Clinical Cancer Prevention, The University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA.

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http://www.nature.com/articles/s41467-018-05639-x
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http://dx.doi.org/10.1038/s41467-018-05639-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6162282PMC
September 2018

Multi-omics analysis reveals neoantigen-independent immune cell infiltration in copy-number driven cancers.

Nat Commun 2018 04 3;9(1):1317. Epub 2018 Apr 3.

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

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http://dx.doi.org/10.1038/s41467-018-03730-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5882811PMC
April 2018

Predicting high-risk endometrioid carcinomas using proteins.

Oncotarget 2018 Apr 13;9(28):19704-19715. Epub 2018 Apr 13.

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, USA.

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http://dx.doi.org/10.18632/oncotarget.24803DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5929419PMC
April 2018

Explore, Visualize, and Analyze Functional Cancer Proteomic Data Using the Cancer Proteome Atlas.

Cancer Res 2017 11;77(21):e51-e54

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas.

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http://dx.doi.org/10.1158/0008-5472.CAN-17-0369DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5679242PMC
November 2017

Corilagin sensitizes epithelial ovarian cancer to chemotherapy by inhibiting Snail‑glycolysis pathways.

Oncol Rep 2017 Oct 7;38(4):2464-2470. Epub 2017 Aug 7.

Department of Gynecology, Obstetrics and Gynecology Hospital of Fudan University, Shanghai Key Laboratory of Female Reproductive Endocrine-Related Diseases, Shanghai 200090, P.R. China.

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http://dx.doi.org/10.3892/or.2017.5886DOI Listing
October 2017

Systematic characterization of A-to-I RNA editing hotspots in microRNAs across human cancers.

Genome Res 2017 07 14;27(7):1112-1125. Epub 2017 Apr 14.

Graduate Program in Structural and Computational Biology and Molecular Biophysics, Baylor College of Medicine, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1101/gr.219741.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5495064PMC
July 2017

Oncogenic RAS Regulates Long Noncoding RNA in Human Cancer.

Cancer Res 2017 07 4;77(14):3745-3757. Epub 2017 May 4.

Center for Research on Reproduction & Women's Health, Department of Obstetrics and Gynecology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania.

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http://dx.doi.org/10.1158/0008-5472.CAN-16-1768DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5511552PMC
July 2017

Characterization of Human Cancer Cell Lines by Reverse-phase Protein Arrays.

Cancer Cell 2017 02;31(2):225-239

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Department of Systems Biology, 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.ccell.2017.01.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5501076PMC
February 2017

Novel patient-derived xenograft and cell line models for therapeutic testing of pediatric liver cancer.

J Hepatol 2016 08 23;65(2):325-33. Epub 2016 Apr 23.

Center for Cell and Gene Therapy, Stem Cells and Regenerative Medicine Center, Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX, USA; Program in Developmental Biology, Baylor College of Medicine, Houston, TX, USA; Dan L. Duncan Cancer Center, Baylor College of Medicine, Houston, TX, USA; Graduate Program Department of Molecular & Cellular Biology, Baylor College of Medicine, Houston, TX, USA. Electronic address:

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http://dx.doi.org/10.1016/j.jhep.2016.04.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5668139PMC
August 2016

Using reverse-phase protein arrays as pharmacodynamic assays for functional proteomics, biomarker discovery, and drug development in cancer.

Semin Oncol 2016 08 15;43(4):476-83. Epub 2016 Jun 15.

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX. Electronic address:

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http://dx.doi.org/10.1053/j.seminoncol.2016.06.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5111873PMC
August 2016

Patient derived mutation W257G of PPP2R1A enhances cancer cell migration through SRC-JNK-c-Jun pathway.

Sci Rep 2016 06 7;6:27391. Epub 2016 Jun 7.

Department of Biological Sciences, Sookmyung Women's University, Seoul 140-742, Republic of Korea.

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http://dx.doi.org/10.1038/srep27391DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4895347PMC
June 2016

YAP/TAZ regulates the insulin signaling via IRS1/2 in endometrial cancer.

Am J Cancer Res 2016 1;6(5):996-1010. Epub 2016 May 1.

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

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4889715PMC
June 2016

Verteporfin inhibits YAP function through up-regulating 14-3-3σ sequestering YAP in the cytoplasm.

Am J Cancer Res 2016 15;6(1):27-37. Epub 2015 Dec 15.

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

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4759394PMC
April 2016

Multilevel Genomics-Based Taxonomy of Renal Cell Carcinoma.

Cell Rep 2016 Mar 3;14(10):2476-89. Epub 2016 Mar 3.

Dan L. Duncan Comprehensive Cancer Center, Baylor College of Medicine, Houston, TX 77030, USA; Human Genome Sequencing 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. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.02.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4794376PMC
March 2016

MAPK Activation Predicts Poor Outcome and the MEK Inhibitor, Selumetinib, Reverses Antiestrogen Resistance in ER-Positive High-Grade Serous Ovarian Cancer.

Clin Cancer Res 2016 Feb 19;22(4):935-47. Epub 2015 Oct 19.

Department of Obstetrics and Gynecology, University of Miami Miller School of Medicine, Miami, Florida. Department of Obstetrics and Gynecology, University of Pennsylvania, Philadelphia, Pennsylvania.

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http://dx.doi.org/10.1158/1078-0432.CCR-15-0534DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4755805PMC
February 2016

Spatial normalization of reverse phase protein array data.

PLoS One 2014 12;9(12):e97213. Epub 2014 Dec 12.

Computational Biology Center, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0097213PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4264691PMC
January 2016

Integrative Protein-Based Prognostic Model for Early-Stage Endometrioid Endometrial Cancer.

Clin Cancer Res 2016 Jan 29;22(2):513-23. Epub 2015 Jul 29.

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas. Department of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas.

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http://dx.doi.org/10.1158/1078-0432.CCR-15-0104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4715969PMC
January 2016

Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma.

Authors:
W Marston Linehan Paul T Spellman Christopher J Ricketts Chad J Creighton Suzanne S Fei Caleb Davis David A Wheeler Bradley A Murray Laura Schmidt Cathy D Vocke Myron Peto Abu Amar M Al Mamun Eve Shinbrot Anurag Sethi Samira Brooks W Kimryn Rathmell Angela N Brooks Katherine A Hoadley A Gordon Robertson Denise Brooks Reanne Bowlby Sara Sadeghi Hui Shen Daniel J Weisenberger Moiz Bootwalla Stephen B Baylin Peter W Laird Andrew D Cherniack Gordon Saksena Scott Haake Jun Li Han Liang Yiling Lu Gordon B Mills Rehan Akbani Mark D M Leiserson Benjamin J Raphael Pavana Anur Donald Bottaro Laurence Albiges Nandita Barnabas Toni K Choueiri Bogdan Czerniak Andrew K Godwin A Ari Hakimi Thai H Ho James Hsieh Michael Ittmann William Y Kim Bhavani Krishnan Maria J Merino Kenna R Mills Shaw Victor E Reuter Ed Reznik Carl S Shelley Brian Shuch Sabina Signoretti Ramaprasad Srinivasan Pheroze Tamboli George Thomas Satish Tickoo Kenneth Burnett Daniel Crain Johanna Gardner Kevin Lau David Mallery Scott Morris Joseph D Paulauskis Robert J Penny Candace Shelton W Troy Shelton Mark Sherman Eric Thompson Peggy Yena Melissa T Avedon Jay Bowen Julie M Gastier-Foster Mark Gerken Kristen M Leraas Tara M Lichtenberg Nilsa C Ramirez Tracie Santos Lisa Wise Erik Zmuda John A Demchok Ina Felau Carolyn M Hutter Margi Sheth Heidi J Sofia Roy Tarnuzzer Zhining Wang Liming Yang Jean C Zenklusen Jiashan Zhang Brenda Ayala Julien Baboud Sudha Chudamani Jia Liu Laxmi Lolla Rashi Naresh Todd Pihl Qiang Sun Yunhu Wan Ye Wu Adrian Ally Miruna Balasundaram Saianand Balu Rameen Beroukhim Tom Bodenheimer Christian Buhay Yaron S N Butterfield Rebecca Carlsen Scott L Carter Hsu Chao Eric Chuah Amanda Clarke Kyle R Covington Mahmoud Dahdouli Ninad Dewal Noreen Dhalla Harsha V Doddapaneni Jennifer A Drummond Stacey B Gabriel Richard A Gibbs Ranabir Guin Walker Hale Alicia Hawes D Neil Hayes Robert A Holt Alan P Hoyle Stuart R Jefferys Steven J M Jones Corbin D Jones Divya Kalra Christie Kovar Lora Lewis Jie Li Yussanne Ma Marco A Marra Michael Mayo Shaowu Meng Matthew Meyerson Piotr A Mieczkowski Richard A Moore Donna Morton Lisle E Mose Andrew J Mungall Donna Muzny Joel S Parker Charles M Perou Jeffrey Roach Jacqueline E Schein Steven E Schumacher Yan Shi Janae V Simons Payal Sipahimalani Tara Skelly Matthew G Soloway Carrie Sougnez Angela Tam Donghui Tan Nina Thiessen Umadevi Veluvolu Min Wang Matthew D Wilkerson Tina Wong Junyuan Wu Liu Xi Jane Zhou Jason Bedford Fengju Chen Yao Fu Mark Gerstein David Haussler Katayoon Kasaian Phillip Lai Shiyun Ling Amie Radenbaugh David Van Den Berg John N Weinstein Jingchun Zhu Monique Albert Iakovina Alexopoulou Jeremiah J Andersen J Todd Auman John Bartlett Sheldon Bastacky Julie Bergsten Michael L Blute Lori Boice Roni J Bollag Jeff Boyd Erik Castle Ying-Bei Chen John C Cheville Erin Curley Benjamin Davies April DeVolk Rajiv Dhir Laura Dike John Eckman Jay Engel Jodi Harr Ronald Hrebinko Mei Huang Lori Huelsenbeck-Dill Mary Iacocca Bruce Jacobs Michael Lobis Jodi K Maranchie Scott McMeekin Jerome Myers Joel Nelson Jeremy Parfitt Anil Parwani Nicholas Petrelli Brenda Rabeno Somak Roy Andrew L Salner Joel Slaton Melissa Stanton R Houston Thompson Leigh Thorne Kelinda Tucker Paul M Weinberger Cynthia Winemiller Leigh Anne Zach Rosemary Zuna

Glucose starvation induces mutation and lineage-dependent adaptive responses in a large collection of cancer cell lines.

Int J Oncol 2016 Jan 11;48(1):67-72. Epub 2015 Nov 11.

Center for Advanced Bioinformatics and Systems Medicine, Department of Biological Sciences, Sookmyung Women's University, Seoul 140-742, Republic of Korea.

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http://dx.doi.org/10.3892/ijo.2015.3242DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4734611PMC
January 2016

Mouse models of human PIK3CA-related brain overgrowth have acutely treatable epilepsy.

Elife 2015 Dec 3;4. Epub 2015 Dec 3.

Center for Integrative Brain Research, Seattle Children's Research Institute, Seattle, United States.

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http://dx.doi.org/10.7554/eLife.12703DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4744197PMC
December 2015

The Genomic Landscape and Clinical Relevance of A-to-I RNA Editing in Human Cancers.

Cancer Cell 2015 Oct 1;28(4):515-528. Epub 2015 Oct 1.

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Department of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S15356108150030
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http://dx.doi.org/10.1016/j.ccell.2015.08.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4605878PMC
October 2015

Comprehensive Genomic Characterization of Long Non-coding RNAs across Human Cancers.

Cancer Cell 2015 Oct;28(4):529-540

Center for Research on Reproduction & Women's Health, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Obstetrics and Gynecology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ccell.2015.09.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4777353PMC
October 2015

Myristoylation confers noncanonical AMPK functions in autophagy selectivity and mitochondrial surveillance.

Nat Commun 2015 Aug 14;6:7926. Epub 2015 Aug 14.

Department of Systems Biology, The University of Texas MD Anderson Cancer Center, 1515 Holcombe Boulevard, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1038/ncomms8926DOI Listing
August 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

Integrated analysis reveals microRNA networks coordinately expressed with key proteins in breast cancer.

Genome Med 2015 2;7(1):21. Epub 2015 Feb 2.

Department of Genetics, Institute for Cancer Research, Oslo University Hospital, The Norwegian Radium Hospital, Oslo, 0310 Norway ; K.G. Jebsen Centre for Breast Cancer Research, Institute for Clinical Medicine, University of Oslo, Oslo, 0316 Norway ; Department of Clinical Molecular Biology and Laboratory Science (EpiGen), Division of Medicine, Akershus University Hospital, Lørenskog, 1478 Norway.

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http://dx.doi.org/10.1186/s13073-015-0135-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4396592PMC
April 2015

Development of a robust classifier for quality control of reverse-phase protein arrays.

Bioinformatics 2015 Mar 6;31(6):912-8. Epub 2014 Nov 6.

Department of Bioinformatics and Computational Biology, Department of Systems Biology and Department of Melanoma Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA.

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http://dx.doi.org/10.1093/bioinformatics/btu736DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4375399PMC
March 2015

Purification and characterization of a novel defensin from the salivary glands of the black fly, Simulium bannaense.

Parasit Vectors 2015 Feb 4;8:71. Epub 2015 Feb 4.

School of Basic Medical Sciences, Kunming Medical University, Kunming, Yunnan, China.

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http://dx.doi.org/10.1186/s13071-015-0669-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4324660PMC
February 2015

α-Tubulin acetylation elevated in metastatic and basal-like breast cancer cells promotes microtentacle formation, adhesion, and invasive migration.

Cancer Res 2015 Jan 12;75(1):203-15. Epub 2014 Dec 12.

University of Maryland, Baltimore, Graduate Program in Life Sciences, Baltimore, Maryland. University of Maryland Marlene and Stewart Greenebaum NCI Cancer Center, Baltimore, Maryland. Department of Physiology, University of Maryland School of Medicine, Baltimore, Maryland.

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http://dx.doi.org/10.1158/0008-5472.CAN-13-3563DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4350791PMC
January 2015

A comprehensive comparison of normalization methods for loading control and variance stabilization of reverse-phase protein array data.

Cancer Inform 2014 16;13:109-17. Epub 2014 Oct 16.

Department of Bioinformatics and Computational Biology, Unit 1410, The University of Texas MD Anderson Cancer Center, Houston, TX, USA.

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http://journals.sagepub.com/doi/10.4137/CIN.S13329
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http://dx.doi.org/10.4137/CIN.S13329DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4213190PMC
November 2014

Targeting tyrosine-kinases and estrogen receptor abrogates resistance to endocrine therapy in breast cancer.

Oncotarget 2014 Oct;5(19):9049-64

Department of Breast Medical Oncology, The University of Texas, MD Anderson Cancer Center, Houston, TX. Systems Biology, The University of Texas, MD Anderson Cancer Center, Houston, TX.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4253418PMC
http://dx.doi.org/10.18632/oncotarget.2022DOI Listing
October 2014

A functional genomic approach identifies FAL1 as an oncogenic long noncoding RNA that associates with BMI1 and represses p21 expression in cancer.

Cancer Cell 2014 Sep;26(3):344-357

Ovarian Cancer Research Center, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Center for Research on Reproduction & Women's Health, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Obstetrics and Gynecology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ccr.2014.07.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4159613PMC
September 2014

Reverse-phase protein array profiling of oropharyngeal cancer and significance of PIK3CA mutations in HPV-associated head and neck cancer.

Clin Cancer Res 2014 May 5;20(9):2300-11. Epub 2014 Mar 5.

Authors' Affiliations: Departments of Surgery Division of Otolaryngology and Pathology; Yale Cancer Center, Yale University, New Haven, Connecticut; Departments of Otolaryngology and Cancer Biology, Vanderbilt University, Nashville, Tennessee; and Systems Biology Department, University of Texas MD Anderson Cancer Center, Houston, Texas.

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http://dx.doi.org/10.1158/1078-0432.CCR-13-2585DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4027970PMC
May 2014

A Bayesian hierarchical model for inference across related reverse phase protein arrays experiments.

J Appl Stat 2014;41(11):2483-2492

Department of Systems Biology, UT MD Anderson Cancer Centre, Houston, TX, USA.

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http://dx.doi.org/10.1080/02664763.2014.920776DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4523276PMC
January 2014

Frequent mutation of receptor protein tyrosine phosphatases provides a mechanism for STAT3 hyperactivation in head and neck cancer.

Proc Natl Acad Sci U S A 2014 Jan 6;111(3):1114-9. Epub 2014 Jan 6.

Departments of Otolaryngology, Pharmacology and Chemical Biology, Structural Biology, and Computational and Systems Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213.

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http://dx.doi.org/10.1073/pnas.1319551111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3903220PMC
January 2014

Identification and polymorphism discovery of the cathelicidins, Lf-CATHs in ranid amphibian (Limnonectes fragilis).

FEBS J 2013 Dec 25;280(23):6022-32. Epub 2013 Oct 25.

Institute of Marine Biological Technology, Dalian University of Technology, Dalian, China; College of Life Sciences, Hebei Normal University, Shijiazhuang, China.

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http://dx.doi.org/10.1111/febs.12521DOI Listing
December 2013

TCPA: a resource for cancer functional proteomics data.

Nat Methods 2013 Nov 15;10(11):1046-7. Epub 2013 Sep 15.

1] Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, USA. [2].

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http://dx.doi.org/10.1038/nmeth.2650DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4076789PMC
November 2013

Molecular cloning, sequence analysis and phylogeny of first caudata g-type lysozyme in axolotl (Ambystoma mexicanum).

Zoolog Sci 2013 Nov;30(11):938-43

1 Department of Bioscience and Biotechnology, Dalian University of Technology, Dalian 116023, China.

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http://www.bioone.org/doi/abs/10.2108/zsj.30.938
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http://dx.doi.org/10.2108/zsj.30.938DOI Listing
November 2013

Predicting time to ovarian carcinoma recurrence using protein markers.

J Clin Invest 2013 Sep 15;123(9):3740-50. Epub 2013 Aug 15.

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas 77230-1402, USA.

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http://dx.doi.org/10.1172/JCI68509DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3754259PMC
September 2013

Intestinal absorption of raltitrexed and evaluation of the effects of absorption enhancers.

Pharmazie 2013 Sep;68(9):732-43

Key Laboratory of Drug Targeting and Drug Delivery Systems, Ministry of Education, West China School of Pharmacy, Sichuan University, Sichuan, PR China.

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September 2013

Molecular cloning, sequence analysis and homology modeling of the first caudata amphibian antifreeze-like protein in axolotl (Ambystoma mexicanum).

Zoolog Sci 2013 Aug;30(8):658-62

School of Life Science and Biotechnology, Dalian University of Technology, Dalian, Liaoning, China.

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http://dx.doi.org/10.2108/zsj.30.658DOI Listing
August 2013

A potential anti-tumor herbal medicine, Corilagin, inhibits ovarian cancer cell growth through blocking the TGF-β signaling pathways.

BMC Complement Altern Med 2013 Feb 15;13:33. Epub 2013 Feb 15.

Department of Gynecology, Obstetrics and Gynecology Hospital of Fudan University, Shanghai Key Laboratory of Female Reproductive Endocrine Related Diseases, Shanghai 200011, People's Republic of China.

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http://dx.doi.org/10.1186/1472-6882-13-33DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3598193PMC
February 2013

Sparse Bayesian Graphical Models for RPPA Time Course Data.

IEEE Int Workshop Genomic Signal Process Stat 2012 Dec;2012:113-117

Department of Systems Biology, UT MD Anderson Cancer Centre,

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http://dx.doi.org/10.1109/GENSIPS.2012.6507742DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4387196PMC
December 2012