Lee A D Cooper

Lee A D Cooper

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Lee A D Cooper

Lee A D Cooper

Publications by authors named "Lee A D Cooper"

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Informatics Approaches to Address New Challenges in the Classification of Lymphoid Malignancies.

JCO Clin Cancer Inform 2018 9;2. Epub 2018 Feb 9.

Emory University School of Medicine, Atlanta, GA; Metin Gurcan, Ohio State University, Columbus, OH.

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http://dx.doi.org/10.1200/CCI.17.00039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6324571PMC
September 2019

Incorporation of a spectral model in a convolutional neural network for accelerated spectral fitting.

Magn Reson Med 2019 05 21;81(5):3346-3357. Epub 2019 Jan 21.

Wallace H. Coulter Department of Biomedical Engineering, Emory University School of Medicine and Georgia Institute of Technology, Atlanta, Georgia.

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http://dx.doi.org/10.1002/mrm.27641DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6414236PMC
May 2019

A convolutional neural network to filter artifacts in spectroscopic MRI.

Magn Reson Med 2018 11 9;80(5):1765-1775. Epub 2018 Mar 9.

Wallace H. Coulter Department of Biomedical Engineering, Emory University and Georgia Institute of Technology, Atlanta, Georgia.

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http://dx.doi.org/10.1002/mrm.27166DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6107370PMC
November 2018

TASI: A software tool for spatial-temporal quantification of tumor spheroid dynamics.

Sci Rep 2018 05 8;8(1):7248. Epub 2018 May 8.

Department of Biomedical Informatics, Emory University, Atlanta, GA, USA.

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http://dx.doi.org/10.1038/s41598-018-25337-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5940855PMC
May 2018

Predicting cancer outcomes from histology and genomics using convolutional networks.

Proc Natl Acad Sci U S A 2018 03 12;115(13):E2970-E2979. Epub 2018 Mar 12.

Department of Biomedical Informatics, Emory University School of Medicine, Atlanta, GA 30322;

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http://www.pnas.org/lookup/doi/10.1073/pnas.1717139115
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http://dx.doi.org/10.1073/pnas.1717139115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5879673PMC
March 2018

IMAGING GENOMICS.

Pac Symp Biocomput 2017 ;22:51-57

Center for Neuroimaging, Department of Radiology and Imaging Sciences, Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, 355 West 16th Street Suite 4100, Indianapolis, IN 46202, USA,

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http://www.worldscientific.com/doi/abs/10.1142/9789813207813
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http://dx.doi.org/10.1142/9789813207813_0006DOI Listing
July 2017

AKT1, LKB1, and YAP1 Revealed as MYC Interactors with NanoLuc-Based Protein-Fragment Complementation Assay.

Mol Pharmacol 2017 04 13;91(4):339-347. Epub 2017 Jan 13.

Department of Pharmacology and Emory Chemical Biology Discovery Center (X.M., Q.Q., A.A.I., Q.N., Y.L., J.H., R.G., S.B., M.A.J., Y.D., H.F.) and Department of Biomedical Informatics (L.A.D.C.), Emory University School of Medicine, Atlanta, Georgia; Departments of Hematology and Medical Oncology (F.R.K., H.F.) and Pathology and Laboratory Medicine (C.S.M.) and Winship Cancer Institute, Emory University, Atlanta, Georgia; State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, China (Y.L.); and Department of Biomedical Engineering, Emory University School of Medicine/Georgia Institute of Technology, Atlanta, Georgia (L.A.D.C.)

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http://dx.doi.org/10.1124/mol.116.107623DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5363710PMC
April 2017

Whole-brain spectroscopic MRI biomarkers identify infiltrating margins in glioblastoma patients.

Neuro Oncol 2016 08 15;18(8):1180-9. Epub 2016 Mar 15.

Department of Radiology and Imaging Sciences, Emory University School of Medicine, Atlanta, Georgia (J.S.C., Z.L., S.S.G., C.A.H., H.S.); Department of Radiation Oncology, Emory University School of Medicine, Atlanta, Georgia(H.G.S., E.S.); Winship Cancer Institute of Emory University, Atlanta, Georgia(H.G.S., Z.L., J.J.O., C.G.H., H.S.); Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia(S.S.G., L.A.D.C., B.K., H.S.); Department of Biomedical informatics, Emory University School of Medicine, Atlanta, Georgia(L.A.D.C.); Department of Neurosurgery, Emory University School of Medicine, Atlanta, Georgia(J.J.O., C.G.H.); Department of Pathology, Emory University School of Medicine, Atlanta, Georgia(S.G.N.); Department of Neurosurgery, Icahn School of Medicine at Mount Sinai, New York, New York (C.G.H.).

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http://dx.doi.org/10.1093/neuonc/now036DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4933486PMC
August 2016

A systematic pipeline for the objective comparison of whole-brain spectroscopic MRI with histology in biopsy specimens from grade III glioma.

Tomography 2016 Jun;2(2):106-116

Department of Radiology and Imaging Sciences, Emory University School of Medicine, Atlanta, GA; Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA; Winship Cancer Institute of Emory University.

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http://dx.doi.org/10.18383/j.tom.2016.00136DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4968944PMC
June 2016

Somatic mutations associated with MRI-derived volumetric features in glioblastoma.

Neuroradiology 2015 Dec 4;57(12):1227-37. Epub 2015 Sep 4.

Department of Radiation Oncology, Dana-Farber Cancer Institute, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA.

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http://dx.doi.org/10.1007/s00234-015-1576-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4648958PMC
December 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

Novel genotype-phenotype associations in human cancers enabled by advanced molecular platforms and computational analysis of whole slide images.

Lab Invest 2015 Apr 19;95(4):366-76. Epub 2015 Jan 19.

1] Department of Biomedical Informatics, Emory University, Atlanta, GA, USA [2] Winship Cancer Institute, Emory University, Atlanta, GA, USA [3] Department of Pathology and Laboratory Medicine, Emory University, Atlanta, GA, USA.

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http://www.nature.com/articles/labinvest2014153
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http://dx.doi.org/10.1038/labinvest.2014.153DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4465352PMC
April 2015

Machine-based morphologic analysis of glioblastoma using whole-slide pathology images uncovers clinically relevant molecular correlates.

PLoS One 2013 13;8(11):e81049. Epub 2013 Nov 13.

Center for Comprehensive Informatics, Emory University, Atlanta, Georgia, United States of America ; Department of Biomedical Informatics, Emory University, Atlanta, Georgia, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0081049PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3827469PMC
July 2014

Cancer Digital Slide Archive: an informatics resource to support integrated in silico analysis of TCGA pathology data.

J Am Med Inform Assoc 2013 Nov-Dec;20(6):1091-8. Epub 2013 Jul 25.

Department of Biomedical Informatics, Emory University School of Medicine, Atlanta, Georgia, USA.

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http://dx.doi.org/10.1136/amiajnl-2012-001469DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3822112PMC
December 2013

Tumor-infiltrating lymphocytes in glioblastoma are associated with specific genomic alterations and related to transcriptional class.

Clin Cancer Res 2013 Sep 17;19(18):4951-60. Epub 2013 Jul 17.

Authors' Affiliations: Emory University School of Medicine, Departments of Biomedical Informatics and Pathology and Laboratory Medicine,Center for Comprehensive Informatics, Winship Cancer Institute, Emory University; Department of Pathology, Children's Healthcare of Atlanta, Atlanta, Georgia; Department of Neurosurgery, Henry Ford Hospital, Detroit, Michigan; Department of Pathology, Case Western Reserve University, Cleveland, Ohio; Department of Pathology, University of Texas MD Anderson Cancer Center, Houston, Texas; Department of Pathology, Duke University Medical Center, Durham, North Carolina; Department of Pathology, Ohio State University, Columbus, Ohio; Department of Pathology, University of North Carolina, Chapel Hill, North Carolina; and Department of Neurosurgery, Memorial Sloan Kettering Cancer Center, New York, New York.

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http://dx.doi.org/10.1158/1078-0432.CCR-13-0551DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3865611PMC
September 2013

A high-performance spatial database based approach for pathology imaging algorithm evaluation.

J Pathol Inform 2013 14;4. Epub 2013 Mar 14.

Department of Biomedical Informatics, Emory University, USA ; Center for Comprehensive Informatics, Emory University, USA.

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http://dx.doi.org/10.4103/2153-3539.108543DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3624706PMC
April 2013

Acceleration of Two Point Correlation Function Calculation for Pathology Image Segmentation.

Proc IEEE Int Conf Healthc Inform Imaging Syst Biol 2011 Jul 27;2011:174-181. Epub 2011 Oct 27.

Department of Biomedical Informatics, The Ohio State University, Columbus, OH.

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http://dx.doi.org/10.1109/HISB.2011.10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6042293PMC
July 2011

MORPHOLOGICAL SIGNATURES AND GENOMIC CORRELATES IN GLIOBLASTOMA.

Proc IEEE Int Symp Biomed Imaging 2011 Mar:1624-1627

Center for Comprehensive Informatics, Emory University, Atlanta, GA 30322.

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http://dx.doi.org/10.1109/ISBI.2011.5872714DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3241612PMC
March 2011