Finding New Order in Biological Functions from the Network Structure of Gene Annotations.

by Kimberly Glass, Michelle Girvan
Published 2015-11-01

Gene Targeting in Disease Networks

by Deborah Weighill, Marouen Ben Guebila, Kimberly Glass, Kimberly Glass, Kimberly Glass, John Platig, John Platig, Jen Jen Yeh, John Quackenbush, John Quackenbush
Published 2021-04-01

Network Medicine in the Age of Biomedical Big Data

by Abhijeet R. Sonawane, Abhijeet R. Sonawane, Scott T. Weiss, Scott T. Weiss, Kimberly Glass, Kimberly Glass, Amitabh Sharma, Amitabh Sharma, Amitabh Sharma
Published 2019-04-01

Passing messages between biological networks to refine predicted interactions.

by Kimberly Glass, Curtis Huttenhower, John Quackenbush, Guo-Cheng Yuan
Published 2013-01-01

lionessR: single sample network inference in R

by Marieke L Kuijjer, Ping-Han Hsieh, John Quackenbush, Kimberly Glass
Published 2019-10-01

Correction: Combinatorial Recruitment of CREB, C/EBPβ and c-Jun Determines Activation of Promoters upon Keratinocyte Differentiation

by Julian M. Rozenberg, Paramita Bhattacharya, Raghunath Chatterjee, Kimberly Glass, Charles Vinson
Published 2013-01-01

Combinatorial recruitment of CREB, C/EBPβ and c-Jun determines activation of promoters upon keratinocyte differentiation.

by Julian M Rozenberg, Paramita Bhattacharya, Raghunath Chatterjee, Kimberly Glass, Charles Vinson
Published 2013-01-01

Correction: Combinatorial Recruitment of CREB, C/EBPβ and c-Jun Determines Activation of Promoters upon Keratinocyte Differentiation.

by Julian M. Rozenberg, Paramita Bhattacharya, Raghunath Chatterjee, Kimberly Glass, Charles Vinson
Published 2013-01-01

Estimating Sample-Specific Regulatory Networks

by Marieke Lydia Kuijjer, Matthew George Tung, GuoCheng Yuan, John Quackenbush, Kimberly Glass
Published 2019-04-01

TFutils: Data structures for transcription factor bioinformatics [version 2; peer review: 2 approved]

by Benjamin J. Stubbs, Shweta Gopaulakrishnan, Kimberly Glass, Nathalie Pochet, Celine Everaert, Benjamin Raby, Vincent Carey
Published 2019-05-01

Robustness and lethality in multilayer biological molecular networks

by Xueming Liu, Enrico Maiorino, Arda Halu, Kimberly Glass, Rashmi B. Prasad, Joseph Loscalzo, Jianxi Gao, Amitabh Sharma
Published 2020-11-01

Multi-scale chromatin state annotation using a hierarchical hidden Markov model

by Eugenio Marco, Wouter Meuleman, Jialiang Huang, Kimberly Glass, Luca Pinello, Jianrong Wang, Manolis Kellis, Guo-Cheng Yuan
Published 2017-04-01

Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data

by Joseph N. Paulson, Cho-Yi Chen, Camila M. Lopes-Ramos, Marieke L. Kuijjer, John Platig, Abhijeet R. Sonawane, Maud Fagny, Kimberly Glass, John Quackenbush
Published 2017-10-01

Regulatory network changes between cell lines and their tissues of origin

by Camila M. Lopes-Ramos, Joseph N. Paulson, Cho-Yi Chen, Marieke L. Kuijjer, Maud Fagny, John Platig, Abhijeet R. Sonawane, Dawn L. DeMeo, John Quackenbush, Kimberly Glass
Published 2017-09-01

Understanding Tissue-Specific Gene Regulation

by Abhijeet Rajendra Sonawane, John Platig, Maud Fagny, Cho-Yi Chen, Joseph Nathaniel Paulson, Camila Miranda Lopes-Ramos, Dawn Lisa DeMeo, John Quackenbush, Kimberly Glass, Marieke Lydia Kuijjer
Published 2017-10-01

RNA-sequencing across three matched tissues reveals shared and tissue-specific gene expression and pathway signatures of COPD

by Jarrett D. Morrow, Robert P. Chase, Margaret M. Parker, Kimberly Glass, Minseok Seo, Miguel Divo, Caroline A. Owen, Peter Castaldi, Dawn L. DeMeo, Edwin K. Silverman, Craig P. Hersh
Published 2019-04-01

Biomarker correlation network in colorectal carcinoma by tumor anatomic location

by Reiko Nishihara, Kimberly Glass, Kosuke Mima, Tsuyoshi Hamada, Jonathan A. Nowak, Zhi Rong Qian, Peter Kraft, Edward L. Giovannucci, Charles S. Fuchs, Andrew T. Chan, John Quackenbush, Shuji Ogino, Jukka-Pekka Onnela
Published 2017-06-01

Ensemble genomic analysis in human lung tissue identifies novel genes for chronic obstructive pulmonary disease

by Jarrett D. Morrow, Michael H. Cho, John Platig, Xiaobo Zhou, Dawn L. DeMeo, Weiliang Qiu, Bartholome Celli, Nathaniel Marchetti, Gerard J. Criner, Raphael Bueno, George R. Washko, Kimberly Glass, John Quackenbush, Edwin K. Silverman, Craig P. Hersh
Published 2018-01-01

Low dose environmental radon exposure and breast tumor gene expression

by Cheng Peng, Natalie DuPre, Trang VoPham, Yujing J. Heng, Gabrielle M. Baker, Christopher A. Rubadue, Kimberly Glass, Abhijeet Sonawane, Oana Zeleznik, Peter Kraft, Susan E. Hankinson, A. Heather Eliassen, Jaime E. Hart, Francine Laden, Rulla M. Tamimi
Published 2020-07-01