Kimberly Glass, Ph.D. - Publications

Affiliations: 
2010 Physics University of Maryland, College Park, College Park, MD 

44 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Sonawane AR, Weiss ST, Glass K, Sharma A. Network Medicine in the Age of Biomedical Big Data. Frontiers in Genetics. 10: 294. PMID 31031797 DOI: 10.3389/fgene.2019.00294  0.4
2019 Lopes-Ramos CM, Kuijjer ML, Ogino S, Fuchs CS, DeMeo DL, Glass K, Quackenbush J. Correction: Gene Regulatory Network Analysis Identifies Sex-Linked Differences in Colon Cancer Drug Metabolism. Cancer Research. 79: 2084. PMID 30987980 DOI: 10.1158/0008-5472.CAN-19-0678  0.4
2019 Kuijjer ML, Tung MG, Yuan G, Quackenbush J, Glass K. Estimating Sample-Specific Regulatory Networks. Iscience. 14: 226-240. PMID 30981959 DOI: 10.1016/j.isci.2019.03.021  0.4
2019 Morrow JD, Chase RP, Parker MM, Glass K, Seo M, Divo M, Owen CA, Castaldi P, DeMeo DL, Silverman EK, Hersh CP. RNA-sequencing across three matched tissues reveals shared and tissue-specific gene expression and pathway signatures of COPD. Respiratory Research. 20: 65. PMID 30940135 DOI: 10.1186/s12931-019-1032-z  0.36
2019 Peng C, van Meel ER, Cardenas A, Rifas-Shiman SL, Sonawane AR, Glass KR, Gold DR, Platts-Mills TA, Lin X, Oken E, Hivert MF, Baccarelli AA, de Jong NW, Felix JF, Jaddoe VW, et al. Epigenome-wide association study reveals methylation pathways associated with childhood allergic sensitization. Epigenetics. PMID 30876376 DOI: 10.1080/15592294.2019.1590085  0.4
2019 Yu D, Zhang Z, Glass K, Su J, DeMeo DL, Tantisira K, Weiss ST, Qiu W. New Statistical Methods for Constructing Robust Differential Correlation Networks to characterize the interactions among microRNAs. Scientific Reports. 9: 3499. PMID 30837613 DOI: 10.1038/s41598-019-40167-8  0.36
2018 Huang T, Glass K, Zeleznik OA, Kang JH, Ivey KL, Sonawane AR, Birmann BM, Hersh CP, Hu FB, Tworoger SS. A Network Analysis of Biomarkers for Type 2 Diabetes. Diabetes. PMID 30409783 DOI: 10.2337/db18-0892  0.4
2018 Lopes-Ramos CM, Kuijjer ML, Ogino S, Fuchs CS, DeMeo DL, Glass K, Quackenbush J. Gene Regulatory Network Analysis Identifies Sex-Linked Differences in Colon Cancer Drug Metabolism. Cancer Research. 78: 5538-5547. PMID 30275053 DOI: 10.1158/0008-5472.CAN-18-0454  0.4
2018 Morrow JD, Cho MH, Platig J, Zhou X, DeMeo DL, Qiu W, Celli B, Marchetti N, Criner GJ, Bueno R, Washko GR, Glass K, Quackenbush J, Silverman EK, Hersh CP. Ensemble genomic analysis in human lung tissue identifies novel genes for chronic obstructive pulmonary disease. Human Genomics. 12: 1. PMID 29335020 DOI: 10.1186/s40246-018-0132-z  0.4
2018 Morrow JD, Glass K, Cho MH, Hersh CP, Pinto-Plata V, Celli B, Marchetti N, Criner G, Bueno R, Washko G, Choi AMK, Quackenbush J, Silverman EK, DeMeo DL. Human Lung DNA Methylation Quantitative Trait Loci Colocalize with COPD Genome-wide Association Loci. American Journal of Respiratory and Critical Care Medicine. PMID 29313708 DOI: 10.1164/rccm.201707-1434OC  0.4
2017 Driesbaugh KH, Branchetti E, Grau JB, Keeney SJ, Glass K, Oyama MA, Rioux N, Ayoub S, Sacks MS, Quackenbush J, Levy RJ, Ferrari G. Serotonin receptor 2B signaling with interstitial cell activation and leaflet remodeling in degenerative mitral regurgitation. Journal of Molecular and Cellular Cardiology. PMID 29291394 DOI: 10.1016/j.yjmcc.2017.12.014  0.4
2017 Schlauch D, Glass K, Hersh CP, Silverman EK, Quackenbush J. Estimating drivers of cell state transitions using gene regulatory network models. Bmc Systems Biology. 11: 139. PMID 29237467 DOI: 10.1186/s12918-017-0517-y  0.4
2017 Sonawane AR, Platig J, Fagny M, Chen CY, Paulson JN, Lopes-Ramos CM, DeMeo DL, Quackenbush J, Glass K, Kuijjer ML. Understanding Tissue-Specific Gene Regulation. Cell Reports. 21: 1077-1088. PMID 29069589 DOI: 10.1016/j.celrep.2017.10.001  0.4
2017 Paulson JN, Chen CY, Lopes-Ramos CM, Kuijjer ML, Platig J, Sonawane AR, Fagny M, Glass K, Quackenbush J. Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data. Bmc Bioinformatics. 18: 437. PMID 28974199 DOI: 10.1186/s12859-017-1847-x  0.4
2017 Lopes-Ramos CM, Paulson JN, Chen CY, Kuijjer ML, Fagny M, Platig J, Sonawane AR, DeMeo DL, Quackenbush J, Glass K. Regulatory network changes between cell lines and their tissues of origin. Bmc Genomics. 18: 723. PMID 28899340 DOI: 10.1186/s12864-017-4111-x  0.4
2017 Fagny M, Paulson JN, Kuijjer ML, Sonawane AR, Chen CY, Lopes-Ramos CM, Glass K, Quackenbush J, Platig J. Exploring regulation in tissues with eQTL networks. Proceedings of the National Academy of Sciences of the United States of America. PMID 28851834 DOI: 10.1073/pnas.1707375114  0.4
2017 Qiu W, Guo F, Glass K, Guo Cheng Yuan, Quackenbush J, Zhou X, Tantisira KG. Differential Connectivity of Gene Regulatory Networks Distinguishes Corticosteroid Response in Asthma. The Journal of Allergy and Clinical Immunology. PMID 28736268 DOI: 10.1016/j.jaci.2017.05.052  0.4
2017 Nishihara R, Glass K, Mima K, Hamada T, Nowak JA, Qian ZR, Kraft P, Giovannucci EL, Fuchs CS, Chan AT, Quackenbush J, Ogino S, Onnela JP. Biomarker correlation network in colorectal carcinoma by tumor anatomic location. Bmc Bioinformatics. 18: 304. PMID 28623901 DOI: 10.1186/s12859-017-1718-5  0.4
2017 Schlauch D, Paulson JN, Young A, Glass K, Quackenbush J. Estimating Gene Regulatory Networks with pandaR. Bioinformatics (Oxford, England). PMID 28334344 DOI: 10.1093/bioinformatics/btx139  0.4
2017 Morrow JD, Zhou X, Lao T, Jiang Z, DeMeo DL, Cho MH, Qiu W, Cloonan S, Pinto-Plata V, Celli B, Marchetti N, Criner GJ, Bueno R, Washko GR, Glass K, et al. Functional interactors of three genome-wide association study genes are differentially expressed in severe chronic obstructive pulmonary disease lung tissue. Scientific Reports. 7: 44232. PMID 28287180 DOI: 10.1038/srep44232  0.4
2016 Hardin M, Cho MH, Sharma SS, Glass K, Castaldi PJ, McDonald ML, Aschard H, Senter-Sylvia J, Tantisira K, Weiss ST, Hersh CP, Morrow JD, Lomas D, Agusti A, Bakke P, et al. Sex-based Genetic Association Study Identifies CELSR1 as a Possible COPD Risk Locus Among Women. American Journal of Respiratory Cell and Molecular Biology. PMID 27854507 DOI: 10.1165/rcmb.2016-0172OC  0.36
2016 Morrow JD, Cho MH, Hersh CP, Pinto-Plata V, Celli B, Marchetti N, Criner G, Bueno R, Washko G, Glass K, Choi AM, Quackenbush J, Silverman EK, DeMeo DL. DNA methylation profiling in human lung tissue identifies genes associated with COPD. Epigenetics. 0. PMID 27564456 DOI: 10.1080/15592294.2016.1226451  0.4
2016 Vargas AJ, Quackenbush J, Glass K. Diet-induced weight loss leads to a switch in gene regulatory network control in the rectal mucosa. Genomics. PMID 27524493 DOI: 10.1016/j.ygeno.2016.08.001  0.4
2016 van IJzendoorn DG, Glass K, Quackenbush J, Kuijjer ML. PyPanda: a Python package for gene regulatory network reconstruction. Bioinformatics (Oxford, England). PMID 27402905 DOI: 10.1093/bioinformatics/btw422  0.4
2016 Chang Y, Glass K, Liu YY, Silverman EK, Crapo JD, Tal-Singer R, Bowler R, Dy J, Cho M, Castaldi P. COPD subtypes identified by network-based clustering of blood gene expression. Genomics. PMID 26773458 DOI: 10.1016/j.ygeno.2016.01.004  1
2016 Cloonan SM, Glass K, Laucho-Contreras ME, Bhashyam AR, Cervo M, Pabón MA, Konrad C, Polverino F, Siempos II, Perez E, Mizumura K, Ghosh MC, Parameswaran H, Williams NC, Rooney KT, et al. Mitochondrial iron chelation ameliorates cigarette smoke-induced bronchitis and emphysema in mice. Nature Medicine. PMID 26752519 DOI: 10.1038/nm.4021  1
2015 Glass K, Girvan M. Finding New Order in Biological Functions from the Network Structure of Gene Annotations. Plos Computational Biology. 11: e1004565. PMID 26588252 DOI: 10.1371/journal.pcbi.1004565  1
2015 Glass K, Quackenbush J, Spentzos D, Haibe-Kains B, Yuan GC. A network model for angiogenesis in ovarian cancer. Bmc Bioinformatics. 16: 115. PMID 25888305 DOI: 10.1186/s12859-015-0551-y  1
2015 Lao T, Glass K, Qiu W, Polverino F, Gupta K, Morrow J, Mancini JD, Vuong L, Perrella MA, Hersh CP, Owen CA, Quackenbush J, Yuan GC, Silverman EK, Zhou X. Haploinsufficiency of Hedgehog interacting protein causes increased emphysema induced by cigarette smoke through network rewiring. Genome Medicine. 7: 12. PMID 25763110 DOI: 10.1186/s13073-015-0137-3  1
2015 Xu J, Shao Z, Li D, Xie H, Kim W, Huang J, Taylor JE, Pinello L, Glass K, Jaffe JD, Yuan GC, Orkin SH. Developmental control of polycomb subunit composition by GATA factors mediates a switch to non-canonical functions. Molecular Cell. 57: 304-16. PMID 25578878 DOI: 10.1016/j.molcel.2014.12.009  1
2015 Glass K, Quackenbush J, Kepner J. High performance computing of gene regulatory networks using a message-passing model 2015 Ieee High Performance Extreme Computing Conference, Hpec 2015. DOI: 10.1109/HPEC.2015.7322475  1
2014 Glass K, Quackenbush J, Silverman EK, Celli B, Rennard SI, Yuan GC, DeMeo DL. Sexually-dimorphic targeting of functionally-related genes in COPD. Bmc Systems Biology. 8: 118. PMID 25431000 DOI: 10.1186/s12918-014-0118-y  1
2014 Mizumura K, Cloonan SM, Nakahira K, Bhashyam AR, Cervo M, Kitada T, Glass K, Owen CA, Mahmood A, Washko GR, Hashimoto S, Ryter SW, Choi AM. Mitophagy-dependent necroptosis contributes to the pathogenesis of COPD. The Journal of Clinical Investigation. 124: 3987-4003. PMID 25083992 DOI: 10.1172/JCI74985  1
2014 Glass K, Girvan M. Annotation enrichment analysis: an alternative method for evaluating the functional properties of gene sets. Scientific Reports. 4: 4191. PMID 24569707 DOI: 10.1038/srep04191  1
2013 Rozenberg JM, Bhattacharya P, Chatterjee R, Glass K, Vinson C. Combinatorial recruitment of CREB, C/EBPβ and c-Jun determines activation of promoters upon keratinocyte differentiation. Plos One. 8: e78179. PMID 24244291 DOI: 10.1371/journal.pone.0078179  1
2013 Black JC, Manning AL, Van Rechem C, Kim J, Ladd B, Cho J, Pineda CM, Murphy N, Daniels DL, Montagna C, Lewis PW, Glass K, Allis CD, Dyson NJ, Getz G, et al. KDM4A lysine demethylase induces site-specific copy gain and rereplication of regions amplified in tumors. Cell. 154: 541-55. PMID 23871696 DOI: 10.1016/j.cell.2013.06.051  1
2013 Glass K, Huttenhower C, Quackenbush J, Yuan GC. Passing messages between biological networks to refine predicted interactions. Plos One. 8: e64832. PMID 23741402 DOI: 10.1371/journal.pone.0064832  1
2013 Baena E, Shao Z, Linn DE, Glass K, Hamblen MJ, Fujiwara Y, Kim J, Nguyen M, Zhang X, Godinho FJ, Bronson RT, Mucci LA, Loda M, Yuan GC, Orkin SH, et al. ETV1 directs androgen metabolism and confers aggressive prostate cancer in targeted mice and patients. Genes & Development. 27: 683-98. PMID 23512661 DOI: 10.1101/gad.211011.112  1
2012 Xu J, Shao Z, Glass K, Bauer DE, Pinello L, Van Handel B, Hou S, Stamatoyannopoulos JA, Mikkola HK, Yuan GC, Orkin SH. Combinatorial assembly of developmental stage-specific enhancers controls gene expression programs during human erythropoiesis. Developmental Cell. 23: 796-811. PMID 23041383 DOI: 10.1016/j.devcel.2012.09.003  1
2012 Glass K, Ott E, Losert W, Girvan M. Implications of functional similarity for gene regulatory interactions. Journal of the Royal Society, Interface / the Royal Society. 9: 1625-36. PMID 22298814 DOI: 10.1098/rsif.2011.0585  1
2012 Warren CL, Zhao J, Glass K, Rishi V, Ansari AZ, Vinson C. Fabrication of duplex DNA microarrays incorporating methyl-5-cytosine Lab On a Chip - Miniaturisation For Chemistry and Biology. 12: 376-380. PMID 22139143 DOI: 10.1039/c1lc20698b  1
2011 Chatterjee R, Bhattacharya P, Gavrilova O, Glass K, Moitra J, Myakishev M, Pack S, Jou W, Feigenbaum L, Eckhaus M, Vinson C. Suppression of the C/EBP family of transcription factors in adipose tissue causes lipodystrophy. Journal of Molecular Endocrinology. 46: 175-92. PMID 21321096 DOI: 10.1530/JME-10-0172  1
2010 Rishi V, Bhattacharya P, Chatterjee R, Rozenberg J, Zhao J, Glass K, Fitzgerald P, Vinson C. CpG methylation of half-CRE sequences creates C/EBPalpha binding sites that activate some tissue-specific genes. Proceedings of the National Academy of Sciences of the United States of America. 107: 20311-6. PMID 21059933 DOI: 10.1073/pnas.1008688107  1
2008 Rozenberg JM, Shlyakhtenko A, Glass K, Rishi V, Myakishev MV, FitzGerald PC, Vinson C. All and only CpG containing sequences are enriched in promoters abundantly bound by RNA polymerase II in multiple tissues. Bmc Genomics. 9: 67. PMID 18252004 DOI: 10.1186/1471-2164-9-67  1
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