Education/CredentialsMaster's Degree : University of York (Bioinformatics)Doctor of Veterinary Medicine: College of Veterinary Sciences (Veterinary sciences) Contact Information Childrens Hospital Bldg R 232 Office 513-636-0261 Email jeggaa@ucmail.uc.edu Research InterestsMy long term goals are to design and develop novel and robust computational approaches that will accelerate the diffusion of genomics into biomedical research and education and convert the genomics’ data deluge into systematized knowledge to understand the molecular basis of disease and facilitate translational research. To this effect I have pioneered approaches and applications in bioinformatics for elucidation of gene regulatory networks (e.g., predict and score p53 target genes, analyzing p53-mi... Peer Reviewed Publications Wang, Yunguan; Yella, Jaswanth; Jegga, Anil G 2019. Transcriptomic Data Mining and Repurposing for Computational Drug Discovery. Methods in molecular biology (Clifton, N.J.), 1903 , 73-95Chen, Jing; Xu, Huan; Jegga, Anil; Zhang, Kejian; White, Pete S; Zhang, Ge 2018. Novel phenotype-disease matching tool for rare genetic diseases. Genetics in medicine : official journal of the American College of Medical Genetics, , Hankey, William; Chen, Zhong; Bergman, Maxwell J; Fernandez, Max O; Hancioglu, Baris; Lan, Xun; Jegga, Anil G; Zhang, Jie; Jin, Victor X; Aronow, Bruce J; Wang, Qianben; Groden, Joanna 2018. Chromatin-associated APC regulates gene expression in collaboration with canonical WNT signaling and AP-1. Oncotarget, 9 58, 31214-31230Jiang, Alex; Jegga, Anil G 2018. Characterizing drug-related adverse events by joint analysis of biomedical and genomic data: A case study of drug-induced pulmonary fibrosis. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2017 , 91-97Kronk, Charles J; Jegga, Anil 2018. GNOMICS: A one-stop shop for biomedical and genomic data. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2017 , 118-123Peng, Jiangtong; Li, Yutian; Wang, Xiaohong; Deng, Shan; Holland, Jenna; Yates, Emily; Chen, Jing; Gu, Haitao; Essandoh, Kobina; Mu, Xingjiang; Wang, Boyu; McNamara, Robert K; Peng, Tianqing; Jegga, Anil G; Liu, Tiemin; Nakamura, Takahisa; Huang, Kai; Perez-Tilve, Diego; Fan, Guo-Chang 2018. An Hsp20-FBXO4 Axis Regulates Adipocyte Function through Modulating PPAR? Ubiquitination. Cell reports, 23 12, 3607-3620Smith, Eric A; Krumpelbeck, Eric F; Jegga, Anil G; Prell, Malte; Matrka, Marie M; Kappes, Ferdinand; Greis, Kenneth D; Ali, Abdullah M; Meetei, Amom R; Wells, Susanne I 2018. The nuclear DEK interactome supports multi-functionality. Proteins, 86 1, 88-97Sontake, Vishwaraj; Kasam, Rajesh K; Sinner, Debora; Korfhagen, Thomas R; Reddy, Geereddy B; White, Eric S; Jegga, Anil G; Madala, Satish K 2018. Wilms' tumor 1 drives fibroproliferation and myofibroblast transformation in severe fibrotic lung disease. JCI insight, 3 16, Yella, Jaswanth K; Yaddanapudi, Suryanarayana; Wang, Yunguan; Jegga, Anil G 2018. Changing Trends in Computational Drug Repositioning. Pharmaceuticals (Basel, Switzerland), 11 2, Angel, P M; Narmoneva, D A; Sewell-Loftin, M K; Munjal, C; Dupuis, L; Landis, B J; Jegga, A; Kern, C B; Merryman, W D; Baldwin, H S; Bressan, G M; Hinton, Robert B 2017. Proteomic Alterations Associated with Biomechanical Dysfunction are Early Processes in the Emilin1 Deficient Mouse Model of Aortic Valve Disease. Annals of biomedical engineering, , Kurowski, Brad G; Treble-Barna, Amery; Pitzer, Alexis J; Wade, Shari L; Martin, Lisa J; Chima, Ranjit S; Jegga, Anil 2017. Applying Systems Biology Methodology To Identify Genetic Factors Possibly Associated with Recovery after Traumatic Brain Injury. Journal of neurotrauma, 34 14, 2280-2290Landis, Benjamin J; Schubert, Jeffrey A; Lai, Dongbing; Jegga, Anil G; Shikany, Amy R; Foroud, Tatiana; Ware, Stephanie M; Hinton, Robert B 2017. Exome Sequencing Identifies Candidate Genetic Modifiers of Syndromic and Familial Thoracic Aortic Aneurysm Severity. Journal of cardiovascular translational research, , Luo, Zhenhua; Jegga, Anil G; Bezerra, Jorge A 2017. Gene-disease associations identify a connectome with shared molecular pathways in human cholangiopathies. Hepatology (Baltimore, Md.), , Lynch, Thomas L; Ismahil, Mohamed Ameen; Jegga, Anil G; Zilliox, Michael J; Troidl, Christian; Prabhu, Sumanth D; Sadayappan, Sakthivel 2017. Cardiac inflammation in genetic dilated cardiomyopathy caused by MYBPC3 mutation. Journal of molecular and cellular cardiology, 102 , 83-93Malavia, Tulsi A; Chaparala, Srilakshmi; Wood, Joel; Chowdari, Kodavali; Prasad, Konasale M; McClain, Lora; Jegga, Anil G; Ganapathiraju, Madhavi K; Nimgaonkar, Vishwajit L 2017. Generating testable hypotheses for schizophrenia and rheumatoid arthritis pathogenesis by integrating epidemiological, genomic, and protein interaction data. NPJ schizophrenia, 3 , 11Malek, E; Abdel-Malek, M A Y; Jagannathan, S; Vad, N; Karns, R; Jegga, A G; Broyl, A; van Duin, M; Sonneveld, P; Cottini, F; Anderson, K C; Driscoll, J J 2017. Pharmacogenomics and chemical library screens reveal a novel SCF(SKP2) inhibitor that overcomes Bortezomib resistance in multiple myeloma. Leukemia, 31 3, 645-653Munjal, Charu; Jegga, Anil G; Opoka, Amy M; Stoilov, Ivan; Norris, Russell A; Thomas, Craig J; Smith, J Michael; Mecham, Robert P; Bressan, Giorgio M; Hinton, Robert B 2017. Inhibition of MAPK-Erk pathway in vivo attenuates aortic valve disease processes in Emilin1-deficient mouse model. Physiological reports, 5 5, Singh, Brijendra; Jegga, Anil G; Shanmukhappa, Kumar S; Edukulla, Ramakrishna; Khurana Hershey, Gurjit Kaur; Medvedovic, Mario; Dillon, Stacey R; Madala, Satish K 2017. Correction: IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function. PloS one, 12 1, e0170446Smith, Eric A; Gole, Boris; Willis, Nicholas A; Soria, Rebeca; Starnes, Linda M; Krumpelbeck, Eric F; Jegga, Anil G; Ali, Abdullah M; Guo, Haihong; Meetei, Amom R; Andreassen, Paul R; Kappes, Ferdinand; Vinnedge, Lisa M Privette; Daniel, Jeremy A; Scully, Ralph; Wiesmüller, Lisa; Wells, Susanne I 2017. DEK is required for homologous recombination repair of DNA breaks. Scientific reports, 7 , 44662Sontake, Vishwaraj; Wang, Yunguan; Kasam, Rajesh K; Sinner, Debora; Reddy, Geereddy B; Naren, Anjaparavanda P; McCormack, Francis X; White, Eric S; Jegga, Anil G; Madala, Satish K 2017. Hsp90 regulation of fibroblast activation in pulmonary fibrosis. JCI insight, 2 4, e91454Wang, Yunguan; Yella, Jaswanth; Chen, Jing; McCormack, Francis X; Madala, Satish K; Jegga, Anil G 2017. Unsupervised gene expression analyses identify IPF-severity correlated signatures, associated genes and biomarkers. BMC pulmonary medicine, 17 1, 133Bian, Fenghua; Gao, Fei; Kartashov, Andrey V; Jegga, Anil G; Barski, Artem; Das, Sanjoy K 2016. Polycomb repressive complex 1 controls uterine decidualization. Scientific reports, 6 , 26061Miethke, Alexander G; Zhang, Wujuan; Simmons, Julia; Taylor, Amy E; Shi, Tiffany; Shanmukhappa, Shiva Kumar; Karns, Rebekah; White, Shana; Jegga, Anil G; Lages, Celine S; Nkinin, Stephenson; Keller, Bradley T; Setchell, Kenneth D R 2016. Pharmacological inhibition of apical sodium-dependent bile acid transporter changes bile composition and blocks progression of sclerosing cholangitis in multidrug resistance 2 knockout mice. Hepatology (Baltimore, Md.), 63 2, 512-23Sarangdhar M, Tabar S, Schmidt C, Kushwaha A, Shah K, Dahlquist JE, Jegga AG, Aronow BJ. 2016. Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data. Nature Biotechnology, 34 7, 697Sarangdhar, Mayur; Tabar, Scott; Schmidt, Charles; Kushwaha, Akash; Shah, Krish; Dahlquist, Jeanine E; Jegga, Anil G; Aronow, Bruce J 2016. Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data. Nature biotechnology, 34 7, 697-700Singh, Brijendra; Jegga, Anil G; Shanmukhappa, Kumar S; Edukulla, Ramakrishna; Khurana Hershey, Gurjit H; Medvedovic, Mario; Dillon, Stacey R; Madala, Satish K 2016. IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function. PloS one, 11 8, e0161877Adams, Allie K; Bolanos, Lyndsey C; Dexheimer, Phillip J; Karns, Rebekah A; Aronow, Bruce J; Komurov, Kakajan; Jegga, Anil G; Casper, Keith A; Patil, Yash J; Wilson, Keith M; Starczynowski, Daniel T; Wells, Susanne I 2015. IRAK1 is a novel DEK transcriptional target and is essential for head and neck cancer cell survival. Oncotarget, 6 41, 43395-407Cha, Jeeyeon; Burnum-Johnson, Kristin E; Bartos, Amanda; Li, Yingju; Baker, Erin S; Tilton, Susan C; Webb-Robertson, Bobbie-Jo M; Piehowski, Paul D; Monroe, Matthew E; Jegga, Anil G; Murata, Shigeo; Hirota, Yasushi; Dey, Sudhansu K 2015. Muscle Segment Homeobox Genes Direct Embryonic Diapause by Limiting Inflammation in the Uterus. The Journal of biological chemistry, 290 24, 15337-49Chung, Daesuk; Gao, Fei; Jegga, Anil G; Das, Sanjoy K 2015. Estrogen mediated epithelial proliferation in the uterus is directed by stromal Fgf10 and Bmp8a. Molecular and cellular endocrinology, 400 , 48-60Edukulla, Ramakrishna; Singh, Brijendra; Jegga, Anil G; Sontake, Vishwaraj; Dillon, Stacey R; Madala, Satish K 2015. Th2 Cytokines Augment IL-31/IL-31RA Interactions via STAT6-dependent IL-31RA Expression. The Journal of biological chemistry, 290 21, 13510-20Gilbert, Shila; Nivarthi, Harini; Mayhew, Christopher N; Lo, Yuan-Hung; Noah, Taeko K; Vallance, Jefferson; Rülicke, Thomas; Müller, Mathias; Jegga, Anil G; Tang, Wenjuan; Zhang, Dongsheng; Helmrath, Michael; Shroyer, Noah; Moriggl, Richard; Han, Xiaonan 2015. Activated STAT5 confers resistance to intestinal injury by increasing intestinal stem cell proliferation and regeneration. Stem cell reports, 4 2, 209-25Hawrylycz, Michael; Miller, Jeremy A; Menon, Vilas; Feng, David; Dolbeare, Tim; Guillozet-Bongaarts, Angela L; Jegga, Anil G; Aronow, Bruce J; Lee, Chang-Kyu; Bernard, Amy; Glasser, Matthew F; Dierker, Donna L; Menche, Jörg; Szafer, Aaron; Collman, Forrest; Grange, Pascal; Berman, Kenneth A; Mihalas, Stefan; Yao, Zizhen; Stewart, Lance; Barabási, Albert-László; Schulkin, Jay; Phillips, John; Ng, Lydia; Dang, Chinh; Haynor, David R; Jones, Allan; Van Essen, David C; Koch, Christof; Lein, Ed 2015. Canonical genetic signatures of the adult human brain. Nature neuroscience, 18 12, 1832-44Patchala, Jagadeesh; Jegga, Anil G 2015. Concept Modeling-based Drug Repositioning. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2015 , 222-6Bessho, Kazuhiko; Mourya, Reena; Shivakumar, Pranavkumar; Walters, Stephanie; Magee, John C; Rao, Marepalli; Jegga, Anil G; Bezerra, Jorge A 2014. Gene expression signature for biliary atresia and a role for interleukin-8 in pathogenesis of experimental disease. Hepatology (Baltimore, Md.), 60 1, 211-23Brundage, M E; Tandon, P; Eaves, D W; Williams, J P; Miller, S J; Hennigan, R H; Jegga, A; Cripe, T P; Ratner, N 2014. MAF mediates crosstalk between Ras-MAPK and mTOR signaling in NF1. Oncogene, 33 49, 5626-36Feng, Yuliang; Huang, Wei; Meng, Wei; Jegga, Anil G; Wang, Yigang; Cai, Wenfeng; Kim, Ha Won; Pasha, Zeeshan; Wen, Zhili; Rao, Fang; Modi, Rohan M; Yu, Xiyong; Ashraf, Muhammad 2014. Heat shock improves Sca-1+ stem cell survival and directs ischemic cardiomyocytes toward a prosurvival phenotype via exosomal transfer: a critical role for HSF1/miR-34a/HSP70 pathway. Stem cells (Dayton, Ohio), 32 2, 462-72Jegga, Anil G 2014. Candidate gene discovery and prioritization in rare diseases. Methods in molecular biology (Clifton, N.J.), 1168 , 295-312Velu, Chinavenmeni S; Chaubey, Aditya; Phelan, James D; Horman, Shane R; Wunderlich, Mark; Guzman, Monica L; Jegga, Anil G; Zeleznik-Le, Nancy J; Chen, Jianjun; Mulloy, James C; Cancelas, Jose A; Jordan, Craig T; Aronow, Bruce J; Marcucci, Guido; Bhat, Balkrishen; Gebelein, Brian; Grimes, H Leighton 2014. Therapeutic antagonists of microRNAs deplete leukemia-initiating cell activity. The Journal of clinical investigation, 124 1, 222-36Wu, Chao; Bardes, Eric E; Jegga, Anil G; Aronow, Bruce J 2014. ToppMiR: ranking microRNAs and their mRNA targets based on biological functions and context. Nucleic acids research, 42 Web Server issue, W107-13Wu, Chao; Zhu, Cheng; Jegga, Anil G 2014. Integrative literature and data mining to rank disease candidate genes. Methods in molecular biology (Clifton, N.J.), 1159 , 207-26Zhu, Cheng; Wu, Chao; Aronow, Bruce J; Jegga, Anil G 2014. Computational approaches for human disease gene prediction and ranking. Advances in experimental medicine and biology, 799 , 69-84Bessho, Kazuhiko; Shanmukhappa, Kumar; Sheridan, Rachel; Shivakumar, Pranavkumar; Mourya, Reena; Walters, Stephanie; Kaimal, Vivek; Dilbone, Eric; Jegga, Anil G; Bezerra, Jorge A 2013. Integrative genomics identifies candidate microRNAs for pathogenesis of experimental biliary atresia. BMC systems biology, 7 , 104Bisio, Alessandra; De Sanctis, Veronica; Del Vescovo, Valerio; Denti, Michela A; Jegga, Anil G; Inga, Alberto; Ciribilli, Yari 2013. Identification of new p53 target microRNAs by bioinformatics and functional analysis. BMC cancer, 13 , 552Brown, E B; Layne, J E; Zhu, C; Jegga, A G; Rollmann, S M 2013. Genome-wide association mapping of natural variation in odour-guided behaviour in Drosophila. Genes, brain, and behavior, 12 5, 503-15Deleger, Louise; Molnar, Katalin; Savova, Guergana; Xia, Fei; Lingren, Todd; Li, Qi; Marsolo, Keith; Jegga, Anil; Kaiser, Megan; Stoutenborough, Laura; Solti, Imre 2013. Large-scale evaluation of automated clinical note de-identification and its impact on information extraction. Journal of the American Medical Informatics Association : JAMIA, 20 1, 84-94Li, Qi; Deleger, Louise; Lingren, Todd; Zhai, Haijun; Kaiser, Megan; Stoutenborough, Laura; Jegga, Anil G; Cohen, Kevin Bretonnel; Solti, Imre 2013. Mining FDA drug labels for medical conditions. BMC medical informatics and decision making, 13 , 53Rajan, Sudarsan; Pena, James R; Jegga, Anil G; Aronow, Bruce J; Wolska, Beata M; Wieczorek, David F 2013. Microarray analysis of active cardiac remodeling genes in a familial hypertrophic cardiomyopathy mouse model rescued by a phospholamban knockout. Physiological genomics, 45 17, 764-73Sarangdhar, Mayur; Kushwaha, Akash; Dahlquist, Jeanine; Jegga, Anil; Aronow, Bruce 2013. Using Systems Biology-based Analysis Approaches to Identify Mechanistically Significant Adverse Drug Reactions: Pulmonary Complications from Combined Use of Anti-TNF? Agents and Corticosteroids. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2013 , 151-5Wu, Chao; Gudivada, Ranga C; Aronow, Bruce J; Jegga, Anil G 2013. Computational drug repositioning through heterogeneous network clustering. BMC systems biology, 7 Suppl 5 , S6Park, Ji Kwon; Martin, Lisa J; Zhang, Xue; Jegga, Anil G; Benson, D Woodrow 2012. Genetic variants in SCN5A promoter are associated with arrhythmia phenotype severity in patients with heterozygous loss-of-function mutation. Heart rhythm, 9 7, 1090-6Willson, Tara A; Kuhn, Benjamin R; Jurickova, Ingrid; Gerad, Shaina; Moon, David; Bonkowski, Erin; Carey, Rebecca; Collins, Margaret H; Xu, Huan; Jegga, Anil G; Guthery, Stephen L; Denson, Lee A 2012. STAT3 genotypic variation and cellular STAT3 activation and colon leukocyte recruitment in pediatric Crohn disease. Journal of pediatric gastroenterology and nutrition, 55 1, 32-43Xie, Huirong; Sun, Xiaofei; Piao, Yulan; Jegga, Anil G; Handwerger, Stuart; Ko, Minoru S H; Dey, Sudhansu K 2012. Silencing or amplification of endocannabinoid signaling in blastocysts via CB1 compromises trophoblast cell migration. The Journal of biological chemistry, 287 38, 32288-97Zhu, Cheng; Kushwaha, Akash; Berman, Kenneth; Jegga, Anil G 2012. A vertex similarity-based framework to discover and rank orphan disease-related genes. BMC systems biology, 6 Suppl 3 , S8Jegga, Anil G; Schneider, Lonnie; Ouyang, Xiaosen; Zhang, Jianhua 2011. Systems biology of the autophagy-lysosomal pathway. Autophagy, 7 5, 477-89Kaimal, Vivek; Sardana, Divya; Bardes, Eric E; Gudivada, Ranga Chandra; Chen, Jing; Jegga, Anil G 2011. Integrative systems biology approaches to identify and prioritize disease and drug candidate genes. Methods in molecular biology (Clifton, N.J.), 700 , 241-59Ma, Xinghong; Gao, Fei; Rusie, Allison; Hemingway, Jennifer; Ostmann, Alicia B; Sroga, Julie M; Jegga, Anil G; Das, Sanjoy K 2011. Decidual cell polyploidization necessitates mitochondrial activity. PloS one, 6 10, e26774Rankin, Scott A; Kormish, Jay; Kofron, Matt; Jegga, Anil; Zorn, Aaron M 2011. A gene regulatory network controlling hhex transcription in the anterior endoderm of the organizer. Developmental biology, 351 2, 297-310Ren, Jie; Jegga, Anil G; Zhang, Minlu; Deng, Jingyuan; Liu, Junbo; Gordon, Christopher B; Aronow, Bruce J; Lu, Long J; Zhang, Bo; Ma, Jun 2011. A Drosophila model of the neurodegenerative disease SCA17 reveals a role of RBP-J/Su(H) in modulating the pathological outcome. Human molecular genetics, 20 17, 3424-36Sardana D, Zhu C, Zhang M, Gudivada RC, Yang L, Jegga AG. 2011. Drug repositioning for orphan diseases. Brief Bioinform., 12 4, 346Sardana, Divya; Zhu, Cheng; Zhang, Minlu; Gudivada, Ranga C; Yang, Lun; Jegga, Anil G 2011. Drug repositioning for orphan diseases. Briefings in bioinformatics, 12 4, 346-56Yang, Lun; Wang, Kejian; Chen, Jian; Jegga, Anil G; Luo, Heng; Shi, Leming; Wan, Chunling; Guo, Xizhi; Qin, Shengying; He, Guang; Feng, Guoyin; He, Lin 2011. Exploring off-targets and off-systems for adverse drug reactions via chemical-protein interactome--clozapine-induced agranulocytosis as a case study. PLoS computational biology, 7 3, e1002016Yang, Lun; Wang, Ke-Jian; Wang, Li-Shan; Jegga, Anil G; Qin, Sheng-Ying; He, Guang; Chen, Jian; Xiao, Yue; He, Lin 2011. Chemical-protein interactome and its application in off-target identification. Interdisciplinary sciences, computational life sciences, 3 1, 22-30Zhang M, Zhu C, Jacomy A, Lu LJ, Jegga AG. 2011. The orphan disease networks. Am J Hum Genet., 88 6, 755Zhang, Minlu; Zhu, Cheng; Jacomy, Alexis; Lu, Long J; Jegga, Anil G 2011. The orphan disease networks. American journal of human genetics, 88 6, 755-766Kaimal, Vivek; Bardes, Eric E; Tabar, Scott C; Jegga, Anil G; Aronow, Bruce J 2010. ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems. Nucleic acids research, 38 Web Server issue, W96-102Maldonado, Arturo R; Klanke, Chuck; Jegga, Anil G; Aronow, Bruce J; Mahller, Yonatan Y; Cripe, Timothy P; Crombleholme, Timothy M 2010. Molecular engineering and validation of an oncolytic herpes simplex virus type 1 transcriptionally targeted to midkine-positive tumors. The journal of gene medicine, 12 7, 613-23Moyer, Katie; Kaimal, Vivek; Pacheco, Cristina; Mourya, Reena; Xu, Huan; Shivakumar, Pranavkumar; Chakraborty, Ranajit; Rao, Marepalli; Magee, John C; Bove, Kevin; Aronow, Bruce J; Jegga, Anil G; Bezerra, Jorge A 2010. Staging of biliary atresia at diagnosis by molecular profiling of the liver. Genome medicine, 2 5, 33Sardana, Divya; Vasa, Suresh; Vepachedu, Nishanth; Chen, Jing; Gudivada, Ranga Chandra; Aronow, Bruce J; Jegga, Anil G 2010. PhenoHM: human-mouse comparative phenome-genome server. Nucleic acids research, 38 Web Server issue, W165-74Takemoto, Clifford M; Brandal, Stephanie; Jegga, Anil G; Lee, Youl-Nam; Shahlaee, Amir; Ying, Ye; Dekoter, Rodney; McDevitt, Michael A 2010. PU.1 positively regulates GATA-1 expression in mast cells. Journal of immunology (Baltimore, Md. : 1950), 184 8, 4349-61Zhang, Xiaowei; Wang, Xiaohong; Zhu, Hongyan; Zhu, Cheng; Wang, Yigang; Pu, William T; Jegga, Anil G; Fan, Guo-Chang 2010. Synergistic effects of the GATA-4-mediated miR-144/451 cluster in protection against simulated ischemia/reperfusion-induced cardiomyocyte death. Journal of molecular and cellular cardiology, 49 5, 841-50Chen J, Bardes EE, Aronow BJ, Jegga AG. 2009. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res., 37 , W305Chen, Jing; Aronow, Bruce J; Jegga, Anil G 2009. Disease candidate gene identification and prioritization using protein interaction networks. BMC bioinformatics, 10 , 73Chen, Jing; Bardes, Eric E; Aronow, Bruce J; Jegga, Anil G 2009. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic acids research, 37 Web Server issue, W305-11Gowrisankar, Sivakumar; Jegga, Anil G 2009. Regression based predictor for p53 transactivation. BMC bioinformatics, 10 , 215Gu, YuanYuan; Harley, Isaac T W; Henderson, Lindsay B; Aronow, Bruce J; Vietor, Ilja; Huber, Lukas A; Harley, John B; Kilpatrick, Jeffrey R; Langefeld, Carl D; Williams, Adrienne H; Jegga, Anil G; Chen, Jing; Wills-Karp, Marsha; Arshad, S Hasan; Ewart, Susan L; Thio, Chloe L; Flick, Leah M; Filippi, Marie-Dominique; Grimes, H Leighton; Drumm, Mitchell L; Cutting, Garry R; Knowles, Michael R; Karp, Christopher L 2009. Identification of IFRD1 as a modifier gene for cystic fibrosis lung disease. Nature, 458 7241, 1039-42Miller, Shyra J; Jessen, Walter J; Mehta, Tapan; Hardiman, Atira; Sites, Emily; Kaiser, Sergio; Jegga, Anil G; Li, Hua; Upadhyaya, Meena; Giovannini, Marco; Muir, David; Wallace, Margaret R; Lopez, Eva; Serra, Eduard; Nielsen, G Petur; Lazaro, Conxi; Stemmer-Rachamimov, Anat; Page, Grier; Aronow, Bruce J; Ratner, Nancy 2009. Integrative genomic analyses of neurofibromatosis tumours identify SOX9 as a biomarker and survival gene. EMBO molecular medicine, 1 4, 236-48Qu, Xiaoyan A; Gudivada, Ranga C; Jegga, Anil G; Neumann, Eric K; Aronow, Bruce J 2009. Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships. BMC bioinformatics, 10 Suppl 5 , S4Brunskill, Eric W; Aronow, Bruce J; Georgas, Kylie; Rumballe, Bree; Valerius, M Todd; Aronow, Jeremy; Kaimal, Vivek; Jegga, Anil G; Yu, Jing; Grimmond, Sean; McMahon, Andrew P; Patterson, Larry T; Little, Melissa H; Potter, S Steven 2008. Atlas of gene expression in the developing kidney at microanatomic resolution. Developmental cell, 15 5, 781-91Gudivada, Ranga C; Fu, Yun; Jegga, Anil G; Qu, Xiaoyan A; Neumann, Eric K; Aronow, Bruce J 2008. Mining human phenome to investigate modularity of complex disorders. Summit on translational bioinformatics, 2008 , 31-5Gudivada, Ranga Chandra; Qu, Xiaoyan A; Chen, Jing; Jegga, Anil G; Neumann, Eric K; Aronow, Bruce J 2008. Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge. Journal of biomedical informatics, 41 5, 717-29Jegga AG, Inga A, Menendez D, Aronow BJ, Resnick MA. 2008. Functional evolution of the p53 regulatory network through its target response elements. Proc Natl Acad Sci USA., 105 3, 944Jegga, Anil G; Inga, Alberto; Menendez, Daniel; Aronow, Bruce J; Resnick, Michael A 2008. Functional evolution of the p53 regulatory network through its target response elements. Proceedings of the National Academy of Sciences of the United States of America, 105 3, 944-9Kamath, M B; Houston, I B; Janovski, A J; Zhu, X; Gowrisankar, S; Jegga, A G; DeKoter, R P 2008. Dose-dependent repression of T-cell and natural killer cell genes by PU.1 enforces myeloid and B-cell identity. Leukemia, 22 6, 1214-25Sinha, Amit U; Kaimal, Vivek; Chen, Jing; Jegga, Anil G 2008. Dissecting microregulation of a master regulatory network. BMC genomics, 9 , 88Chen, Jing; Xu, Huan; Aronow, Bruce J; Jegga, Anil G 2007. Improved human disease candidate gene prioritization using mouse phenotype. BMC bioinformatics, 8 , 392Diwan, Abhinav; Koesters, Andrew G; Odley, Amy M; Pushkaran, Suvarnamala; Baines, Christopher P; Spike, Benjamin T; Daria, Diedre; Jegga, Anil G; Geiger, Hartmut; Aronow, Bruce J; Molkentin, Jeffery D; Macleod, Kay F; Kalfa, Theodosia A; Dorn, Gerald W 2007. Unrestrained erythroblast development in Nix-/- mice reveals a mechanism for apoptotic modulation of erythropoiesis. Proceedings of the National Academy of Sciences of the United States of America, 104 16, 6794-9Jegga, Anil G; Chen, Jing; Gowrisankar, Sivakumar; Deshmukh, Mrunal A; Gudivada, RangaChandra; Kong, Sue; Kaimal, Vivek; Aronow, Bruce J 2007. GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologs. Nucleic acids research, 35 Database issue, D116-21Jegga, Anil G; Gowrisankar, Sivakumar; Chen, Jing; Aronow, Bruce J 2007. PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease. Nucleic acids research, 35 Database issue, D700-6Kaiser, Sergio; Park, Young-Kyu; Franklin, Jeffrey L; Halberg, Richard B; Yu, Ming; Jessen, Walter J; Freudenberg, Johannes; Chen, Xiaodi; Haigis, Kevin; Jegga, Anil G; Kong, Sue; Sakthivel, Bhuvaneswari; Xu, Huan; Reichling, Timothy; Azhar, Mohammad; Boivin, Gregory P; Roberts, Reade B; Bissahoyo, Anika C; Gonzales, Fausto; Bloom, Greg C; Eschrich, Steven; Carter, Scott L; Aronow, Jeremy E; Kleimeyer, John; Kleimeyer, Michael; Ramaswamy, Vivek; Settle, Stephen H; Boone, Braden; Levy, Shawn; Graff, Jonathan M; Doetschman, Thomas; Groden, Joanna; Dove, William F; Threadgill, David W; Yeatman, Timothy J; Coffey, Robert J; Aronow, Bruce J 2007. Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer. Genome biology, 8 7, R131Liu, Cong; Aronow, Bruce J; Jegga, Anil G; Wang, Ning; Miethke, Alex; Mourya, Reena; Bezerra, Jorge A 2007. Novel resequencing chip customized to diagnose mutations in patients with inherited syndromes of intrahepatic cholestasis. Gastroenterology, 132 1, 119-26Markey, M P; Bergseid, J; Bosco, E E; Stengel, K; Xu, H; Mayhew, C N; Schwemberger, S J; Braden, W A; Jiang, Y; Babcock, G F; Jegga, A G; Aronow, B J; Reed, M F; Wang, J Y J; Knudsen, E S 2007. Loss of the retinoblastoma tumor suppressor: differential action on transcriptional programs related to cell cycle control and immune function. Oncogene, 26 43, 6307-18Miller, Shyra J; Rangwala, Fatima; Williams, Jon; Ackerman, Peter; Kong, Sue; Jegga, Anil G; Kaiser, Sergio; Aronow, Bruce J; Frahm, Silke; Kluwe, Lan; Mautner, Victor; Upadhyaya, Meena; Muir, David; Wallace, Margaret; Hagen, Jussara; Quelle, Dawn E; Watson, Mark A; Perry, Arie; Gutmann, David H; Ratner, Nancy 2006. Large-scale molecular comparison of human schwann cells to malignant peripheral nerve sheath tumor cell lines and tissues. Cancer research, 66 5, 2584-91Jegga, Anil G; Gupta, Ashima; Gowrisankar, Sivakumar; Deshmukh, Mrunal A; Connolly, Steven; Finley, Kevin; Aronow, Bruce J 2005. CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes. Nucleic acids research, 33 Web Server issue, W408-11Vukkadapu, Sankaranand S; Belli, Jenine M; Ishii, Koji; Jegga, Anil G; Hutton, John J; Aronow, Bruce J; Katz, Jonathan D 2005. Dynamic interaction between T cell-mediated beta-cell damage and beta-cell repair in the run up to autoimmune diabetes of the NOD mouse. Physiological genomics, 21 2, 201-11Bonizzi, Giuseppina; Bebien, Magali; Otero, Dennis C; Johnson-Vroom, Kirsten E; Cao, Yixue; Vu, Don; Jegga, Anil G; Aronow, Bruce J; Ghosh, Gourisankar; Rickert, Robert C; Karin, Michael 2004. Activation of IKKalpha target genes depends on recognition of specific kappaB binding sites by RelB:p52 dimers. The EMBO journal, 23 21, 4202-10Hutton, John J; Jegga, Anil G; Kong, Sue; Gupta, Ashima; Ebert, Catherine; Williams, Sarah; Katz, Jonathan D; Aronow, Bruce J 2004. Microarray and comparative genomics-based identification of genes and gene regulatory regions of the mouse immune system. BMC genomics, 5 , 82Kim, Jung-whan; Zeller, Karen I; Wang, Yunyue; Jegga, Anil G; Aronow, Bruce J; O'Donnell, Kathryn A; Dang, Chi V 2004. Evaluation of myc E-box phylogenetic footprints in glycolytic genes by chromatin immunoprecipitation assays. Molecular and cellular biology, 24 13, 5923-36Livingston, Robert J; von Niederhausern, Andrew; Jegga, Anil G; Crawford, Dana C; Carlson, Christopher S; Rieder, Mark J; Gowrisankar, Sivakumar; Aronow, Bruce J; Weiss, Robert B; Nickerson, Deborah A 2004. Pattern of sequence variation across 213 environmental response genes. Genome research, 14 10A, 1821-31Zhang, Jianhua; Moseley, Amy; Jegga, Anil G; Gupta, Ashima; Witte, David P; Sartor, Maureen; Medvedovic, Mario; Williams, Sarah S; Ley-Ebert, Cathy; Coolen, Lique M; Egnaczyk, Gregory; Genter, Mary Beth; Lehman, Michael; Lingrel, Jerry; Maggio, John; Parysek, Linda; Walsh, Ryan; Xu, Ming; Aronow, Bruce J 2004. Neural system-enriched gene expression: relationship to biological pathways and neurological diseases. Physiological genomics, 18 2, 167-83Genter, Mary Beth; Van Veldhoven, Paul P; Jegga, Anil G; Sakthivel, Bhuvana; Kong, Sue; Stanley, Kristin; Witte, David P; Ebert, Catherine L; Aronow, Bruce J 2003. Microarray-based discovery of highly expressed olfactory mucosal genes: potential roles in the various functions of the olfactory system. Physiological genomics, 16 1, 67-81Zeller, Karen I; Jegga, Anil G; Aronow, Bruce J; O'Donnell, Kathryn A; Dang, Chi V 2003. An integrated database of genes responsive to the Myc oncogenic transcription factor: identification of direct genomic targets. Genome biology, 4 10, R69Bates, Michael D; Erwin, Christopher R; Sanford, L Philip; Wiginton, Dan; Bezerra, Jorge A; Schatzman, Lynn C; Jegga, Anil G; Ley-Ebert, Cathy; Williams, Sarah S; Steinbrecher, Kris A; Warner, Brad W; Cohen, Mitchell B; Aronow, Bruce J 2002. Novel genes and functional relationships in the adult mouse gastrointestinal tract identified by microarray analysis. Gastroenterology, 122 5, 1467-82Jegga, Anil G; Sherwood, Shawn P; Carman, James W; Pinski, Andrew T; Phillips, Jerry L; Pestian, John P; Aronow, Bruce J 2002. Detection and visualization of compositionally similar cis-regulatory element clusters in orthologous and coordinately controlled genes. Genome research, 12 9, 1408-17Warren, Mary Ann; Koshoffer, Amy; Aronow, Bruce J; Jegga, Anil G; Brackenbury, Robert 2002. Structure of the 5' portion of the human plakoglobin gene. The Journal of investigative dermatology, 119 1, 196-7Takemoto, Clifford M; Lee, Youl-Nam; Jegga, Anil G; Zablocki, Daniella; Brandal, Stephanie; Shahlaee, Amir; Huang, Suming; Ye, Ying; Gowrisankar, Sivakumar; Huynh, Jimmy; McDevitt, Michael A . Mast cell transcriptional networks. Blood cells, molecules & diseases, 41 1, 82-90
Research InterestsMy long term goals are to design and develop novel and robust computational approaches that will accelerate the diffusion of genomics into biomedical research and education and convert the genomics’ data deluge into systematized knowledge to understand the molecular basis of disease and facilitate translational research. To this effect I have pioneered approaches and applications in bioinformatics for elucidation of gene regulatory networks (e.g., predict and score p53 target genes, analyzing p53-mi...
Peer Reviewed Publications Wang, Yunguan; Yella, Jaswanth; Jegga, Anil G 2019. Transcriptomic Data Mining and Repurposing for Computational Drug Discovery. Methods in molecular biology (Clifton, N.J.), 1903 , 73-95Chen, Jing; Xu, Huan; Jegga, Anil; Zhang, Kejian; White, Pete S; Zhang, Ge 2018. Novel phenotype-disease matching tool for rare genetic diseases. Genetics in medicine : official journal of the American College of Medical Genetics, , Hankey, William; Chen, Zhong; Bergman, Maxwell J; Fernandez, Max O; Hancioglu, Baris; Lan, Xun; Jegga, Anil G; Zhang, Jie; Jin, Victor X; Aronow, Bruce J; Wang, Qianben; Groden, Joanna 2018. Chromatin-associated APC regulates gene expression in collaboration with canonical WNT signaling and AP-1. Oncotarget, 9 58, 31214-31230Jiang, Alex; Jegga, Anil G 2018. Characterizing drug-related adverse events by joint analysis of biomedical and genomic data: A case study of drug-induced pulmonary fibrosis. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2017 , 91-97Kronk, Charles J; Jegga, Anil 2018. GNOMICS: A one-stop shop for biomedical and genomic data. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2017 , 118-123Peng, Jiangtong; Li, Yutian; Wang, Xiaohong; Deng, Shan; Holland, Jenna; Yates, Emily; Chen, Jing; Gu, Haitao; Essandoh, Kobina; Mu, Xingjiang; Wang, Boyu; McNamara, Robert K; Peng, Tianqing; Jegga, Anil G; Liu, Tiemin; Nakamura, Takahisa; Huang, Kai; Perez-Tilve, Diego; Fan, Guo-Chang 2018. An Hsp20-FBXO4 Axis Regulates Adipocyte Function through Modulating PPAR? Ubiquitination. Cell reports, 23 12, 3607-3620Smith, Eric A; Krumpelbeck, Eric F; Jegga, Anil G; Prell, Malte; Matrka, Marie M; Kappes, Ferdinand; Greis, Kenneth D; Ali, Abdullah M; Meetei, Amom R; Wells, Susanne I 2018. The nuclear DEK interactome supports multi-functionality. Proteins, 86 1, 88-97Sontake, Vishwaraj; Kasam, Rajesh K; Sinner, Debora; Korfhagen, Thomas R; Reddy, Geereddy B; White, Eric S; Jegga, Anil G; Madala, Satish K 2018. Wilms' tumor 1 drives fibroproliferation and myofibroblast transformation in severe fibrotic lung disease. JCI insight, 3 16, Yella, Jaswanth K; Yaddanapudi, Suryanarayana; Wang, Yunguan; Jegga, Anil G 2018. Changing Trends in Computational Drug Repositioning. Pharmaceuticals (Basel, Switzerland), 11 2, Angel, P M; Narmoneva, D A; Sewell-Loftin, M K; Munjal, C; Dupuis, L; Landis, B J; Jegga, A; Kern, C B; Merryman, W D; Baldwin, H S; Bressan, G M; Hinton, Robert B 2017. Proteomic Alterations Associated with Biomechanical Dysfunction are Early Processes in the Emilin1 Deficient Mouse Model of Aortic Valve Disease. Annals of biomedical engineering, , Kurowski, Brad G; Treble-Barna, Amery; Pitzer, Alexis J; Wade, Shari L; Martin, Lisa J; Chima, Ranjit S; Jegga, Anil 2017. Applying Systems Biology Methodology To Identify Genetic Factors Possibly Associated with Recovery after Traumatic Brain Injury. Journal of neurotrauma, 34 14, 2280-2290Landis, Benjamin J; Schubert, Jeffrey A; Lai, Dongbing; Jegga, Anil G; Shikany, Amy R; Foroud, Tatiana; Ware, Stephanie M; Hinton, Robert B 2017. Exome Sequencing Identifies Candidate Genetic Modifiers of Syndromic and Familial Thoracic Aortic Aneurysm Severity. Journal of cardiovascular translational research, , Luo, Zhenhua; Jegga, Anil G; Bezerra, Jorge A 2017. Gene-disease associations identify a connectome with shared molecular pathways in human cholangiopathies. Hepatology (Baltimore, Md.), , Lynch, Thomas L; Ismahil, Mohamed Ameen; Jegga, Anil G; Zilliox, Michael J; Troidl, Christian; Prabhu, Sumanth D; Sadayappan, Sakthivel 2017. Cardiac inflammation in genetic dilated cardiomyopathy caused by MYBPC3 mutation. Journal of molecular and cellular cardiology, 102 , 83-93Malavia, Tulsi A; Chaparala, Srilakshmi; Wood, Joel; Chowdari, Kodavali; Prasad, Konasale M; McClain, Lora; Jegga, Anil G; Ganapathiraju, Madhavi K; Nimgaonkar, Vishwajit L 2017. Generating testable hypotheses for schizophrenia and rheumatoid arthritis pathogenesis by integrating epidemiological, genomic, and protein interaction data. NPJ schizophrenia, 3 , 11Malek, E; Abdel-Malek, M A Y; Jagannathan, S; Vad, N; Karns, R; Jegga, A G; Broyl, A; van Duin, M; Sonneveld, P; Cottini, F; Anderson, K C; Driscoll, J J 2017. Pharmacogenomics and chemical library screens reveal a novel SCF(SKP2) inhibitor that overcomes Bortezomib resistance in multiple myeloma. Leukemia, 31 3, 645-653Munjal, Charu; Jegga, Anil G; Opoka, Amy M; Stoilov, Ivan; Norris, Russell A; Thomas, Craig J; Smith, J Michael; Mecham, Robert P; Bressan, Giorgio M; Hinton, Robert B 2017. Inhibition of MAPK-Erk pathway in vivo attenuates aortic valve disease processes in Emilin1-deficient mouse model. Physiological reports, 5 5, Singh, Brijendra; Jegga, Anil G; Shanmukhappa, Kumar S; Edukulla, Ramakrishna; Khurana Hershey, Gurjit Kaur; Medvedovic, Mario; Dillon, Stacey R; Madala, Satish K 2017. Correction: IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function. PloS one, 12 1, e0170446Smith, Eric A; Gole, Boris; Willis, Nicholas A; Soria, Rebeca; Starnes, Linda M; Krumpelbeck, Eric F; Jegga, Anil G; Ali, Abdullah M; Guo, Haihong; Meetei, Amom R; Andreassen, Paul R; Kappes, Ferdinand; Vinnedge, Lisa M Privette; Daniel, Jeremy A; Scully, Ralph; Wiesmüller, Lisa; Wells, Susanne I 2017. DEK is required for homologous recombination repair of DNA breaks. Scientific reports, 7 , 44662Sontake, Vishwaraj; Wang, Yunguan; Kasam, Rajesh K; Sinner, Debora; Reddy, Geereddy B; Naren, Anjaparavanda P; McCormack, Francis X; White, Eric S; Jegga, Anil G; Madala, Satish K 2017. Hsp90 regulation of fibroblast activation in pulmonary fibrosis. JCI insight, 2 4, e91454Wang, Yunguan; Yella, Jaswanth; Chen, Jing; McCormack, Francis X; Madala, Satish K; Jegga, Anil G 2017. Unsupervised gene expression analyses identify IPF-severity correlated signatures, associated genes and biomarkers. BMC pulmonary medicine, 17 1, 133Bian, Fenghua; Gao, Fei; Kartashov, Andrey V; Jegga, Anil G; Barski, Artem; Das, Sanjoy K 2016. Polycomb repressive complex 1 controls uterine decidualization. Scientific reports, 6 , 26061Miethke, Alexander G; Zhang, Wujuan; Simmons, Julia; Taylor, Amy E; Shi, Tiffany; Shanmukhappa, Shiva Kumar; Karns, Rebekah; White, Shana; Jegga, Anil G; Lages, Celine S; Nkinin, Stephenson; Keller, Bradley T; Setchell, Kenneth D R 2016. Pharmacological inhibition of apical sodium-dependent bile acid transporter changes bile composition and blocks progression of sclerosing cholangitis in multidrug resistance 2 knockout mice. Hepatology (Baltimore, Md.), 63 2, 512-23Sarangdhar M, Tabar S, Schmidt C, Kushwaha A, Shah K, Dahlquist JE, Jegga AG, Aronow BJ. 2016. Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data. Nature Biotechnology, 34 7, 697Sarangdhar, Mayur; Tabar, Scott; Schmidt, Charles; Kushwaha, Akash; Shah, Krish; Dahlquist, Jeanine E; Jegga, Anil G; Aronow, Bruce J 2016. Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data. Nature biotechnology, 34 7, 697-700Singh, Brijendra; Jegga, Anil G; Shanmukhappa, Kumar S; Edukulla, Ramakrishna; Khurana Hershey, Gurjit H; Medvedovic, Mario; Dillon, Stacey R; Madala, Satish K 2016. IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function. PloS one, 11 8, e0161877Adams, Allie K; Bolanos, Lyndsey C; Dexheimer, Phillip J; Karns, Rebekah A; Aronow, Bruce J; Komurov, Kakajan; Jegga, Anil G; Casper, Keith A; Patil, Yash J; Wilson, Keith M; Starczynowski, Daniel T; Wells, Susanne I 2015. IRAK1 is a novel DEK transcriptional target and is essential for head and neck cancer cell survival. Oncotarget, 6 41, 43395-407Cha, Jeeyeon; Burnum-Johnson, Kristin E; Bartos, Amanda; Li, Yingju; Baker, Erin S; Tilton, Susan C; Webb-Robertson, Bobbie-Jo M; Piehowski, Paul D; Monroe, Matthew E; Jegga, Anil G; Murata, Shigeo; Hirota, Yasushi; Dey, Sudhansu K 2015. Muscle Segment Homeobox Genes Direct Embryonic Diapause by Limiting Inflammation in the Uterus. The Journal of biological chemistry, 290 24, 15337-49Chung, Daesuk; Gao, Fei; Jegga, Anil G; Das, Sanjoy K 2015. Estrogen mediated epithelial proliferation in the uterus is directed by stromal Fgf10 and Bmp8a. Molecular and cellular endocrinology, 400 , 48-60Edukulla, Ramakrishna; Singh, Brijendra; Jegga, Anil G; Sontake, Vishwaraj; Dillon, Stacey R; Madala, Satish K 2015. Th2 Cytokines Augment IL-31/IL-31RA Interactions via STAT6-dependent IL-31RA Expression. The Journal of biological chemistry, 290 21, 13510-20Gilbert, Shila; Nivarthi, Harini; Mayhew, Christopher N; Lo, Yuan-Hung; Noah, Taeko K; Vallance, Jefferson; Rülicke, Thomas; Müller, Mathias; Jegga, Anil G; Tang, Wenjuan; Zhang, Dongsheng; Helmrath, Michael; Shroyer, Noah; Moriggl, Richard; Han, Xiaonan 2015. Activated STAT5 confers resistance to intestinal injury by increasing intestinal stem cell proliferation and regeneration. Stem cell reports, 4 2, 209-25Hawrylycz, Michael; Miller, Jeremy A; Menon, Vilas; Feng, David; Dolbeare, Tim; Guillozet-Bongaarts, Angela L; Jegga, Anil G; Aronow, Bruce J; Lee, Chang-Kyu; Bernard, Amy; Glasser, Matthew F; Dierker, Donna L; Menche, Jörg; Szafer, Aaron; Collman, Forrest; Grange, Pascal; Berman, Kenneth A; Mihalas, Stefan; Yao, Zizhen; Stewart, Lance; Barabási, Albert-László; Schulkin, Jay; Phillips, John; Ng, Lydia; Dang, Chinh; Haynor, David R; Jones, Allan; Van Essen, David C; Koch, Christof; Lein, Ed 2015. Canonical genetic signatures of the adult human brain. Nature neuroscience, 18 12, 1832-44Patchala, Jagadeesh; Jegga, Anil G 2015. Concept Modeling-based Drug Repositioning. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2015 , 222-6Bessho, Kazuhiko; Mourya, Reena; Shivakumar, Pranavkumar; Walters, Stephanie; Magee, John C; Rao, Marepalli; Jegga, Anil G; Bezerra, Jorge A 2014. Gene expression signature for biliary atresia and a role for interleukin-8 in pathogenesis of experimental disease. Hepatology (Baltimore, Md.), 60 1, 211-23Brundage, M E; Tandon, P; Eaves, D W; Williams, J P; Miller, S J; Hennigan, R H; Jegga, A; Cripe, T P; Ratner, N 2014. MAF mediates crosstalk between Ras-MAPK and mTOR signaling in NF1. Oncogene, 33 49, 5626-36Feng, Yuliang; Huang, Wei; Meng, Wei; Jegga, Anil G; Wang, Yigang; Cai, Wenfeng; Kim, Ha Won; Pasha, Zeeshan; Wen, Zhili; Rao, Fang; Modi, Rohan M; Yu, Xiyong; Ashraf, Muhammad 2014. Heat shock improves Sca-1+ stem cell survival and directs ischemic cardiomyocytes toward a prosurvival phenotype via exosomal transfer: a critical role for HSF1/miR-34a/HSP70 pathway. Stem cells (Dayton, Ohio), 32 2, 462-72Jegga, Anil G 2014. Candidate gene discovery and prioritization in rare diseases. Methods in molecular biology (Clifton, N.J.), 1168 , 295-312Velu, Chinavenmeni S; Chaubey, Aditya; Phelan, James D; Horman, Shane R; Wunderlich, Mark; Guzman, Monica L; Jegga, Anil G; Zeleznik-Le, Nancy J; Chen, Jianjun; Mulloy, James C; Cancelas, Jose A; Jordan, Craig T; Aronow, Bruce J; Marcucci, Guido; Bhat, Balkrishen; Gebelein, Brian; Grimes, H Leighton 2014. Therapeutic antagonists of microRNAs deplete leukemia-initiating cell activity. The Journal of clinical investigation, 124 1, 222-36Wu, Chao; Bardes, Eric E; Jegga, Anil G; Aronow, Bruce J 2014. ToppMiR: ranking microRNAs and their mRNA targets based on biological functions and context. Nucleic acids research, 42 Web Server issue, W107-13Wu, Chao; Zhu, Cheng; Jegga, Anil G 2014. Integrative literature and data mining to rank disease candidate genes. Methods in molecular biology (Clifton, N.J.), 1159 , 207-26Zhu, Cheng; Wu, Chao; Aronow, Bruce J; Jegga, Anil G 2014. Computational approaches for human disease gene prediction and ranking. Advances in experimental medicine and biology, 799 , 69-84Bessho, Kazuhiko; Shanmukhappa, Kumar; Sheridan, Rachel; Shivakumar, Pranavkumar; Mourya, Reena; Walters, Stephanie; Kaimal, Vivek; Dilbone, Eric; Jegga, Anil G; Bezerra, Jorge A 2013. Integrative genomics identifies candidate microRNAs for pathogenesis of experimental biliary atresia. BMC systems biology, 7 , 104Bisio, Alessandra; De Sanctis, Veronica; Del Vescovo, Valerio; Denti, Michela A; Jegga, Anil G; Inga, Alberto; Ciribilli, Yari 2013. Identification of new p53 target microRNAs by bioinformatics and functional analysis. BMC cancer, 13 , 552Brown, E B; Layne, J E; Zhu, C; Jegga, A G; Rollmann, S M 2013. Genome-wide association mapping of natural variation in odour-guided behaviour in Drosophila. Genes, brain, and behavior, 12 5, 503-15Deleger, Louise; Molnar, Katalin; Savova, Guergana; Xia, Fei; Lingren, Todd; Li, Qi; Marsolo, Keith; Jegga, Anil; Kaiser, Megan; Stoutenborough, Laura; Solti, Imre 2013. Large-scale evaluation of automated clinical note de-identification and its impact on information extraction. Journal of the American Medical Informatics Association : JAMIA, 20 1, 84-94Li, Qi; Deleger, Louise; Lingren, Todd; Zhai, Haijun; Kaiser, Megan; Stoutenborough, Laura; Jegga, Anil G; Cohen, Kevin Bretonnel; Solti, Imre 2013. Mining FDA drug labels for medical conditions. BMC medical informatics and decision making, 13 , 53Rajan, Sudarsan; Pena, James R; Jegga, Anil G; Aronow, Bruce J; Wolska, Beata M; Wieczorek, David F 2013. Microarray analysis of active cardiac remodeling genes in a familial hypertrophic cardiomyopathy mouse model rescued by a phospholamban knockout. Physiological genomics, 45 17, 764-73Sarangdhar, Mayur; Kushwaha, Akash; Dahlquist, Jeanine; Jegga, Anil; Aronow, Bruce 2013. Using Systems Biology-based Analysis Approaches to Identify Mechanistically Significant Adverse Drug Reactions: Pulmonary Complications from Combined Use of Anti-TNF? Agents and Corticosteroids. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2013 , 151-5Wu, Chao; Gudivada, Ranga C; Aronow, Bruce J; Jegga, Anil G 2013. Computational drug repositioning through heterogeneous network clustering. BMC systems biology, 7 Suppl 5 , S6Park, Ji Kwon; Martin, Lisa J; Zhang, Xue; Jegga, Anil G; Benson, D Woodrow 2012. Genetic variants in SCN5A promoter are associated with arrhythmia phenotype severity in patients with heterozygous loss-of-function mutation. Heart rhythm, 9 7, 1090-6Willson, Tara A; Kuhn, Benjamin R; Jurickova, Ingrid; Gerad, Shaina; Moon, David; Bonkowski, Erin; Carey, Rebecca; Collins, Margaret H; Xu, Huan; Jegga, Anil G; Guthery, Stephen L; Denson, Lee A 2012. STAT3 genotypic variation and cellular STAT3 activation and colon leukocyte recruitment in pediatric Crohn disease. Journal of pediatric gastroenterology and nutrition, 55 1, 32-43Xie, Huirong; Sun, Xiaofei; Piao, Yulan; Jegga, Anil G; Handwerger, Stuart; Ko, Minoru S H; Dey, Sudhansu K 2012. Silencing or amplification of endocannabinoid signaling in blastocysts via CB1 compromises trophoblast cell migration. The Journal of biological chemistry, 287 38, 32288-97Zhu, Cheng; Kushwaha, Akash; Berman, Kenneth; Jegga, Anil G 2012. A vertex similarity-based framework to discover and rank orphan disease-related genes. BMC systems biology, 6 Suppl 3 , S8Jegga, Anil G; Schneider, Lonnie; Ouyang, Xiaosen; Zhang, Jianhua 2011. Systems biology of the autophagy-lysosomal pathway. Autophagy, 7 5, 477-89Kaimal, Vivek; Sardana, Divya; Bardes, Eric E; Gudivada, Ranga Chandra; Chen, Jing; Jegga, Anil G 2011. Integrative systems biology approaches to identify and prioritize disease and drug candidate genes. Methods in molecular biology (Clifton, N.J.), 700 , 241-59Ma, Xinghong; Gao, Fei; Rusie, Allison; Hemingway, Jennifer; Ostmann, Alicia B; Sroga, Julie M; Jegga, Anil G; Das, Sanjoy K 2011. Decidual cell polyploidization necessitates mitochondrial activity. PloS one, 6 10, e26774Rankin, Scott A; Kormish, Jay; Kofron, Matt; Jegga, Anil; Zorn, Aaron M 2011. A gene regulatory network controlling hhex transcription in the anterior endoderm of the organizer. Developmental biology, 351 2, 297-310Ren, Jie; Jegga, Anil G; Zhang, Minlu; Deng, Jingyuan; Liu, Junbo; Gordon, Christopher B; Aronow, Bruce J; Lu, Long J; Zhang, Bo; Ma, Jun 2011. A Drosophila model of the neurodegenerative disease SCA17 reveals a role of RBP-J/Su(H) in modulating the pathological outcome. Human molecular genetics, 20 17, 3424-36Sardana D, Zhu C, Zhang M, Gudivada RC, Yang L, Jegga AG. 2011. Drug repositioning for orphan diseases. Brief Bioinform., 12 4, 346Sardana, Divya; Zhu, Cheng; Zhang, Minlu; Gudivada, Ranga C; Yang, Lun; Jegga, Anil G 2011. Drug repositioning for orphan diseases. Briefings in bioinformatics, 12 4, 346-56Yang, Lun; Wang, Kejian; Chen, Jian; Jegga, Anil G; Luo, Heng; Shi, Leming; Wan, Chunling; Guo, Xizhi; Qin, Shengying; He, Guang; Feng, Guoyin; He, Lin 2011. Exploring off-targets and off-systems for adverse drug reactions via chemical-protein interactome--clozapine-induced agranulocytosis as a case study. PLoS computational biology, 7 3, e1002016Yang, Lun; Wang, Ke-Jian; Wang, Li-Shan; Jegga, Anil G; Qin, Sheng-Ying; He, Guang; Chen, Jian; Xiao, Yue; He, Lin 2011. Chemical-protein interactome and its application in off-target identification. Interdisciplinary sciences, computational life sciences, 3 1, 22-30Zhang M, Zhu C, Jacomy A, Lu LJ, Jegga AG. 2011. The orphan disease networks. Am J Hum Genet., 88 6, 755Zhang, Minlu; Zhu, Cheng; Jacomy, Alexis; Lu, Long J; Jegga, Anil G 2011. The orphan disease networks. American journal of human genetics, 88 6, 755-766Kaimal, Vivek; Bardes, Eric E; Tabar, Scott C; Jegga, Anil G; Aronow, Bruce J 2010. ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems. Nucleic acids research, 38 Web Server issue, W96-102Maldonado, Arturo R; Klanke, Chuck; Jegga, Anil G; Aronow, Bruce J; Mahller, Yonatan Y; Cripe, Timothy P; Crombleholme, Timothy M 2010. Molecular engineering and validation of an oncolytic herpes simplex virus type 1 transcriptionally targeted to midkine-positive tumors. The journal of gene medicine, 12 7, 613-23Moyer, Katie; Kaimal, Vivek; Pacheco, Cristina; Mourya, Reena; Xu, Huan; Shivakumar, Pranavkumar; Chakraborty, Ranajit; Rao, Marepalli; Magee, John C; Bove, Kevin; Aronow, Bruce J; Jegga, Anil G; Bezerra, Jorge A 2010. Staging of biliary atresia at diagnosis by molecular profiling of the liver. Genome medicine, 2 5, 33Sardana, Divya; Vasa, Suresh; Vepachedu, Nishanth; Chen, Jing; Gudivada, Ranga Chandra; Aronow, Bruce J; Jegga, Anil G 2010. PhenoHM: human-mouse comparative phenome-genome server. Nucleic acids research, 38 Web Server issue, W165-74Takemoto, Clifford M; Brandal, Stephanie; Jegga, Anil G; Lee, Youl-Nam; Shahlaee, Amir; Ying, Ye; Dekoter, Rodney; McDevitt, Michael A 2010. PU.1 positively regulates GATA-1 expression in mast cells. Journal of immunology (Baltimore, Md. : 1950), 184 8, 4349-61Zhang, Xiaowei; Wang, Xiaohong; Zhu, Hongyan; Zhu, Cheng; Wang, Yigang; Pu, William T; Jegga, Anil G; Fan, Guo-Chang 2010. Synergistic effects of the GATA-4-mediated miR-144/451 cluster in protection against simulated ischemia/reperfusion-induced cardiomyocyte death. Journal of molecular and cellular cardiology, 49 5, 841-50Chen J, Bardes EE, Aronow BJ, Jegga AG. 2009. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res., 37 , W305Chen, Jing; Aronow, Bruce J; Jegga, Anil G 2009. Disease candidate gene identification and prioritization using protein interaction networks. BMC bioinformatics, 10 , 73Chen, Jing; Bardes, Eric E; Aronow, Bruce J; Jegga, Anil G 2009. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic acids research, 37 Web Server issue, W305-11Gowrisankar, Sivakumar; Jegga, Anil G 2009. Regression based predictor for p53 transactivation. BMC bioinformatics, 10 , 215Gu, YuanYuan; Harley, Isaac T W; Henderson, Lindsay B; Aronow, Bruce J; Vietor, Ilja; Huber, Lukas A; Harley, John B; Kilpatrick, Jeffrey R; Langefeld, Carl D; Williams, Adrienne H; Jegga, Anil G; Chen, Jing; Wills-Karp, Marsha; Arshad, S Hasan; Ewart, Susan L; Thio, Chloe L; Flick, Leah M; Filippi, Marie-Dominique; Grimes, H Leighton; Drumm, Mitchell L; Cutting, Garry R; Knowles, Michael R; Karp, Christopher L 2009. Identification of IFRD1 as a modifier gene for cystic fibrosis lung disease. Nature, 458 7241, 1039-42Miller, Shyra J; Jessen, Walter J; Mehta, Tapan; Hardiman, Atira; Sites, Emily; Kaiser, Sergio; Jegga, Anil G; Li, Hua; Upadhyaya, Meena; Giovannini, Marco; Muir, David; Wallace, Margaret R; Lopez, Eva; Serra, Eduard; Nielsen, G Petur; Lazaro, Conxi; Stemmer-Rachamimov, Anat; Page, Grier; Aronow, Bruce J; Ratner, Nancy 2009. Integrative genomic analyses of neurofibromatosis tumours identify SOX9 as a biomarker and survival gene. EMBO molecular medicine, 1 4, 236-48Qu, Xiaoyan A; Gudivada, Ranga C; Jegga, Anil G; Neumann, Eric K; Aronow, Bruce J 2009. Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships. BMC bioinformatics, 10 Suppl 5 , S4Brunskill, Eric W; Aronow, Bruce J; Georgas, Kylie; Rumballe, Bree; Valerius, M Todd; Aronow, Jeremy; Kaimal, Vivek; Jegga, Anil G; Yu, Jing; Grimmond, Sean; McMahon, Andrew P; Patterson, Larry T; Little, Melissa H; Potter, S Steven 2008. Atlas of gene expression in the developing kidney at microanatomic resolution. Developmental cell, 15 5, 781-91Gudivada, Ranga C; Fu, Yun; Jegga, Anil G; Qu, Xiaoyan A; Neumann, Eric K; Aronow, Bruce J 2008. Mining human phenome to investigate modularity of complex disorders. Summit on translational bioinformatics, 2008 , 31-5Gudivada, Ranga Chandra; Qu, Xiaoyan A; Chen, Jing; Jegga, Anil G; Neumann, Eric K; Aronow, Bruce J 2008. Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge. Journal of biomedical informatics, 41 5, 717-29Jegga AG, Inga A, Menendez D, Aronow BJ, Resnick MA. 2008. Functional evolution of the p53 regulatory network through its target response elements. Proc Natl Acad Sci USA., 105 3, 944Jegga, Anil G; Inga, Alberto; Menendez, Daniel; Aronow, Bruce J; Resnick, Michael A 2008. Functional evolution of the p53 regulatory network through its target response elements. Proceedings of the National Academy of Sciences of the United States of America, 105 3, 944-9Kamath, M B; Houston, I B; Janovski, A J; Zhu, X; Gowrisankar, S; Jegga, A G; DeKoter, R P 2008. Dose-dependent repression of T-cell and natural killer cell genes by PU.1 enforces myeloid and B-cell identity. Leukemia, 22 6, 1214-25Sinha, Amit U; Kaimal, Vivek; Chen, Jing; Jegga, Anil G 2008. Dissecting microregulation of a master regulatory network. BMC genomics, 9 , 88Chen, Jing; Xu, Huan; Aronow, Bruce J; Jegga, Anil G 2007. Improved human disease candidate gene prioritization using mouse phenotype. BMC bioinformatics, 8 , 392Diwan, Abhinav; Koesters, Andrew G; Odley, Amy M; Pushkaran, Suvarnamala; Baines, Christopher P; Spike, Benjamin T; Daria, Diedre; Jegga, Anil G; Geiger, Hartmut; Aronow, Bruce J; Molkentin, Jeffery D; Macleod, Kay F; Kalfa, Theodosia A; Dorn, Gerald W 2007. Unrestrained erythroblast development in Nix-/- mice reveals a mechanism for apoptotic modulation of erythropoiesis. Proceedings of the National Academy of Sciences of the United States of America, 104 16, 6794-9Jegga, Anil G; Chen, Jing; Gowrisankar, Sivakumar; Deshmukh, Mrunal A; Gudivada, RangaChandra; Kong, Sue; Kaimal, Vivek; Aronow, Bruce J 2007. GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologs. Nucleic acids research, 35 Database issue, D116-21Jegga, Anil G; Gowrisankar, Sivakumar; Chen, Jing; Aronow, Bruce J 2007. PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease. Nucleic acids research, 35 Database issue, D700-6Kaiser, Sergio; Park, Young-Kyu; Franklin, Jeffrey L; Halberg, Richard B; Yu, Ming; Jessen, Walter J; Freudenberg, Johannes; Chen, Xiaodi; Haigis, Kevin; Jegga, Anil G; Kong, Sue; Sakthivel, Bhuvaneswari; Xu, Huan; Reichling, Timothy; Azhar, Mohammad; Boivin, Gregory P; Roberts, Reade B; Bissahoyo, Anika C; Gonzales, Fausto; Bloom, Greg C; Eschrich, Steven; Carter, Scott L; Aronow, Jeremy E; Kleimeyer, John; Kleimeyer, Michael; Ramaswamy, Vivek; Settle, Stephen H; Boone, Braden; Levy, Shawn; Graff, Jonathan M; Doetschman, Thomas; Groden, Joanna; Dove, William F; Threadgill, David W; Yeatman, Timothy J; Coffey, Robert J; Aronow, Bruce J 2007. Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer. Genome biology, 8 7, R131Liu, Cong; Aronow, Bruce J; Jegga, Anil G; Wang, Ning; Miethke, Alex; Mourya, Reena; Bezerra, Jorge A 2007. Novel resequencing chip customized to diagnose mutations in patients with inherited syndromes of intrahepatic cholestasis. Gastroenterology, 132 1, 119-26Markey, M P; Bergseid, J; Bosco, E E; Stengel, K; Xu, H; Mayhew, C N; Schwemberger, S J; Braden, W A; Jiang, Y; Babcock, G F; Jegga, A G; Aronow, B J; Reed, M F; Wang, J Y J; Knudsen, E S 2007. Loss of the retinoblastoma tumor suppressor: differential action on transcriptional programs related to cell cycle control and immune function. Oncogene, 26 43, 6307-18Miller, Shyra J; Rangwala, Fatima; Williams, Jon; Ackerman, Peter; Kong, Sue; Jegga, Anil G; Kaiser, Sergio; Aronow, Bruce J; Frahm, Silke; Kluwe, Lan; Mautner, Victor; Upadhyaya, Meena; Muir, David; Wallace, Margaret; Hagen, Jussara; Quelle, Dawn E; Watson, Mark A; Perry, Arie; Gutmann, David H; Ratner, Nancy 2006. Large-scale molecular comparison of human schwann cells to malignant peripheral nerve sheath tumor cell lines and tissues. Cancer research, 66 5, 2584-91Jegga, Anil G; Gupta, Ashima; Gowrisankar, Sivakumar; Deshmukh, Mrunal A; Connolly, Steven; Finley, Kevin; Aronow, Bruce J 2005. CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes. Nucleic acids research, 33 Web Server issue, W408-11Vukkadapu, Sankaranand S; Belli, Jenine M; Ishii, Koji; Jegga, Anil G; Hutton, John J; Aronow, Bruce J; Katz, Jonathan D 2005. Dynamic interaction between T cell-mediated beta-cell damage and beta-cell repair in the run up to autoimmune diabetes of the NOD mouse. Physiological genomics, 21 2, 201-11Bonizzi, Giuseppina; Bebien, Magali; Otero, Dennis C; Johnson-Vroom, Kirsten E; Cao, Yixue; Vu, Don; Jegga, Anil G; Aronow, Bruce J; Ghosh, Gourisankar; Rickert, Robert C; Karin, Michael 2004. Activation of IKKalpha target genes depends on recognition of specific kappaB binding sites by RelB:p52 dimers. The EMBO journal, 23 21, 4202-10Hutton, John J; Jegga, Anil G; Kong, Sue; Gupta, Ashima; Ebert, Catherine; Williams, Sarah; Katz, Jonathan D; Aronow, Bruce J 2004. Microarray and comparative genomics-based identification of genes and gene regulatory regions of the mouse immune system. BMC genomics, 5 , 82Kim, Jung-whan; Zeller, Karen I; Wang, Yunyue; Jegga, Anil G; Aronow, Bruce J; O'Donnell, Kathryn A; Dang, Chi V 2004. Evaluation of myc E-box phylogenetic footprints in glycolytic genes by chromatin immunoprecipitation assays. Molecular and cellular biology, 24 13, 5923-36Livingston, Robert J; von Niederhausern, Andrew; Jegga, Anil G; Crawford, Dana C; Carlson, Christopher S; Rieder, Mark J; Gowrisankar, Sivakumar; Aronow, Bruce J; Weiss, Robert B; Nickerson, Deborah A 2004. Pattern of sequence variation across 213 environmental response genes. Genome research, 14 10A, 1821-31Zhang, Jianhua; Moseley, Amy; Jegga, Anil G; Gupta, Ashima; Witte, David P; Sartor, Maureen; Medvedovic, Mario; Williams, Sarah S; Ley-Ebert, Cathy; Coolen, Lique M; Egnaczyk, Gregory; Genter, Mary Beth; Lehman, Michael; Lingrel, Jerry; Maggio, John; Parysek, Linda; Walsh, Ryan; Xu, Ming; Aronow, Bruce J 2004. Neural system-enriched gene expression: relationship to biological pathways and neurological diseases. Physiological genomics, 18 2, 167-83Genter, Mary Beth; Van Veldhoven, Paul P; Jegga, Anil G; Sakthivel, Bhuvana; Kong, Sue; Stanley, Kristin; Witte, David P; Ebert, Catherine L; Aronow, Bruce J 2003. Microarray-based discovery of highly expressed olfactory mucosal genes: potential roles in the various functions of the olfactory system. Physiological genomics, 16 1, 67-81Zeller, Karen I; Jegga, Anil G; Aronow, Bruce J; O'Donnell, Kathryn A; Dang, Chi V 2003. An integrated database of genes responsive to the Myc oncogenic transcription factor: identification of direct genomic targets. Genome biology, 4 10, R69Bates, Michael D; Erwin, Christopher R; Sanford, L Philip; Wiginton, Dan; Bezerra, Jorge A; Schatzman, Lynn C; Jegga, Anil G; Ley-Ebert, Cathy; Williams, Sarah S; Steinbrecher, Kris A; Warner, Brad W; Cohen, Mitchell B; Aronow, Bruce J 2002. Novel genes and functional relationships in the adult mouse gastrointestinal tract identified by microarray analysis. Gastroenterology, 122 5, 1467-82Jegga, Anil G; Sherwood, Shawn P; Carman, James W; Pinski, Andrew T; Phillips, Jerry L; Pestian, John P; Aronow, Bruce J 2002. Detection and visualization of compositionally similar cis-regulatory element clusters in orthologous and coordinately controlled genes. Genome research, 12 9, 1408-17Warren, Mary Ann; Koshoffer, Amy; Aronow, Bruce J; Jegga, Anil G; Brackenbury, Robert 2002. Structure of the 5' portion of the human plakoglobin gene. The Journal of investigative dermatology, 119 1, 196-7Takemoto, Clifford M; Lee, Youl-Nam; Jegga, Anil G; Zablocki, Daniella; Brandal, Stephanie; Shahlaee, Amir; Huang, Suming; Ye, Ying; Gowrisankar, Sivakumar; Huynh, Jimmy; McDevitt, Michael A . Mast cell transcriptional networks. Blood cells, molecules & diseases, 41 1, 82-90
Wang, Yunguan; Yella, Jaswanth; Jegga, Anil G 2019. Transcriptomic Data Mining and Repurposing for Computational Drug Discovery. Methods in molecular biology (Clifton, N.J.), 1903 , 73-95Chen, Jing; Xu, Huan; Jegga, Anil; Zhang, Kejian; White, Pete S; Zhang, Ge 2018. Novel phenotype-disease matching tool for rare genetic diseases. Genetics in medicine : official journal of the American College of Medical Genetics, , Hankey, William; Chen, Zhong; Bergman, Maxwell J; Fernandez, Max O; Hancioglu, Baris; Lan, Xun; Jegga, Anil G; Zhang, Jie; Jin, Victor X; Aronow, Bruce J; Wang, Qianben; Groden, Joanna 2018. Chromatin-associated APC regulates gene expression in collaboration with canonical WNT signaling and AP-1. Oncotarget, 9 58, 31214-31230Jiang, Alex; Jegga, Anil G 2018. Characterizing drug-related adverse events by joint analysis of biomedical and genomic data: A case study of drug-induced pulmonary fibrosis. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2017 , 91-97Kronk, Charles J; Jegga, Anil 2018. GNOMICS: A one-stop shop for biomedical and genomic data. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2017 , 118-123Peng, Jiangtong; Li, Yutian; Wang, Xiaohong; Deng, Shan; Holland, Jenna; Yates, Emily; Chen, Jing; Gu, Haitao; Essandoh, Kobina; Mu, Xingjiang; Wang, Boyu; McNamara, Robert K; Peng, Tianqing; Jegga, Anil G; Liu, Tiemin; Nakamura, Takahisa; Huang, Kai; Perez-Tilve, Diego; Fan, Guo-Chang 2018. An Hsp20-FBXO4 Axis Regulates Adipocyte Function through Modulating PPAR? Ubiquitination. Cell reports, 23 12, 3607-3620Smith, Eric A; Krumpelbeck, Eric F; Jegga, Anil G; Prell, Malte; Matrka, Marie M; Kappes, Ferdinand; Greis, Kenneth D; Ali, Abdullah M; Meetei, Amom R; Wells, Susanne I 2018. The nuclear DEK interactome supports multi-functionality. Proteins, 86 1, 88-97Sontake, Vishwaraj; Kasam, Rajesh K; Sinner, Debora; Korfhagen, Thomas R; Reddy, Geereddy B; White, Eric S; Jegga, Anil G; Madala, Satish K 2018. Wilms' tumor 1 drives fibroproliferation and myofibroblast transformation in severe fibrotic lung disease. JCI insight, 3 16, Yella, Jaswanth K; Yaddanapudi, Suryanarayana; Wang, Yunguan; Jegga, Anil G 2018. Changing Trends in Computational Drug Repositioning. Pharmaceuticals (Basel, Switzerland), 11 2, Angel, P M; Narmoneva, D A; Sewell-Loftin, M K; Munjal, C; Dupuis, L; Landis, B J; Jegga, A; Kern, C B; Merryman, W D; Baldwin, H S; Bressan, G M; Hinton, Robert B 2017. Proteomic Alterations Associated with Biomechanical Dysfunction are Early Processes in the Emilin1 Deficient Mouse Model of Aortic Valve Disease. Annals of biomedical engineering, , Kurowski, Brad G; Treble-Barna, Amery; Pitzer, Alexis J; Wade, Shari L; Martin, Lisa J; Chima, Ranjit S; Jegga, Anil 2017. Applying Systems Biology Methodology To Identify Genetic Factors Possibly Associated with Recovery after Traumatic Brain Injury. Journal of neurotrauma, 34 14, 2280-2290Landis, Benjamin J; Schubert, Jeffrey A; Lai, Dongbing; Jegga, Anil G; Shikany, Amy R; Foroud, Tatiana; Ware, Stephanie M; Hinton, Robert B 2017. Exome Sequencing Identifies Candidate Genetic Modifiers of Syndromic and Familial Thoracic Aortic Aneurysm Severity. Journal of cardiovascular translational research, , Luo, Zhenhua; Jegga, Anil G; Bezerra, Jorge A 2017. Gene-disease associations identify a connectome with shared molecular pathways in human cholangiopathies. Hepatology (Baltimore, Md.), , Lynch, Thomas L; Ismahil, Mohamed Ameen; Jegga, Anil G; Zilliox, Michael J; Troidl, Christian; Prabhu, Sumanth D; Sadayappan, Sakthivel 2017. Cardiac inflammation in genetic dilated cardiomyopathy caused by MYBPC3 mutation. Journal of molecular and cellular cardiology, 102 , 83-93Malavia, Tulsi A; Chaparala, Srilakshmi; Wood, Joel; Chowdari, Kodavali; Prasad, Konasale M; McClain, Lora; Jegga, Anil G; Ganapathiraju, Madhavi K; Nimgaonkar, Vishwajit L 2017. Generating testable hypotheses for schizophrenia and rheumatoid arthritis pathogenesis by integrating epidemiological, genomic, and protein interaction data. NPJ schizophrenia, 3 , 11Malek, E; Abdel-Malek, M A Y; Jagannathan, S; Vad, N; Karns, R; Jegga, A G; Broyl, A; van Duin, M; Sonneveld, P; Cottini, F; Anderson, K C; Driscoll, J J 2017. Pharmacogenomics and chemical library screens reveal a novel SCF(SKP2) inhibitor that overcomes Bortezomib resistance in multiple myeloma. Leukemia, 31 3, 645-653Munjal, Charu; Jegga, Anil G; Opoka, Amy M; Stoilov, Ivan; Norris, Russell A; Thomas, Craig J; Smith, J Michael; Mecham, Robert P; Bressan, Giorgio M; Hinton, Robert B 2017. Inhibition of MAPK-Erk pathway in vivo attenuates aortic valve disease processes in Emilin1-deficient mouse model. Physiological reports, 5 5, Singh, Brijendra; Jegga, Anil G; Shanmukhappa, Kumar S; Edukulla, Ramakrishna; Khurana Hershey, Gurjit Kaur; Medvedovic, Mario; Dillon, Stacey R; Madala, Satish K 2017. Correction: IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function. PloS one, 12 1, e0170446Smith, Eric A; Gole, Boris; Willis, Nicholas A; Soria, Rebeca; Starnes, Linda M; Krumpelbeck, Eric F; Jegga, Anil G; Ali, Abdullah M; Guo, Haihong; Meetei, Amom R; Andreassen, Paul R; Kappes, Ferdinand; Vinnedge, Lisa M Privette; Daniel, Jeremy A; Scully, Ralph; Wiesmüller, Lisa; Wells, Susanne I 2017. DEK is required for homologous recombination repair of DNA breaks. Scientific reports, 7 , 44662Sontake, Vishwaraj; Wang, Yunguan; Kasam, Rajesh K; Sinner, Debora; Reddy, Geereddy B; Naren, Anjaparavanda P; McCormack, Francis X; White, Eric S; Jegga, Anil G; Madala, Satish K 2017. Hsp90 regulation of fibroblast activation in pulmonary fibrosis. JCI insight, 2 4, e91454Wang, Yunguan; Yella, Jaswanth; Chen, Jing; McCormack, Francis X; Madala, Satish K; Jegga, Anil G 2017. Unsupervised gene expression analyses identify IPF-severity correlated signatures, associated genes and biomarkers. BMC pulmonary medicine, 17 1, 133Bian, Fenghua; Gao, Fei; Kartashov, Andrey V; Jegga, Anil G; Barski, Artem; Das, Sanjoy K 2016. Polycomb repressive complex 1 controls uterine decidualization. Scientific reports, 6 , 26061Miethke, Alexander G; Zhang, Wujuan; Simmons, Julia; Taylor, Amy E; Shi, Tiffany; Shanmukhappa, Shiva Kumar; Karns, Rebekah; White, Shana; Jegga, Anil G; Lages, Celine S; Nkinin, Stephenson; Keller, Bradley T; Setchell, Kenneth D R 2016. Pharmacological inhibition of apical sodium-dependent bile acid transporter changes bile composition and blocks progression of sclerosing cholangitis in multidrug resistance 2 knockout mice. Hepatology (Baltimore, Md.), 63 2, 512-23Sarangdhar M, Tabar S, Schmidt C, Kushwaha A, Shah K, Dahlquist JE, Jegga AG, Aronow BJ. 2016. Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data. Nature Biotechnology, 34 7, 697Sarangdhar, Mayur; Tabar, Scott; Schmidt, Charles; Kushwaha, Akash; Shah, Krish; Dahlquist, Jeanine E; Jegga, Anil G; Aronow, Bruce J 2016. Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data. Nature biotechnology, 34 7, 697-700Singh, Brijendra; Jegga, Anil G; Shanmukhappa, Kumar S; Edukulla, Ramakrishna; Khurana Hershey, Gurjit H; Medvedovic, Mario; Dillon, Stacey R; Madala, Satish K 2016. IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function. PloS one, 11 8, e0161877Adams, Allie K; Bolanos, Lyndsey C; Dexheimer, Phillip J; Karns, Rebekah A; Aronow, Bruce J; Komurov, Kakajan; Jegga, Anil G; Casper, Keith A; Patil, Yash J; Wilson, Keith M; Starczynowski, Daniel T; Wells, Susanne I 2015. IRAK1 is a novel DEK transcriptional target and is essential for head and neck cancer cell survival. Oncotarget, 6 41, 43395-407Cha, Jeeyeon; Burnum-Johnson, Kristin E; Bartos, Amanda; Li, Yingju; Baker, Erin S; Tilton, Susan C; Webb-Robertson, Bobbie-Jo M; Piehowski, Paul D; Monroe, Matthew E; Jegga, Anil G; Murata, Shigeo; Hirota, Yasushi; Dey, Sudhansu K 2015. Muscle Segment Homeobox Genes Direct Embryonic Diapause by Limiting Inflammation in the Uterus. The Journal of biological chemistry, 290 24, 15337-49Chung, Daesuk; Gao, Fei; Jegga, Anil G; Das, Sanjoy K 2015. Estrogen mediated epithelial proliferation in the uterus is directed by stromal Fgf10 and Bmp8a. Molecular and cellular endocrinology, 400 , 48-60Edukulla, Ramakrishna; Singh, Brijendra; Jegga, Anil G; Sontake, Vishwaraj; Dillon, Stacey R; Madala, Satish K 2015. Th2 Cytokines Augment IL-31/IL-31RA Interactions via STAT6-dependent IL-31RA Expression. The Journal of biological chemistry, 290 21, 13510-20Gilbert, Shila; Nivarthi, Harini; Mayhew, Christopher N; Lo, Yuan-Hung; Noah, Taeko K; Vallance, Jefferson; Rülicke, Thomas; Müller, Mathias; Jegga, Anil G; Tang, Wenjuan; Zhang, Dongsheng; Helmrath, Michael; Shroyer, Noah; Moriggl, Richard; Han, Xiaonan 2015. Activated STAT5 confers resistance to intestinal injury by increasing intestinal stem cell proliferation and regeneration. Stem cell reports, 4 2, 209-25Hawrylycz, Michael; Miller, Jeremy A; Menon, Vilas; Feng, David; Dolbeare, Tim; Guillozet-Bongaarts, Angela L; Jegga, Anil G; Aronow, Bruce J; Lee, Chang-Kyu; Bernard, Amy; Glasser, Matthew F; Dierker, Donna L; Menche, Jörg; Szafer, Aaron; Collman, Forrest; Grange, Pascal; Berman, Kenneth A; Mihalas, Stefan; Yao, Zizhen; Stewart, Lance; Barabási, Albert-László; Schulkin, Jay; Phillips, John; Ng, Lydia; Dang, Chinh; Haynor, David R; Jones, Allan; Van Essen, David C; Koch, Christof; Lein, Ed 2015. Canonical genetic signatures of the adult human brain. Nature neuroscience, 18 12, 1832-44Patchala, Jagadeesh; Jegga, Anil G 2015. Concept Modeling-based Drug Repositioning. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2015 , 222-6Bessho, Kazuhiko; Mourya, Reena; Shivakumar, Pranavkumar; Walters, Stephanie; Magee, John C; Rao, Marepalli; Jegga, Anil G; Bezerra, Jorge A 2014. Gene expression signature for biliary atresia and a role for interleukin-8 in pathogenesis of experimental disease. Hepatology (Baltimore, Md.), 60 1, 211-23Brundage, M E; Tandon, P; Eaves, D W; Williams, J P; Miller, S J; Hennigan, R H; Jegga, A; Cripe, T P; Ratner, N 2014. MAF mediates crosstalk between Ras-MAPK and mTOR signaling in NF1. Oncogene, 33 49, 5626-36Feng, Yuliang; Huang, Wei; Meng, Wei; Jegga, Anil G; Wang, Yigang; Cai, Wenfeng; Kim, Ha Won; Pasha, Zeeshan; Wen, Zhili; Rao, Fang; Modi, Rohan M; Yu, Xiyong; Ashraf, Muhammad 2014. Heat shock improves Sca-1+ stem cell survival and directs ischemic cardiomyocytes toward a prosurvival phenotype via exosomal transfer: a critical role for HSF1/miR-34a/HSP70 pathway. Stem cells (Dayton, Ohio), 32 2, 462-72Jegga, Anil G 2014. Candidate gene discovery and prioritization in rare diseases. Methods in molecular biology (Clifton, N.J.), 1168 , 295-312Velu, Chinavenmeni S; Chaubey, Aditya; Phelan, James D; Horman, Shane R; Wunderlich, Mark; Guzman, Monica L; Jegga, Anil G; Zeleznik-Le, Nancy J; Chen, Jianjun; Mulloy, James C; Cancelas, Jose A; Jordan, Craig T; Aronow, Bruce J; Marcucci, Guido; Bhat, Balkrishen; Gebelein, Brian; Grimes, H Leighton 2014. Therapeutic antagonists of microRNAs deplete leukemia-initiating cell activity. The Journal of clinical investigation, 124 1, 222-36Wu, Chao; Bardes, Eric E; Jegga, Anil G; Aronow, Bruce J 2014. ToppMiR: ranking microRNAs and their mRNA targets based on biological functions and context. Nucleic acids research, 42 Web Server issue, W107-13Wu, Chao; Zhu, Cheng; Jegga, Anil G 2014. Integrative literature and data mining to rank disease candidate genes. Methods in molecular biology (Clifton, N.J.), 1159 , 207-26Zhu, Cheng; Wu, Chao; Aronow, Bruce J; Jegga, Anil G 2014. Computational approaches for human disease gene prediction and ranking. Advances in experimental medicine and biology, 799 , 69-84Bessho, Kazuhiko; Shanmukhappa, Kumar; Sheridan, Rachel; Shivakumar, Pranavkumar; Mourya, Reena; Walters, Stephanie; Kaimal, Vivek; Dilbone, Eric; Jegga, Anil G; Bezerra, Jorge A 2013. Integrative genomics identifies candidate microRNAs for pathogenesis of experimental biliary atresia. BMC systems biology, 7 , 104Bisio, Alessandra; De Sanctis, Veronica; Del Vescovo, Valerio; Denti, Michela A; Jegga, Anil G; Inga, Alberto; Ciribilli, Yari 2013. Identification of new p53 target microRNAs by bioinformatics and functional analysis. BMC cancer, 13 , 552Brown, E B; Layne, J E; Zhu, C; Jegga, A G; Rollmann, S M 2013. Genome-wide association mapping of natural variation in odour-guided behaviour in Drosophila. Genes, brain, and behavior, 12 5, 503-15Deleger, Louise; Molnar, Katalin; Savova, Guergana; Xia, Fei; Lingren, Todd; Li, Qi; Marsolo, Keith; Jegga, Anil; Kaiser, Megan; Stoutenborough, Laura; Solti, Imre 2013. Large-scale evaluation of automated clinical note de-identification and its impact on information extraction. Journal of the American Medical Informatics Association : JAMIA, 20 1, 84-94Li, Qi; Deleger, Louise; Lingren, Todd; Zhai, Haijun; Kaiser, Megan; Stoutenborough, Laura; Jegga, Anil G; Cohen, Kevin Bretonnel; Solti, Imre 2013. Mining FDA drug labels for medical conditions. BMC medical informatics and decision making, 13 , 53Rajan, Sudarsan; Pena, James R; Jegga, Anil G; Aronow, Bruce J; Wolska, Beata M; Wieczorek, David F 2013. Microarray analysis of active cardiac remodeling genes in a familial hypertrophic cardiomyopathy mouse model rescued by a phospholamban knockout. Physiological genomics, 45 17, 764-73Sarangdhar, Mayur; Kushwaha, Akash; Dahlquist, Jeanine; Jegga, Anil; Aronow, Bruce 2013. Using Systems Biology-based Analysis Approaches to Identify Mechanistically Significant Adverse Drug Reactions: Pulmonary Complications from Combined Use of Anti-TNF? Agents and Corticosteroids. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, 2013 , 151-5Wu, Chao; Gudivada, Ranga C; Aronow, Bruce J; Jegga, Anil G 2013. Computational drug repositioning through heterogeneous network clustering. BMC systems biology, 7 Suppl 5 , S6Park, Ji Kwon; Martin, Lisa J; Zhang, Xue; Jegga, Anil G; Benson, D Woodrow 2012. Genetic variants in SCN5A promoter are associated with arrhythmia phenotype severity in patients with heterozygous loss-of-function mutation. Heart rhythm, 9 7, 1090-6Willson, Tara A; Kuhn, Benjamin R; Jurickova, Ingrid; Gerad, Shaina; Moon, David; Bonkowski, Erin; Carey, Rebecca; Collins, Margaret H; Xu, Huan; Jegga, Anil G; Guthery, Stephen L; Denson, Lee A 2012. STAT3 genotypic variation and cellular STAT3 activation and colon leukocyte recruitment in pediatric Crohn disease. Journal of pediatric gastroenterology and nutrition, 55 1, 32-43Xie, Huirong; Sun, Xiaofei; Piao, Yulan; Jegga, Anil G; Handwerger, Stuart; Ko, Minoru S H; Dey, Sudhansu K 2012. Silencing or amplification of endocannabinoid signaling in blastocysts via CB1 compromises trophoblast cell migration. The Journal of biological chemistry, 287 38, 32288-97Zhu, Cheng; Kushwaha, Akash; Berman, Kenneth; Jegga, Anil G 2012. A vertex similarity-based framework to discover and rank orphan disease-related genes. BMC systems biology, 6 Suppl 3 , S8Jegga, Anil G; Schneider, Lonnie; Ouyang, Xiaosen; Zhang, Jianhua 2011. Systems biology of the autophagy-lysosomal pathway. Autophagy, 7 5, 477-89Kaimal, Vivek; Sardana, Divya; Bardes, Eric E; Gudivada, Ranga Chandra; Chen, Jing; Jegga, Anil G 2011. Integrative systems biology approaches to identify and prioritize disease and drug candidate genes. Methods in molecular biology (Clifton, N.J.), 700 , 241-59Ma, Xinghong; Gao, Fei; Rusie, Allison; Hemingway, Jennifer; Ostmann, Alicia B; Sroga, Julie M; Jegga, Anil G; Das, Sanjoy K 2011. Decidual cell polyploidization necessitates mitochondrial activity. PloS one, 6 10, e26774Rankin, Scott A; Kormish, Jay; Kofron, Matt; Jegga, Anil; Zorn, Aaron M 2011. A gene regulatory network controlling hhex transcription in the anterior endoderm of the organizer. Developmental biology, 351 2, 297-310Ren, Jie; Jegga, Anil G; Zhang, Minlu; Deng, Jingyuan; Liu, Junbo; Gordon, Christopher B; Aronow, Bruce J; Lu, Long J; Zhang, Bo; Ma, Jun 2011. A Drosophila model of the neurodegenerative disease SCA17 reveals a role of RBP-J/Su(H) in modulating the pathological outcome. Human molecular genetics, 20 17, 3424-36Sardana D, Zhu C, Zhang M, Gudivada RC, Yang L, Jegga AG. 2011. Drug repositioning for orphan diseases. Brief Bioinform., 12 4, 346Sardana, Divya; Zhu, Cheng; Zhang, Minlu; Gudivada, Ranga C; Yang, Lun; Jegga, Anil G 2011. Drug repositioning for orphan diseases. Briefings in bioinformatics, 12 4, 346-56Yang, Lun; Wang, Kejian; Chen, Jian; Jegga, Anil G; Luo, Heng; Shi, Leming; Wan, Chunling; Guo, Xizhi; Qin, Shengying; He, Guang; Feng, Guoyin; He, Lin 2011. Exploring off-targets and off-systems for adverse drug reactions via chemical-protein interactome--clozapine-induced agranulocytosis as a case study. PLoS computational biology, 7 3, e1002016Yang, Lun; Wang, Ke-Jian; Wang, Li-Shan; Jegga, Anil G; Qin, Sheng-Ying; He, Guang; Chen, Jian; Xiao, Yue; He, Lin 2011. Chemical-protein interactome and its application in off-target identification. Interdisciplinary sciences, computational life sciences, 3 1, 22-30Zhang M, Zhu C, Jacomy A, Lu LJ, Jegga AG. 2011. The orphan disease networks. Am J Hum Genet., 88 6, 755Zhang, Minlu; Zhu, Cheng; Jacomy, Alexis; Lu, Long J; Jegga, Anil G 2011. The orphan disease networks. American journal of human genetics, 88 6, 755-766Kaimal, Vivek; Bardes, Eric E; Tabar, Scott C; Jegga, Anil G; Aronow, Bruce J 2010. ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems. Nucleic acids research, 38 Web Server issue, W96-102Maldonado, Arturo R; Klanke, Chuck; Jegga, Anil G; Aronow, Bruce J; Mahller, Yonatan Y; Cripe, Timothy P; Crombleholme, Timothy M 2010. Molecular engineering and validation of an oncolytic herpes simplex virus type 1 transcriptionally targeted to midkine-positive tumors. The journal of gene medicine, 12 7, 613-23Moyer, Katie; Kaimal, Vivek; Pacheco, Cristina; Mourya, Reena; Xu, Huan; Shivakumar, Pranavkumar; Chakraborty, Ranajit; Rao, Marepalli; Magee, John C; Bove, Kevin; Aronow, Bruce J; Jegga, Anil G; Bezerra, Jorge A 2010. Staging of biliary atresia at diagnosis by molecular profiling of the liver. Genome medicine, 2 5, 33Sardana, Divya; Vasa, Suresh; Vepachedu, Nishanth; Chen, Jing; Gudivada, Ranga Chandra; Aronow, Bruce J; Jegga, Anil G 2010. PhenoHM: human-mouse comparative phenome-genome server. Nucleic acids research, 38 Web Server issue, W165-74Takemoto, Clifford M; Brandal, Stephanie; Jegga, Anil G; Lee, Youl-Nam; Shahlaee, Amir; Ying, Ye; Dekoter, Rodney; McDevitt, Michael A 2010. PU.1 positively regulates GATA-1 expression in mast cells. Journal of immunology (Baltimore, Md. : 1950), 184 8, 4349-61Zhang, Xiaowei; Wang, Xiaohong; Zhu, Hongyan; Zhu, Cheng; Wang, Yigang; Pu, William T; Jegga, Anil G; Fan, Guo-Chang 2010. Synergistic effects of the GATA-4-mediated miR-144/451 cluster in protection against simulated ischemia/reperfusion-induced cardiomyocyte death. Journal of molecular and cellular cardiology, 49 5, 841-50Chen J, Bardes EE, Aronow BJ, Jegga AG. 2009. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res., 37 , W305Chen, Jing; Aronow, Bruce J; Jegga, Anil G 2009. Disease candidate gene identification and prioritization using protein interaction networks. BMC bioinformatics, 10 , 73Chen, Jing; Bardes, Eric E; Aronow, Bruce J; Jegga, Anil G 2009. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic acids research, 37 Web Server issue, W305-11Gowrisankar, Sivakumar; Jegga, Anil G 2009. Regression based predictor for p53 transactivation. BMC bioinformatics, 10 , 215Gu, YuanYuan; Harley, Isaac T W; Henderson, Lindsay B; Aronow, Bruce J; Vietor, Ilja; Huber, Lukas A; Harley, John B; Kilpatrick, Jeffrey R; Langefeld, Carl D; Williams, Adrienne H; Jegga, Anil G; Chen, Jing; Wills-Karp, Marsha; Arshad, S Hasan; Ewart, Susan L; Thio, Chloe L; Flick, Leah M; Filippi, Marie-Dominique; Grimes, H Leighton; Drumm, Mitchell L; Cutting, Garry R; Knowles, Michael R; Karp, Christopher L 2009. Identification of IFRD1 as a modifier gene for cystic fibrosis lung disease. Nature, 458 7241, 1039-42Miller, Shyra J; Jessen, Walter J; Mehta, Tapan; Hardiman, Atira; Sites, Emily; Kaiser, Sergio; Jegga, Anil G; Li, Hua; Upadhyaya, Meena; Giovannini, Marco; Muir, David; Wallace, Margaret R; Lopez, Eva; Serra, Eduard; Nielsen, G Petur; Lazaro, Conxi; Stemmer-Rachamimov, Anat; Page, Grier; Aronow, Bruce J; Ratner, Nancy 2009. Integrative genomic analyses of neurofibromatosis tumours identify SOX9 as a biomarker and survival gene. EMBO molecular medicine, 1 4, 236-48Qu, Xiaoyan A; Gudivada, Ranga C; Jegga, Anil G; Neumann, Eric K; Aronow, Bruce J 2009. Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships. BMC bioinformatics, 10 Suppl 5 , S4Brunskill, Eric W; Aronow, Bruce J; Georgas, Kylie; Rumballe, Bree; Valerius, M Todd; Aronow, Jeremy; Kaimal, Vivek; Jegga, Anil G; Yu, Jing; Grimmond, Sean; McMahon, Andrew P; Patterson, Larry T; Little, Melissa H; Potter, S Steven 2008. Atlas of gene expression in the developing kidney at microanatomic resolution. Developmental cell, 15 5, 781-91Gudivada, Ranga C; Fu, Yun; Jegga, Anil G; Qu, Xiaoyan A; Neumann, Eric K; Aronow, Bruce J 2008. Mining human phenome to investigate modularity of complex disorders. Summit on translational bioinformatics, 2008 , 31-5Gudivada, Ranga Chandra; Qu, Xiaoyan A; Chen, Jing; Jegga, Anil G; Neumann, Eric K; Aronow, Bruce J 2008. Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge. Journal of biomedical informatics, 41 5, 717-29Jegga AG, Inga A, Menendez D, Aronow BJ, Resnick MA. 2008. Functional evolution of the p53 regulatory network through its target response elements. Proc Natl Acad Sci USA., 105 3, 944Jegga, Anil G; Inga, Alberto; Menendez, Daniel; Aronow, Bruce J; Resnick, Michael A 2008. Functional evolution of the p53 regulatory network through its target response elements. Proceedings of the National Academy of Sciences of the United States of America, 105 3, 944-9Kamath, M B; Houston, I B; Janovski, A J; Zhu, X; Gowrisankar, S; Jegga, A G; DeKoter, R P 2008. Dose-dependent repression of T-cell and natural killer cell genes by PU.1 enforces myeloid and B-cell identity. Leukemia, 22 6, 1214-25Sinha, Amit U; Kaimal, Vivek; Chen, Jing; Jegga, Anil G 2008. Dissecting microregulation of a master regulatory network. BMC genomics, 9 , 88Chen, Jing; Xu, Huan; Aronow, Bruce J; Jegga, Anil G 2007. Improved human disease candidate gene prioritization using mouse phenotype. BMC bioinformatics, 8 , 392Diwan, Abhinav; Koesters, Andrew G; Odley, Amy M; Pushkaran, Suvarnamala; Baines, Christopher P; Spike, Benjamin T; Daria, Diedre; Jegga, Anil G; Geiger, Hartmut; Aronow, Bruce J; Molkentin, Jeffery D; Macleod, Kay F; Kalfa, Theodosia A; Dorn, Gerald W 2007. Unrestrained erythroblast development in Nix-/- mice reveals a mechanism for apoptotic modulation of erythropoiesis. Proceedings of the National Academy of Sciences of the United States of America, 104 16, 6794-9Jegga, Anil G; Chen, Jing; Gowrisankar, Sivakumar; Deshmukh, Mrunal A; Gudivada, RangaChandra; Kong, Sue; Kaimal, Vivek; Aronow, Bruce J 2007. GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologs. Nucleic acids research, 35 Database issue, D116-21Jegga, Anil G; Gowrisankar, Sivakumar; Chen, Jing; Aronow, Bruce J 2007. PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease. Nucleic acids research, 35 Database issue, D700-6Kaiser, Sergio; Park, Young-Kyu; Franklin, Jeffrey L; Halberg, Richard B; Yu, Ming; Jessen, Walter J; Freudenberg, Johannes; Chen, Xiaodi; Haigis, Kevin; Jegga, Anil G; Kong, Sue; Sakthivel, Bhuvaneswari; Xu, Huan; Reichling, Timothy; Azhar, Mohammad; Boivin, Gregory P; Roberts, Reade B; Bissahoyo, Anika C; Gonzales, Fausto; Bloom, Greg C; Eschrich, Steven; Carter, Scott L; Aronow, Jeremy E; Kleimeyer, John; Kleimeyer, Michael; Ramaswamy, Vivek; Settle, Stephen H; Boone, Braden; Levy, Shawn; Graff, Jonathan M; Doetschman, Thomas; Groden, Joanna; Dove, William F; Threadgill, David W; Yeatman, Timothy J; Coffey, Robert J; Aronow, Bruce J 2007. Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer. Genome biology, 8 7, R131Liu, Cong; Aronow, Bruce J; Jegga, Anil G; Wang, Ning; Miethke, Alex; Mourya, Reena; Bezerra, Jorge A 2007. Novel resequencing chip customized to diagnose mutations in patients with inherited syndromes of intrahepatic cholestasis. Gastroenterology, 132 1, 119-26Markey, M P; Bergseid, J; Bosco, E E; Stengel, K; Xu, H; Mayhew, C N; Schwemberger, S J; Braden, W A; Jiang, Y; Babcock, G F; Jegga, A G; Aronow, B J; Reed, M F; Wang, J Y J; Knudsen, E S 2007. Loss of the retinoblastoma tumor suppressor: differential action on transcriptional programs related to cell cycle control and immune function. Oncogene, 26 43, 6307-18Miller, Shyra J; Rangwala, Fatima; Williams, Jon; Ackerman, Peter; Kong, Sue; Jegga, Anil G; Kaiser, Sergio; Aronow, Bruce J; Frahm, Silke; Kluwe, Lan; Mautner, Victor; Upadhyaya, Meena; Muir, David; Wallace, Margaret; Hagen, Jussara; Quelle, Dawn E; Watson, Mark A; Perry, Arie; Gutmann, David H; Ratner, Nancy 2006. Large-scale molecular comparison of human schwann cells to malignant peripheral nerve sheath tumor cell lines and tissues. Cancer research, 66 5, 2584-91Jegga, Anil G; Gupta, Ashima; Gowrisankar, Sivakumar; Deshmukh, Mrunal A; Connolly, Steven; Finley, Kevin; Aronow, Bruce J 2005. CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes. Nucleic acids research, 33 Web Server issue, W408-11Vukkadapu, Sankaranand S; Belli, Jenine M; Ishii, Koji; Jegga, Anil G; Hutton, John J; Aronow, Bruce J; Katz, Jonathan D 2005. Dynamic interaction between T cell-mediated beta-cell damage and beta-cell repair in the run up to autoimmune diabetes of the NOD mouse. Physiological genomics, 21 2, 201-11Bonizzi, Giuseppina; Bebien, Magali; Otero, Dennis C; Johnson-Vroom, Kirsten E; Cao, Yixue; Vu, Don; Jegga, Anil G; Aronow, Bruce J; Ghosh, Gourisankar; Rickert, Robert C; Karin, Michael 2004. Activation of IKKalpha target genes depends on recognition of specific kappaB binding sites by RelB:p52 dimers. The EMBO journal, 23 21, 4202-10Hutton, John J; Jegga, Anil G; Kong, Sue; Gupta, Ashima; Ebert, Catherine; Williams, Sarah; Katz, Jonathan D; Aronow, Bruce J 2004. Microarray and comparative genomics-based identification of genes and gene regulatory regions of the mouse immune system. BMC genomics, 5 , 82Kim, Jung-whan; Zeller, Karen I; Wang, Yunyue; Jegga, Anil G; Aronow, Bruce J; O'Donnell, Kathryn A; Dang, Chi V 2004. Evaluation of myc E-box phylogenetic footprints in glycolytic genes by chromatin immunoprecipitation assays. Molecular and cellular biology, 24 13, 5923-36Livingston, Robert J; von Niederhausern, Andrew; Jegga, Anil G; Crawford, Dana C; Carlson, Christopher S; Rieder, Mark J; Gowrisankar, Sivakumar; Aronow, Bruce J; Weiss, Robert B; Nickerson, Deborah A 2004. Pattern of sequence variation across 213 environmental response genes. Genome research, 14 10A, 1821-31Zhang, Jianhua; Moseley, Amy; Jegga, Anil G; Gupta, Ashima; Witte, David P; Sartor, Maureen; Medvedovic, Mario; Williams, Sarah S; Ley-Ebert, Cathy; Coolen, Lique M; Egnaczyk, Gregory; Genter, Mary Beth; Lehman, Michael; Lingrel, Jerry; Maggio, John; Parysek, Linda; Walsh, Ryan; Xu, Ming; Aronow, Bruce J 2004. Neural system-enriched gene expression: relationship to biological pathways and neurological diseases. Physiological genomics, 18 2, 167-83Genter, Mary Beth; Van Veldhoven, Paul P; Jegga, Anil G; Sakthivel, Bhuvana; Kong, Sue; Stanley, Kristin; Witte, David P; Ebert, Catherine L; Aronow, Bruce J 2003. Microarray-based discovery of highly expressed olfactory mucosal genes: potential roles in the various functions of the olfactory system. Physiological genomics, 16 1, 67-81Zeller, Karen I; Jegga, Anil G; Aronow, Bruce J; O'Donnell, Kathryn A; Dang, Chi V 2003. An integrated database of genes responsive to the Myc oncogenic transcription factor: identification of direct genomic targets. Genome biology, 4 10, R69Bates, Michael D; Erwin, Christopher R; Sanford, L Philip; Wiginton, Dan; Bezerra, Jorge A; Schatzman, Lynn C; Jegga, Anil G; Ley-Ebert, Cathy; Williams, Sarah S; Steinbrecher, Kris A; Warner, Brad W; Cohen, Mitchell B; Aronow, Bruce J 2002. Novel genes and functional relationships in the adult mouse gastrointestinal tract identified by microarray analysis. Gastroenterology, 122 5, 1467-82Jegga, Anil G; Sherwood, Shawn P; Carman, James W; Pinski, Andrew T; Phillips, Jerry L; Pestian, John P; Aronow, Bruce J 2002. Detection and visualization of compositionally similar cis-regulatory element clusters in orthologous and coordinately controlled genes. Genome research, 12 9, 1408-17Warren, Mary Ann; Koshoffer, Amy; Aronow, Bruce J; Jegga, Anil G; Brackenbury, Robert 2002. Structure of the 5' portion of the human plakoglobin gene. The Journal of investigative dermatology, 119 1, 196-7Takemoto, Clifford M; Lee, Youl-Nam; Jegga, Anil G; Zablocki, Daniella; Brandal, Stephanie; Shahlaee, Amir; Huang, Suming; Ye, Ying; Gowrisankar, Sivakumar; Huynh, Jimmy; McDevitt, Michael A . Mast cell transcriptional networks. Blood cells, molecules & diseases, 41 1, 82-90