List of works - Anil G. Jegga

A Drosophila model of the neurodegenerative disease SCA17 reveals a role of RBP-J/Su(H) in modulating the pathological outcome

scientific article

A gene regulatory network controlling hhex transcription in the anterior endoderm of the organizer

scientific article

A novel framework for detecting maximally banded matrices in binary data

A vertex similarity-based framework to discover and rank orphan disease-related genes

scientific article

Activated STAT5 confers resistance to intestinal injury by increasing intestinal stem cell proliferation and regeneration

scientific article published on 8 January 2015

Activation of IKKalpha target genes depends on recognition of specific kappaB binding sites by RelB:p52 dimers

scientific article

An integrated database of genes responsive to the Myc oncogenic transcription factor: identification of direct genomic targets ⬇️

scientific article published on September 11, 2003

Applying Systems Biology Methodology To Identify Genetic Factors Possibly Associated with Recovery after Traumatic Brain Injury

scientific article published on 16 March 2017

Atlas of gene expression in the developing kidney at microanatomic resolution

scientific article

Bootstrapping algorithms for an application in the automotive domain

scholarly article published December 2007

Candidate gene discovery and prioritization in rare diseases

scientific article published on January 2014

Canonical genetic signatures of the adult human brain

scientific article

Cardiac inflammation in genetic dilated cardiomyopathy caused by MYBPC3 mutation

scientific article published on 9 December 2016

Changing Trends in Computational Drug Repositioning.

scientific article published on 5 June 2018

Chemical-protein interactome and its application in off-target identification

scientific article published on 03 March 2011

CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes.

scientific article

Computational drug repositioning through heterogeneous network clustering

scientific article

Computational workflow for functional characterization of COVID-19 through secondary data analysis

scientific article published on 24 September 2021

Concept Modeling-based Drug Repositioning.

scientific article published on 23 March 2015

DEK is required for homologous recombination repair of DNA breaks

scientific article

Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data

scientific article

Decidual cell polyploidization necessitates mitochondrial activity

scientific article

Detection and visualization of compositionally similar cis-regulatory element clusters in orthologous and coordinately controlled genes

scientific article published on September 2002

Disease candidate gene identification and prioritization using protein interaction networks

scientific article

Dissecting microregulation of a master regulatory network

scientific article

Dose-dependent repression of T-cell and natural killer cell genes by PU.1 enforces myeloid and B-cell identity.

scientific article

Drug repositioning for orphan diseases

scientific article published on 18 April 2011

Dynamic interaction between T cell-mediated β-cell damage and β-cell repair in the run up to autoimmune diabetes of the NOD mouse

article

Estrogen mediated epithelial proliferation in the uterus is directed by stromal Fgf10 and Bmp8a

scientific article published on 7 November 2014

Evaluation of myc E-box phylogenetic footprints in glycolytic genes by chromatin immunoprecipitation assays

scientific article published on July 2004

Exome Sequencing Identifies Candidate Genetic Modifiers of Syndromic and Familial Thoracic Aortic Aneurysm Severity.

scientific article published on 26 May 2017

Exploring off-targets and off-systems for adverse drug reactions via chemical-protein interactome--clozapine-induced agranulocytosis as a case study

scientific article

Functional evolution of the p53 regulatory network through its target response elements

scholarly article

Gene expression signature for biliary atresia and a role for interleukin-8 in pathogenesis of experimental disease

scientific article

Generating testable hypotheses for schizophrenia and rheumatoid arthritis pathogenesis by integrating epidemiological, genomic, and protein interaction data

scientific article

Genetic variants in SCN5A promoter are associated with arrhythmia phenotype severity in patients with heterozygous loss-of-function mutation

scientific article published on 24 February 2012

Genome-wide association mapping of natural variation in odour-guided behaviour in Drosophila.

scientific article published on 19 June 2013

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

scientific article published on 18 December 2006

Hsp90 regulation of fibroblast activation in pulmonary fibrosis

scientific article

IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function

scientific article

IRAK1 is a novel DEK transcriptional target and is essential for head and neck cancer cell survival.

scientific article published on 26 October 2015

Identification of IFRD1 as a modifier gene for cystic fibrosis lung disease

scientific article

Identification of new p53 target microRNAs by bioinformatics and functional analysis

scientific article

Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge

scientific article published on 23 August 2008

Improved human disease candidate gene prioritization using mouse phenotype

scientific article

Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships

scientific article

Inhibition of Aurora Kinase B attenuates fibroblast activation and pulmonary fibrosis

scientific article published on 06 August 2020

Inhibition of MAPK-Erk pathway in vivo attenuates aortic valve disease processes in Emilin1-deficient mouse model

scientific article published on March 2017

Integrative genomic analyses of neurofibromatosis tumours identify SOX9 as a biomarker and survival gene

scientific article

Integrative genomics identifies candidate microRNAs for pathogenesis of experimental biliary atresia

scientific article

Integrative literature and data mining to rank disease candidate genes

scientific article

Integrative systems biology approaches to identify and prioritize disease and drug candidate genes.

scientific article published in January 2011

Large-scale evaluation of automated clinical note de-identification and its impact on information extraction.

scientific article published on 2 August 2012

Large-scale molecular comparison of human schwann cells to malignant peripheral nerve sheath tumor cell lines and tissues

scientific article

MAF mediates crosstalk between Ras-MAPK and mTOR signaling in NF1.

scientific article

Mast cell transcriptional networks

scientific article published on 14 April 2008

Microarray analysis of active cardiac remodeling genes in a familial hypertrophic cardiomyopathy mouse model rescued by a phospholamban knockout

scientific article published on 25 June 2013

Microarray and comparative genomics-based identification of genes and gene regulatory regions of the mouse immune system

scientific article

Microarray-based discovery of highly expressed olfactory mucosal genes: potential roles in the various functions of the olfactory system

scientific article published on 16 December 2003

Mining FDA drug labels for medical conditions

scientific article

Muscle Segment Homeobox Genes Direct Embryonic Diapause by Limiting Inflammation in the Uterus

scientific article published on 30 April 2015

Neural system-enriched gene expression: relationship to biological pathways and neurological diseases.

scientific article published on 08 July 2004

Novel resequencing chip customized to diagnose mutations in patients with inherited syndromes of intrahepatic cholestasis

scientific article published on 21 October 2006

Nuclear receptor binding factor 2 (NRBF2) is required for learning and memory

scientific article published on 29 April 2020

PU.1 positively regulates GATA-1 expression in mast cells

scientific article published on 19 March 2010

Pan-transcriptome-based candidate therapeutic discovery for idiopathic pulmonary fibrosis

scientific article published on 01 January 2020

Pharmacogenomics and chemical library screens reveal a novel SCFSKP2 inhibitor that overcomes Bortezomib resistance in multiple myeloma

scientific article

Pharmacological inhibition of apical sodium-dependent bile acid transporter changes bile composition and blocks progression of sclerosing cholangitis in multidrug resistance 2 knockout mice.

scientific article

PhenoHM: human-mouse comparative phenome-genome server

scientific article

PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease

scientific article

Polycomb repressive complex 1 controls uterine decidualization

scientific article published on 16 May 2016

Regression based predictor for p53 transactivation

scientific article

STAT3 genotypic variation and cellular STAT3 activation and colon leukocyte recruitment in pediatric Crohn disease

scientific article published on July 2012

Secondary analysis of transcriptomes of SARS-CoV-2 infection models to characterize COVID-19

scientific article published on 05 April 2021

Silencing or amplification of endocannabinoid signaling in blastocysts via CB1 compromises trophoblast cell migration

scientific article

Staging of biliary atresia at diagnosis by molecular profiling of the liver

scientific article

Structure of the 5′ Portion of the Human Plakoglobin Gene

article

Synergistic effects of the GATA-4-mediated miR-144/451 cluster in protection against simulated ischemia/reperfusion-induced cardiomyocyte death

scientific article

Systems biology of the autophagy-lysosomal pathway

scientific article

Targeting DNAJB9, a novel ER luminal co-chaperone, to rescue ΔF508-CFTR

scientific article published on 08 July 2019

Th2 Cytokines Augment IL-31/IL-31RA Interactions via STAT6-dependent IL-31RA Expression

scientific article published on 6 April 2015

The orphan disease networks

scientific article published on June 2011

Therapeutic antagonists of microRNAs deplete leukemia-initiating cell activity

scientific article published on 16 December 2013

ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems

scientific article

ToppGene Suite for gene list enrichment analysis and candidate gene prioritization

scientific article

ToppMiR: ranking microRNAs and their mRNA targets based on biological functions and context

scientific article

Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer

scientific article published on January 2007

Unrestrained erythroblast development in Nix-/- mice reveals a mechanism for apoptotic modulation of erythropoiesis

scholarly article

Unsupervised gene expression analyses identify IPF-severity correlated signatures, associated genes and biomarkers.

scientific article

Wilms' tumor 1 drives fibroproliferation and myofibroblast transformation in severe fibrotic lung disease

ailSemantic Web-based data representation and reasoning applied to disease mechanism and pharmacology

scholarly article published November 2007

List of works by Anil G. Jegga

A Drosophila model of the neurodegenerative disease SCA17 reveals a role of RBP-J/Su(H) in modulating the pathological outcome

A gene regulatory network controlling hhex transcription in the anterior endoderm of the organizer

A novel framework for detecting maximally banded matrices in binary data

A vertex similarity-based framework to discover and rank orphan disease-related genes

Activated STAT5 confers resistance to intestinal injury by increasing intestinal stem cell proliferation and regeneration

Activation of IKKalpha target genes depends on recognition of specific kappaB binding sites by RelB:p52 dimers

An integrated database of genes responsive to the Myc oncogenic transcription factor: identification of direct genomic targets ⬇️

Applying Systems Biology Methodology To Identify Genetic Factors Possibly Associated with Recovery after Traumatic Brain Injury

Atlas of gene expression in the developing kidney at microanatomic resolution

Bootstrapping algorithms for an application in the automotive domain

Candidate gene discovery and prioritization in rare diseases

Canonical genetic signatures of the adult human brain

Cardiac inflammation in genetic dilated cardiomyopathy caused by MYBPC3 mutation

Changing Trends in Computational Drug Repositioning.

Chemical-protein interactome and its application in off-target identification

CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes.

Computational drug repositioning through heterogeneous network clustering

Computational workflow for functional characterization of COVID-19 through secondary data analysis

Concept Modeling-based Drug Repositioning.

DEK is required for homologous recombination repair of DNA breaks

Data mining differential clinical outcomes associated with drug regimens using adverse event reporting data

Decidual cell polyploidization necessitates mitochondrial activity

Detection and visualization of compositionally similar cis-regulatory element clusters in orthologous and coordinately controlled genes

Disease candidate gene identification and prioritization using protein interaction networks

Dissecting microregulation of a master regulatory network

Dose-dependent repression of T-cell and natural killer cell genes by PU.1 enforces myeloid and B-cell identity.

Drug repositioning for orphan diseases

Dynamic interaction between T cell-mediated β-cell damage and β-cell repair in the run up to autoimmune diabetes of the NOD mouse

Estrogen mediated epithelial proliferation in the uterus is directed by stromal Fgf10 and Bmp8a

Evaluation of myc E-box phylogenetic footprints in glycolytic genes by chromatin immunoprecipitation assays

Exome Sequencing Identifies Candidate Genetic Modifiers of Syndromic and Familial Thoracic Aortic Aneurysm Severity.

Exploring off-targets and off-systems for adverse drug reactions via chemical-protein interactome--clozapine-induced agranulocytosis as a case study

Functional evolution of the p53 regulatory network through its target response elements

Gene expression signature for biliary atresia and a role for interleukin-8 in pathogenesis of experimental disease

Generating testable hypotheses for schizophrenia and rheumatoid arthritis pathogenesis by integrating epidemiological, genomic, and protein interaction data

Genetic variants in SCN5A promoter are associated with arrhythmia phenotype severity in patients with heterozygous loss-of-function mutation

Genome-wide association mapping of natural variation in odour-guided behaviour in Drosophila.

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

Hsp90 regulation of fibroblast activation in pulmonary fibrosis

IL-31-Driven Skin Remodeling Involves Epidermal Cell Proliferation and Thickening That Lead to Impaired Skin-Barrier Function

IRAK1 is a novel DEK transcriptional target and is essential for head and neck cancer cell survival.

Identification of IFRD1 as a modifier gene for cystic fibrosis lung disease

Identification of new p53 target microRNAs by bioinformatics and functional analysis

Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge

Improved human disease candidate gene prioritization using mouse phenotype

Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships

Inhibition of Aurora Kinase B attenuates fibroblast activation and pulmonary fibrosis

Inhibition of MAPK-Erk pathway in vivo attenuates aortic valve disease processes in Emilin1-deficient mouse model

Integrative genomic analyses of neurofibromatosis tumours identify SOX9 as a biomarker and survival gene

Integrative genomics identifies candidate microRNAs for pathogenesis of experimental biliary atresia

Integrative literature and data mining to rank disease candidate genes

Integrative systems biology approaches to identify and prioritize disease and drug candidate genes.

Large-scale evaluation of automated clinical note de-identification and its impact on information extraction.

Large-scale molecular comparison of human schwann cells to malignant peripheral nerve sheath tumor cell lines and tissues

MAF mediates crosstalk between Ras-MAPK and mTOR signaling in NF1.

Mast cell transcriptional networks

Microarray analysis of active cardiac remodeling genes in a familial hypertrophic cardiomyopathy mouse model rescued by a phospholamban knockout

Microarray and comparative genomics-based identification of genes and gene regulatory regions of the mouse immune system

Microarray-based discovery of highly expressed olfactory mucosal genes: potential roles in the various functions of the olfactory system

Mining FDA drug labels for medical conditions

Muscle Segment Homeobox Genes Direct Embryonic Diapause by Limiting Inflammation in the Uterus

Neural system-enriched gene expression: relationship to biological pathways and neurological diseases.

Novel resequencing chip customized to diagnose mutations in patients with inherited syndromes of intrahepatic cholestasis

Nuclear receptor binding factor 2 (NRBF2) is required for learning and memory

PU.1 positively regulates GATA-1 expression in mast cells

Pan-transcriptome-based candidate therapeutic discovery for idiopathic pulmonary fibrosis

Pharmacogenomics and chemical library screens reveal a novel SCFSKP2 inhibitor that overcomes Bortezomib resistance in multiple myeloma

Pharmacological inhibition of apical sodium-dependent bile acid transporter changes bile composition and blocks progression of sclerosing cholangitis in multidrug resistance 2 knockout mice.

PhenoHM: human-mouse comparative phenome-genome server

PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease

Polycomb repressive complex 1 controls uterine decidualization

Regression based predictor for p53 transactivation

STAT3 genotypic variation and cellular STAT3 activation and colon leukocyte recruitment in pediatric Crohn disease

Secondary analysis of transcriptomes of SARS-CoV-2 infection models to characterize COVID-19

Silencing or amplification of endocannabinoid signaling in blastocysts via CB1 compromises trophoblast cell migration

Staging of biliary atresia at diagnosis by molecular profiling of the liver

Structure of the 5′ Portion of the Human Plakoglobin Gene

Synergistic effects of the GATA-4-mediated miR-144/451 cluster in protection against simulated ischemia/reperfusion-induced cardiomyocyte death

Systems biology of the autophagy-lysosomal pathway