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Author Details

Ralf Herwig
Max Planck Institute for Molecular Genetics
1998
116
37
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36335503Analysis of 1276 Haplotype-Resolved Genomes Allows Characterization of Cis- and Trans-Abundant Genes.Methods Mol Biol2023
37546854Systematic assessment of long-read RNA-seq methods for transcript identification and quantification.bioRxiv2023
37187743Host M-CSF induced gene expression drives changes in susceptible and resistant mice-derived BMdMs upon <i>Leishmania major</i> infection.Front Immunol2023
37267159IsoTools: a flexible workflow for long-read transcriptome sequencing analysis.Bioinformatics2023
36614300E96V Mutation in the <i>Kdelr3</i> Gene Is Associated with Type 2 Diabetes Susceptibility in Obese NZO Mice.Int J Mol Sci2023
36707786Deletion of Tbc1d4/As160 abrogates cardiac glucose uptake and increases myocardial damage after ischemia/reperfusion.Cardiovasc Diabetol2023
35047818Matching anticancer compounds and tumor cell lines by neural networks with ranking loss.NAR Genom Bioinform2022
35509973Gradient tree boosting and network propagation for the identification of pan-cancer survival networks.STAR Protoc2022
35704690Deregulation and epigenetic modification of BCL2-family genes cause resistance to venetoclax in hematologic malignancies.Blood2022
35796564Comparative genomic analyses of multiple backcross mouse populations suggest SGCG as a novel potential obesity-modifier gene.Hum Mol Genet2022
35748249Epirubicin Alters DNA Methylation Profiles Related to Cardiotoxicity.Front Biosci (Landmark Ed)2022
36010942Pre-Training on In Vitro and Fine-Tuning on Patient-Derived Data Improves Deep Neural Networks for Anti-Cancer Drug-Sensitivity Prediction.Cancers (Basel)2022
34850110ConsensusPathDB 2022: molecular interactions update as a resource for network biology.Nucleic Acids Res2022
33154092PWD/Ph-Encoded Genetic Variants Modulate the Cellular Wnt/β-Catenin Response to Suppress <i>Apc</i> <sup>Min</sup>-Triggered Intestinal Tumor Formation.Cancer Res2021
33880624Alternative exon splicing and differential expression in pancreatic islets reveals candidate genes and pathways implicated in early diabetes development.Mamm Genome2021
35106465A gradient tree boosting and network propagation derived pan-cancer survival network of the tumor microenvironment.iScience2021
34502260Altered DNA Methylation Profiles in <i>SF3B1</i> Mutated CLL Patients.Int J Mol Sci2021
34174885Large-scale literature mining to assess the relation between anti-cancer drugs and cancer types.J Transl Med2021
32735660NetCore: a network propagation approach using node coreness.Nucleic Acids Res2020
33060801Network integration and modelling of dynamic drug responses at multi-omics levels.Commun Biol2020
32771698Histone deacetylase 5 regulates interleukin 6 secretion and insulin action in skeletal muscle.Mol Metab2020
29302074Genetics of intellectual disability in consanguineous families.Mol Psychiatry2019
30874586DMSO induces drastic changes in human cellular processes and epigenetic landscape in vitro.Sci Rep2019
30576872Combined Targeted Resequencing of Cytosine DNA Methylation and Mutations of DNA Repair Genes with Potential Use for Poly(ADP-Ribose) Polymerase 1 Inhibitor Sensitivity Testing.J Mol Diagn2019
30698752Significant abundance of cis configurations of coding variants in diploid human genomes.Nucleic Acids Res2019
28852801A model-based assay design to reproduce in vivo patterns of acute drug-induced toxicity.Arch Toxicol2018
30029672Epigenomic profiling of non-small cell lung cancer xenografts uncover LRP12 DNA methylation as predictive biomarker for carboplatin resistance.Genome Med2018
30405693Network and Pathway Analysis of Toxicogenomics Data.Front Genet2018
30421412Computational Network Analysis for Drug Toxicity Prediction.Methods Mol Biol2018
30341086Two Novel Candidate Genes for Insulin Secretion Identified by Comparative Genomics of Multiple Backcross Mouse Populations.Genetics2018
27913729QSEA-modelling of genome-wide DNA methylation from sequencing enrichment experiments.Nucleic Acids Res2017
28186126Molecular dissection of colorectal cancer in pre-clinical models identifies biomarkers predicting sensitivity to EGFR inhibitors.Nat Commun2017
26919036Transcriptional signature induced by a metastasis-promoting c-Src mutant in a human breast cell line.FEBS J2016
26525393Inter-laboratory study of human in vitro toxicogenomics-based tests as alternative methods for evaluating chemical carcinogenicity: a bioinformatics perspective.Arch Toxicol2016
27606777Analyzing and interpreting genome data at the network level with ConsensusPathDB.Nat Protoc2016
27311473A Systems Biology Approach for Identifying Hepatotoxicant Groups Based on Similarity in Mechanisms of Action and Chemical Structure.Methods Mol Biol2016
27074805ToxDB: pathway-level interpretation of drug-treatment data.Database (Oxford)2016
25505093diXa: a data infrastructure for chemical safety assessment.Bioinformatics2015
24227674MEDIPS: genome-wide differential coverage analysis of sequencing data derived from DNA enrichment experiments.Bioinformatics2014
26417288Testing chemical carcinogenicity by using a transcriptomics HepaRG-based model?EXCLI J2014
25733952Computational modeling of drug response with applications to neuroscience.Dialogues Clin Neurosci2014
25240516Activation of AMP-activated protein kinase sensitizes lung cancer cells and H1299 xenografts to erlotinib.Lung Cancer2014
25118633Pathway deregulation and expression QTLs in response to Actinobacillus pleuropneumoniae infection in swine.Mamm Genome2014
24920826ARH-seq: identification of differential splicing in RNA-seq data.Nucleic Acids Res2014
24521014Evaluation of database-derived pathway development for enabling biomarker discovery for hepatotoxicity.Biomark Med2014
24445419Identification of QTL affecting resistance/susceptibility to acute Actinobacillus pleuropneumoniae infection in swine.Mamm Genome2014
23143270The ConsensusPathDB interaction database: 2013 update.Nucleic Acids Res2013
23951402An integrative computational analysis provides evidence for FBN1-associated network deregulation in trisomy 21.Biol Open2013
23636508The enzymatic activity of the VEGFR2 receptor for the biosynthesis of dinucleoside polyphosphates.J Mol Med (Berl)2013
23393228Transcriptomic responses generated by hepatocarcinogens in a battery of liver-based in vitro models.Carcinogenesis2013
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Collaborators

Atanas Kamburov
Broad Institute of Harvard and MIT
Co-authored papers 14
Jos C S Kleinjans
Maastricht University
Co-authored papers 13
Michal R Schweiger
Institute for Translational Epigenetics, University of Cologne
Co-authored papers 9
Hans Gmuender
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Co-authored papers 8
Marie-Laure Yaspo
Max Planck Institute for Molecular Genetics
Co-authored papers 6
Lukas Chavez
University of California San Diego
Co-authored papers 6
Albert J Poustka
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Co-authored papers 5
Holger S??ltmann
German Cancer Research Center (DKFZ)
Co-authored papers 4
Georgia Panopoulou
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Co-authored papers 3
Ugis Sarkans
Co-authored papers 3
Margret R Hoehe
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Konstantin Pentchev
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Hugo J W L Aerts
Harvard Medical School
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Stephane Heymans
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Ron Shamir
Tel Aviv University
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George M Church
Harvard Medical School
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Hideya Kawaji
RIKEN Center for Integrative Medical Sciences
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Tomasz Dylag
Co-authored papers 1
Ernest D Laue
University of Cambridge
Co-authored papers 1
Ana Conesa
Institute for Integrative Systems Biology, Spanish National Research Council (CSIC)
Co-authored papers 1
Anne Hersey
Co-authored papers 1
Michael Boutros
German Cancer Research Center (DKFZ) and Heidelberg University
Co-authored papers 1
Lennart Martens
Co-authored papers 1
Hans-J??rg Warnatz
Max Planck Institute for Molecular Genetics
Co-authored papers 1
Jos?? M Fern??ndez
Hospital Universitario y Politecnico la Fe
Co-authored papers 1
Sandra W Clifton
Garvan Institute of Medical Research
Co-authored papers 1
Knut Reinert
Institut fur Informatik, Freie Universitat Berlin
Co-authored papers 1
Clemens Wittwehr
Co-authored papers 1
Rob H Stierum
Co-authored papers 1
Matthias Blüher
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Release 1.2