Papers matching “gene co-expression network” 89
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Systematic comparison of temporal transcriptional responses to hepatotoxicants in primary human hepatocytes and HepaRG cells using concentration-response modelling of gene co-expression networks2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Pharmacology, Toxicology and Pharmaceutics Drug-Induced Hepatotoxicity and Protection Open access
Steven J. Kunnen, Emma Arnesdotter, Christian Tobias Willenbockel, Mathieu Vinken, Bob van de Water
0citations -
NetTDP: permutation-based true discovery proportions for differential co-expression network analysis2022 Briefings in Bioinformatics article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Menglan Cai, Anna Vesely, Xu Chen, Limin Li, Jelle J. Goeman
1citations -
Adjustment of spurious correlations in co-expression measurements from RNA-Sequencing data2023 Bioinformatics article Biochemistry, Genetics and Molecular Biology Gene expression and cancer classification Open access
Ping‐Han Hsieh, Camila M. Lopes‐Ramos, Manuela Zucknick, Geir Kjetil Sandve, Kimberly Glass, Marieke L. Kuijjer
12citations -
Recommendations for the analysis of gene expression data to identify intrinsic differences between similar tissues2020 Genomics article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Tooba Abbassi‐Daloii, Hermien E. Kan, Vered Raz, Peter A.C. ’t Hoen
16citations -
KidneyNetwork: using kidney-derived gene expression data to predict and prioritize novel genes involved in kidney disease2023 European Journal of Human Genetics article Biochemistry, Genetics and Molecular Biology Genomics and Rare Diseases Open access
Floranne Boulogne, Laura R. Claus, Henry H. Wiersma, Roy Oelen, Floor Schukking, Niek de Klein, +15 more
15citations -
A Network-based Transcriptomic Landscape of HepG2 cells to Uncover Causal Gene Cytotoxicity Interactions Underlying Drug-Induced Liver Injury2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Pharmacology, Toxicology and Pharmaceutics Drug-Induced Hepatotoxicity and Protection Open access
Lukas S. Wijaya, Attila Gábor, Iris Pot, Luca van de Have, Julio Sáez-Rodríguez, James L. Stevens, +3 more
1citations -
Systematic comparison of temporal hepatotoxicant-induced gene network responses across 3 liver test systems2026 Toxicological Sciences article Pharmacology, Toxicology and Pharmaceutics Drug-Induced Hepatotoxicity and Protection Open access
Tamara Y Danilyuk, Marou Schouten, Elsje J Burgers, Barira Islam, Joost B. Beltman, Peter Bouwman, +2 more
0citations -
Identification of a gene network driving the attenuated response to lipopolysaccharide of monocytes from hypertensive coronary artery disease patients2024 Frontiers in Immunology article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access
Chang Wei Lu, Marjo M. P. C. Donners, Julius B. J. de Baaij, Han Young Jin, Jeroen J. T. Otten, Marco Manca, +11 more
2citations -
The Transcriptome in Transition: Global Gene Expression Profiles of Young Adult Fruit Flies Depend More Strongly on Developmental Than Adult Diet5citations
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KidneyNetwork: Using kidney-derived gene expression data to predict and prioritize novel genes involved in kidney disease2022 Research Square preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Floranne Boulogne, Laura R. Claus, Henry H. Wiersma, Roy Oelen, Floor Schukking, Niek de Klein, +15 more
2citations -
Identification of a PRDM1-regulated T cell network to regulate T cell driving plaque inflammation in human and mouse atherosclerosis2022 European Heart Journal article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access
Han Young Jin, Chang Wei Lu, Jan Nagenborg, Joël Karel, Rachel Cavill, Cornelis J. J. M. Sikkink, +7 more
0citations -
The Wild Sugarcane and Sorghum Kinomes: Insights Into Expansion, Diversification, and Expression Patterns2021 Frontiers in Plant Science article Agricultural and Biological Sciences Chromosomal and Genetic Variations Open access
Alexandre Hild Aono, Ricardo José Gonzaga Pimenta, Ana Letycia Basso Garcia, Fernando Henrique Correr, Guilherme Kenichi Hosaka, Marishani Marin Carrasco, +13 more
35citations -
Gene coexpression patterns predict opiate-induced brain-state transitions2020 Proceedings of the National Academy of Sciences article Neuroscience Neurotransmitter Receptor Influence on Behavior Open access
Julia K. Brynildsen, Kyla D. Mace, Eli J. Cornblath, Carmen Weidler, Fabio Pasqualetti, Danielle S. Bassett, +1 more
41citations -
FUNCTIONAL GENOMICS HIGHLIGHTS ROLE FOR OSTEOARTHRITIS SUSCEPTIBILITY GENE WWP2 IN CARTILAGE MATRIX DEPOSITION2022 Osteoarthritis and Cartilage article Medicine Osteoarthritis Treatment and Mechanisms Open access
Margo Tuerlings, Geertje J. Janssen, Marcella van Hoolwerff, Alejandro Rodríguez Ruiz, Evelyn Houtman, H. Eka D. Suchiman, +6 more
1citations -
Identifying multiscale translational safety biomarkers using a network-based systems approach2023 iScience article Pharmacology, Toxicology and Pharmaceutics Drug-Induced Hepatotoxicity and Protection Open access
Giulia Callegaro, Johannes P. Schimming, Janet Piñero, Steven J. Kunnen, Lukas S. Wijaya, Panuwat Trairatphisan, +7 more
14citations -
Network-based approach identified distinct pathways between lesioned and preserved articular cartilage transcriptome2020 Osteoarthritis and Cartilage article Medicine Osteoarthritis Treatment and Mechanisms Open access
Rodrigo Coutinho de Almeida, Olga Veth, Ahmed Essam Mahfouz, Hailiang Mei, Rob G. H. H. Nelissen, Y.F. Ramos, +2 more
0citations -
Temporal modulation of gene expression in a controlled Schistosoma mansoni human infection model2025 Frontiers in Immunology article Immunology and Microbiology Parasites and Host Interactions Open access
Dawei Li, Chuan Jiang, Emma L. Houlder, Koen A. Stam, Jan Pieter R. Koopman, Marijke C. C. Langenberg, +16 more
1citations -
The sugarcane and sorghum kinomes: insights into evolutionary expansion and diversification2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Agricultural and Biological Sciences Chromosomal and Genetic Variations Open access
Alexandre Hild Aono, Ricardo José Gonzaga Pimenta, Ana Letycia Basso Garcia, Fernando Henrique Correr, Guilherme Kenichi Hosaka, Marishani Marin Carrasco, +13 more
0citations -
Temporal transcriptome analysis of the endothelial response to tumour necrosis factor2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Immunology and Microbiology interferon and immune responses Open access
EC Struck, Tatiana Belova, Ping‐Han Hsieh, Jacob Odeberg, Marieke L. Kuijjer, Philip Dusart, +1 more
0citations -
Identification of CD8+ T cell PRDM1 in high-risk human plaques and its regulatory role in murine lesion development2022 Cardiovascular Research article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access
Han Young Jin, Chang Wei Lu, Jan Nagenborg, Marco Manca, Joël Karel, Rachel Cavill, +7 more
0citations -
Understanding functional consequences of type 2 diabetes risk loci using the universal data integration and visualization R package CONQUER2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Genetic Associations and Epidemiology Open access
Gerard A. Bouland, Joline W. J. Beulens, Joey Nap, Arno R. van der Slik, Arnaud Zaldumbide, Leen M. ‘t Hart, +1 more
1citations