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P22-09: Application of Weighted Gene Co-expression Network Analysis as Mode of Action Screening Method for Suspected Non-Genotoxic Carcinogens Inducing Oxidative Stress2023 Toxicology Letters article Biochemistry, Genetics and Molecular Biology Carcinogens and Genotoxicity Assessment
Christina H. J. Veltman, Jeroen L. A. Pennings, Marije Niemeijer, B. Islam, Emiel Rorije, Marco J. Zeilmaker, +4 more
0citations -
The human hepatocyte TXG-MAPr: gene co-expression network modules to support mechanism-based risk assessment2021 Archives of Toxicology article Pharmacology, Toxicology and Pharmaceutics Drug-Induced Hepatotoxicity and Protection Open access
Giulia Callegaro, Steven J. Kunnen, Panuwat Trairatphisan, Solène Grosdidier, Marije Niemeijer, Wouter den Hollander, +9 more
43citations -
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 -
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 -
Additional file 3 of Whole blood co-expression modules associate with metabolic traits and type 2 diabetes: an IMI-DIRECT study2020 Figshare dataset Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Valborg Guðmundsdóttir, Helle Pedersen, Gianluca Mazzoni, Kristine Højgaard Allin, Anna Artati, Joline W. J. Beulens, +49 more
0citations -
Co-expression patterns of microglia markers Iba1, TMEM119 and P2RY12 in Alzheimer's disease2022 Neurobiology of Disease article Neuroscience Neuroinflammation and Neurodegeneration Mechanisms Open access
Boyd Kenkhuis, Antonios Somarakis, Lynn R.T. Kleindouwel, Willeke van Roon‐Mom, Thomas Höllt, Louise van der Weerd
190citations -
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 -
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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Enhanced accumulation of oil through co-expression of fatty acid and ABC transporters in Chlamydomonas under standard growth conditions2022 Biotechnology for Biofuels and Bioproducts article Biochemistry, Genetics and Molecular Biology Lipid metabolism and biosynthesis Open access cited by 1 patent
Ru Chen, Miao Yang, Mengjie Li, Hao Zhang, Lu Han, Shiqi Feng, +4 more
34citations -
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 -
Production of the High Value Pharmaceutical Target, Human Granulocyte‐Colony Stimulating Factor, in Nicotiana benthamiana Is Improved by Co‐Expression of the Transcriptional Regulator of the Unfolded Protein Response, bZIP602026 Plant Biotechnology Journal article Biochemistry, Genetics and Molecular Biology Transgenic Plants and Applications Open access
Nazgül Wagner, Konstantin Musiychuk, Stephen Tottey, Jukka Kervinen, Stephen J. Streatfield, Rainer Fischer, +1 more
0citations -
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 -
Lipocalin-2 regulates the expression of interferon-stimulated genes and the susceptibility of prostate cancer cells to oncolytic virus infection2023 European Journal of Cell Biology article Immunology and Microbiology interferon and immune responses Open access
Lilach Barer, Sarah K. Schröder, Ralf Weiskirchen, Eran Bacharach, Marcelo Ehrlich
12citations -
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 -
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 -
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 -
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