Beyond modules and hubs: the potential of gene coexpression networks for investigating molecular mechanisms of complex brain disorders

Gaiteri, C., Ding, Y., French, B., Tseng, G. C., Sibille, E.·2014·Genes, Brain and Behavior

Cited by (290)

Items 101–200 of 290

  1. Blood-based systems biology biomarkers for next-generation clinical trials in Alzheimer’s disease
    Harald Juergen Hampel, Andrea Vergallo, Mohammad Afshar, Leyla Akman-Anderson, Joaquı́n Arenas, Norbert Benda, Richard Batrla, Karl Broich, Filippo Caraci, A. Claudio Cuello et al. · 2019 · Dialogues in Clinical Neuroscience
  2. MetaDCN: meta-analysis framework for differential co-expression network detection with an application in breast cancer
    Li Zhu, Ying Ding, Cho-Yi Chen, Lin Wang, Zhiguang Huo, Sunghwan Kim, Christos P. Sotiriou, Steffi Oesterreich, George C. Tseng · 2016 · Bioinformatics
  3. Genetic Variation of a DRD2 Co-expression Network is Associated with Changes in Prefrontal Function After D2 Receptors Stimulation
    Pierluigi Selvaggi, Giulio Pergola, Barbara Gelao, Pasquale Di Carlo, Maria Antonietta Nettis, Graziella Amico, Leonardo Fazio, Antonio Rampino, Fabio Sambataro, Giuseppe Blasi et al. · 2018 · Cerebral Cortex
  4. Suicide and suicide behaviors: A review of transcriptomics and multiomics studies in psychiatric disorders
    Yi Zhou, P. Lutz, E. Ibrahim, P. Courtet, E. Tzavara, G. Turecki, R. Belzeaux · 2020 · Journal of Neuroscience Research
  5. Amygdala 5-HTT Gene Network Moderates the Effects of Postnatal Adversity on Attention Problems: Anatomo-Functional Correlation and Epigenetic Changes
    Randriely Merscher Sobreira de Lima, Bárbara Barth, Danusa Mar Arcego, Euclides José de Mendonça Filho, Andrew S. Clappison, Sachin H Patel, Zihan Wang, Irina Pokhvisneva, Roberto B. Sassi, Geoffrey B. Hall et al. · 2020 · Frontiers in Neuroscience
  6. Lessons Learned From Parsing Genetic Risk for Schizophrenia Into Biological Pathways
    Giulio Pergola, Nora Penzel, Leonardo Sportelli, Alessandro Bertolino · 2022 · Biological Psychiatry
  7. The use of mass spectrometry in a proteome‐centered multiomics study of human pituitary adenomas
    Na Li, Dominic M. Desiderio, Xianquan Zhan · 2021 · Mass Spectrometry Reviews
  8. Leptin receptor co-expression gene network moderates the effect of early life adversity on eating behavior in children
    Randriely Merscher Sobreira de Lima, Bárbara Barth, Danusa Mar Arcego, Euclides José de Mendonça Filho, Sachin H Patel, Zihan Wang, Irina Pokhvisneva, Carine I. Parent, Robert D. Levitan, Michael Steffen Kobor et al. · 2022 · Communications Biology
  9. Modular transcriptional repertoire and MicroRNA target analyses characterize genomic dysregulation in the thymus of Down syndrome infants
    Carlos Alberto Moreira‐Filho, Sílvia Yumi Bando, Fernanda Bernardi Bertonha, Filipi N. Silva, Luciano da Fontoura Costa, Leandro Ferreira, Gláucio Furlanetto, Paulo Chaccur, Maria Cláudia Nogueira Zerbini, Magda Maria Sales Carneiro-Sampaio · 2016 · Oncotarget
  10. Minipuberty and Sexual Dimorphism in the Infant Human Thymus
    Carlos Alberto Moreira‐Filho, Sílvia Yumi Bando, Fernanda Bernardi Bertonha, Leandro Ferreira, Christiana de Freitas Vinhas, Lucila Habib Bourguignon Oliveira, Maria Cláudia Nogueira Zerbini, Gláucio Furlanetto, Paulo Chaccur, Magda Maria Sales Carneiro-Sampaio · 2018 · Scientific Reports
  11. brain-coX: investigating and visualising gene co-expression in seven human brain transcriptomic datasets
    Saskia Freytag, Rosemary Burgess, Karen L. Oliver, Melanie Bahlo · 2017 · Genome Medicine
  12. Cognitive Development and Brain Gray Matter Susceptibility to Prenatal Adversities: Moderation by the Prefrontal Cortex Brain-Derived Neurotrophic Factor Gene Co-expression Network
    Euclides José de Mendonça Filho, Bárbara Barth, Denise Ruschel Bandeira, Randriely Merscher Sobreira de Lima, Danusa Mar Arcego, Carla Dalmaz, Irina Pokhvisneva, Roberto B. Sassi, Geoffrey B. Hall, Michael Joseph Meaney et al. · 2021 · Frontiers in Neuroscience
  13. Identification of Key Modules and Genes Associated with Major Depressive Disorder in Adolescents
    Bao Zhao, Qingyue Fan, Jintong Liu, Aihua Yin, Pingping Wang, Wenxin Zhang · 2022 · Genes
  14. Identification of major candidate genes for multiple abiotic stress tolerance at seedling stage by network analysis and their validation by expression profiling in rice (Oryza sativa L.)
    M. K. Ramkumar, Ekta Mulani, Vasudha Jadon, V. Sureshkumar, S. Gopala Krishnan, Shivendra Kumar, M. Raveendran, ASHOK KUMAR SINGH, Amolkumar Uddhaorao Solanke, Nagendra Kumar Singh et al. · 2022 · 3 Biotech
  15. Identifying dense subgraphs in protein–protein interaction network for gene selection from microarray data
    Tripti Swarnkar, Sérgio Nery Simões, Anji Anura, Helena Brentani, Jyotirmoy Chatterjee, Ronaldo F. Hashimoto, David Martins, Pabitra Mitra · 2015 · Network Modeling Analysis in Health Informatics and Bioinformatics
  16. Progress and prospects of glucosinolate pathogen resistance in some brassica plants
    Ejiroghene Ruona Evivie, Matthew Chidozie Ogwu, Wei Cang, Rui Xu, Jing Li · 2019 · Journal of Applied and Natural Science
  17. Predicted COVID-19 molecular effects on endometrium reveal key dysregulated genes and functions
    Ismael Henarejos-Castillo, Almudena Devesa-Peiró, Lucía de Miguel–Gómez, Patricia Sebastián-León, Mónica Romeu, Alejandro Alemán, C Molina-Gil, António Pellicer, Irene Cervelló, Patricia Díaz-Gimeno · 2022 · Molecular Human Reproduction
  18. Systems biology and gene networks in Alzheimer’s disease
    Zuo-Teng Wang, Chen‐Chen Tan, Lan Tan, Jin‐Tai Yu · 2018 · Neuroscience & Biobehavioral Reviews
  19. Spatial transcriptomic analysis of the mouse brain following chronic social defeat stress
    Ting Wang, Zhihong Song, Xin Zhao, Yan Wu, Liying Wu, Abbas Haghparast, Haitao Wu · 2023 · Exploration
  20. Weighted Gene Coexpression Network Analysis Identifies Specific Modules and Hub Genes Related to Major Depression
    Guangyin Zhang, Shixin Xu, Zhuo Yuan, Li Shen · 2020 · Neuropsychiatric Disease and Treatment
  21. Rootstock influences the effect of grapevine leafroll‐associated viruses on berry development and metabolism via abscisic acid signalling
    Amanda M. Vondras, Larry Lerno, Mélanie Massonnet, Andrea Minio, Adib Rowhani, Dingren Liang, Jadran F. García, Daniela Quiroz, Rosa Elia Figueroa-Balderas, Deborah Golino et al. · 2021 · Molecular Plant Pathology
  22. Genomic modules and intramodular network concordance in susceptible and resilient male mice across models of stress
    Salvatore G. Caradonna, Tieyuan Zhang, Nicholas O’Toole, Mojun Shen, Huzefa Khalil, Nathan R. Einhorn, Xianglan Wen, Carine I. Parent, Francis S. Lee, Huda Akil et al. · 2021 · Neuropsychopharmacology
  23. Antidepressant-like effects of Rehmannioside A on rats induced by chronic unpredictable mild stress through inhibition of endoplasmic reticulum stress and apoptosis of hippocampus.
    Mei Yuan, Bozhi Yuan · 2022 · Journal of Chemical Neuroanatomy
  24. Gene communities in co-expression networks across different tissues
    Madison Russell, Alber Aqil, Marie Saitou, Ömer Gökçümen, Naoki Masuda · 2023 · PLoS Computational Biology
  25. Integration across biophysical scales identifies molecular and cellular correlates of person-to-person variability in human brain connectivity
    Bernard Ng, Shinya Tasaki, Kelsey M. Greathouse, Courtney K. Walker, Ada Zhang, Sydney C. Covitz, Matthew Cieslak, Audrey J. Weber, Ashley B. Adamson, Julia P. Andrade et al. · 2024 · Nature Neuroscience
  26. Gene expression and DNA methylation are extensively coordinated with MRI-based brain microstructural characteristics
    Chris Gaiteri, Robert J. Dawe, Sara Mostafavi, Katherine D. Blizinsky, Shinya Tasaki, Vitalina Komashko, Lei Yu, Yanling Wang, Julie A. Schneider, Konstantinos Arfanakis et al. · 2018 · Brain Imaging and Behavior
  27. Single Cell Transcriptome of Stress Vulnerability Network in mouse Prefrontal Cortex
    Benjamin Wen Qing Hing, Sara Berman Mitchell, Yassine Filali, Maureen Eberle, Ian Hultman, Molly Matkovich, Mukundan Kasturirangan, Micah Johnson, Whitney Wyche, Alli Jimenez et al. · 2023 · Biological Psychiatry
  28. A Systematic Review of Genetics- and Molecular-Pathway-Based Machine Learning Models for Neurological Disorder Diagnosis
    Nasser Ali Aljarallah, Ashit Kumar Dutta, Abdul Rahaman Wahab Sait · 2024 · International Journal of Molecular Sciences
  29. Control of seminal fluid protein expression via regulatory hubs in Drosophila melanogaster
    Irina I Mohorianu, Emily K. Fowler, Tamás Dalmay, Tracey Chapman · 2018 · Proceedings of the Royal Society B Biological Sciences
  30. Brain IGFBP-5 modifies the relation of depressive symptoms to decline in cognition in older persons
    Ana Werneck Capuano, Robert Smith Wilson, William G. Honer, Vladislav Petyuk, Sue E. Leurgans, Lei Yu, Jennifer R. Gatchel, Steven Edward Arnold, David Alan Bennett, Zoe Arvanitakis · 2019 · Journal of Affective Disorders
  31. Interaction between MyD88, TIRAP and IL1RL1 against Helicobacter pylori infection
    Andrea Fulgione, Marina Papaianni, Paola Cuomo, Debora Paris, Marco Romano, Concetta Tuccillo, Letizia Palomba, Chiara Medaglia, Massimiliano De Seta, Nicolino Esposito et al. · 2020 · Scientific Reports
  32. Co-Expression Networks Unveiled Long Non-Coding RNAs as Molecular Targets of Drugs Used to Treat Bipolar Disorder
    Trang T. T. Truong, Chiara C. Bortolasci, Briana Spolding, Bruna Panizzutti, Zoe Shih-Jung Liu, Srisaiyini Kidnapillai, Mark F. Richardson, Laura J. Gray, Craig M. Smith, Olivia May Dean et al. · 2022 · Frontiers in Pharmacology
  33. Non-linear interactions between candidate genes of myocardial infarction revealed in mRNA expression profiles
    Katherine Hartmann, Michał T. Seweryn, S Handleman, Grzegorz A. Rempała, Wolfgang Sadée · 2016 · BMC Genomics
  34. The interaction between cannabis use and a CB1-related polygenic co-expression index modulates dorsolateral prefrontal activity during working memory processing
    Paolo Taurisano, Giulio Pergola, Anna Monda, Linda Antonella Antonucci, Pasquale Di Carlo, Francesco Maria Piarulli, Roberta Passiatore, Marco Papalino, Raffaella Romano, Alfonso Monaco et al. · 2020 · Brain Imaging and Behavior
  35. RegEnrich gene regulator enrichment analysis reveals a key role of the ETS transcription factor family in interferon signaling
    Weiyang Tao, Timothy R. D. J. Radstake, Aridaman Pandit · 2022 · Communications Biology
  36. Temporal analysis of hippocampal CA3 gene coexpression networks in a rat model of febrile seizures
    Hatylas F. Z de Azevedo, Nathália Amato Khaled, Paula Santos, Fernanda Bernardi Bertonha, Carlos Alberto Moreira‐Filho · 2018 · Disease Models & Mechanisms
  37. Identification of critical TF-miRNA-mRNA regulation loops for colorectal cancer metastasis
    C. Wang, Dongzhi Hu, J.Z. Liu · 2015 · Genetics and Molecular Research
  38. Resilient protein co-expression network in male orbitofrontal cortex layer 2/3 during human aging
    Mohan Pabba, Enzo Scifo, Fenika Kapadia, Yuliya S. Nikolova, Tianzhou Ma, Naguib Mechawar, George C. Tseng, Etienne L. Sibille · 2017 · Neurobiology of Aging
  39. Adolescent Social Isolation Reprograms the Medial Amygdala: Transcriptome and Sex Differences in Reward
    Deena M. Walker, Xianxiao Zhou, Aarthi Ramakrishnan, Hannah M. Cates, Ashley M. Cunningham, Catherine J. Peña, Rosemary C. Bagot, Orna Issler, Yentl Y. van der Zee, Andrew P. Lipschultz et al. · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
  40. Gene expression profiles in sporadic ALS fibroblasts define disease subtypes and the metabolic effects of the investigational drug EH301
    Jasmine A. Fels, Gabriella Casalena, Csaba Konràd, Holly E. Holmes, Ryan W. Dellinger, Giovanni Manfredi · 2022 · Human Molecular Genetics
  41. A polygenic score indexing a DRD2-related co-expression network is associated with striatal dopamine function
    Enrico D’Ambrosio, Giulio Pergola, Antonio F. Pardiñas, Tarik Dahoun, Mattia Veronese, Leonardo Sportelli, Paolo Taurisano, Kira Griffiths, Sameer Jauhar, Maria Rogdaki et al. · 2022 · Scientific Reports
  42. Increased expression of BDNF mRNA in the frontal cortex of autistic patients
    Gilles Maussion, Jean‐Marie Moalic, Michel Simonneau, Philip A. P. M. Gorwood, Nicolás Ramoz · 2018 · Behavioural Brain Research
  43. Weighted gene co-expression network analysis identifies specific modules and hub genes related to subsyndromal symptomatic depression
    Ruijie Geng, Zezhi Li, Shunying Yu, Chengmei Yuan, Wu Hong, Zuowei Wang, Qingzhong Wang, Zhenghui Yi, Yiru Fang · 2018 · The World Journal of Biological Psychiatry
  44. The Interplay Between Dopamine and Environment as the Biological Basis for the Early Origins of Mental Health
    Barth, Barbara, Portella, André K., Dubé, Laurette, Meaney, Michael J., Silveira, Patricia Pelufo · 2019 · Healthy Ageing and Longevity
  45. Inference of differential key regulatory networks and mechanistic drug repurposing candidates from scRNA-seq data with SCANet
    Mhaned Oubounyt, Lorenz Adlung, Fábio Malta de Sá Patroni, Nina Kerstin Wenke, Andreas Maier, Michael Hartung, Jan Baumbach, Maria L. Elkjaer · 2023 · Bioinformatics
  46. Decoding the transcriptional programs activated by psychotropic drugs in the brain
    Magdalena Zygmunt, Marcin Piechota, Jan M. Rodriguez Parkitna, Michał Korostyński · 2018 · Genes Brain & Behavior
  47. Network motifs modulate druggability of cellular targets
    Fan Wu, Cong Ma, Cheemeng Tan · 2016 · Scientific Reports
  48. LoTo : a graphlet based method for the comparison of local topology between gene regulatory networks
    Alberto J. M. Martín, Sebastián Contreras-Riquelme, Calixto Domínguez, Tomás Pérez‐Acle · 2017 · PeerJ
  49. Small-World Brain Networks Revisited
    Danielle S. Bassett, Edward Thomas Bullmore · 2016 · arXiv (Cornell University)
  50. Altered Pathway Analyzer: A gene expression dataset analysis tool for identification and prioritization of differentially regulated and network rewired pathways
    Abhinav Kaushik, Shakir Ali, Dinesh Kumar Gupta · 2017 · Scientific Reports
  51. Identifying stress responsive genes using overlapping communities in co-expression networks
    Camila Riccio‐Rengifo, Jorge Finke, Camilo Rocha · 2021 · BMC Bioinformatics
  52. Gene Network Rewiring to Study Melanoma Stage Progression and Elements Essential for Driving Melanoma
    Abhinav Kaushik, Yashuma Bhatia, Shakir Ali, Dinesh Kumar Gupta · 2015 · PLoS ONE
  53. Identification of major depressive disorder disease-related genes and functional pathways based on system dynamic changes of network connectivity
    Ruijie Geng, Xiao Huang · 2021 · BMC Medical Genomics
  54. Hippocampal CA3 transcriptional modules associated with granule cell alterations and cognitive impairment in refractory mesial temporal lobe epilepsy patients
    Sílvia Yumi Bando, Fernanda Bernardi Bertonha, Luciana Ramalho Pimentel‐Silva, João Gabriel Mansano de Oliveira, Marco Antonio Duarte Carneiro, Mariana Hiromi Manoel Oku, Wen Hung Tzu, Luiz Henrique Martins Castro, Carlos Alberto Moreira‐Filho · 2021 · Scientific Reports
  55. Identification of Potential Cytokinin Responsive Key Genes in Rice Treated With Trans-Zeatin Through Systems Biology Approach
    Dwijesh Chandra Mishra, Devender Arora, Neeraj Budhlakoti, Amolkumar Uddhaorao Solanke, Sivaraj Mithra, Anuj Kumar, Priyanka Pandey, Sudhir Srivastava, Sanjeev Kumar, Mohammad Samir Farooqi et al. · 2022 · Frontiers in Genetics
  56. Predicting functions of uncharacterized gene products from microbial communities
    Yancong Zhang, Amrisha Bhosle, Sena Bae, Kelly B. Eckenrode, Xueying Huang, Jingjing Tang, Danylo O. Lavrentovich, Lana Awad, Hua Ji, Ya Wang et al. · 2025 · Nature Biotechnology
  57. Co-expression of fibrotic genes in inflammatory bowel disease; A localized event?
    Nikolas Dovrolis, Eirini Filidou, Gesthimani Tarapatzi, Georgios Kokkotis, Michail Spathakis, Leonidas Kandilogiannakis, Ioannis Drygiannakis, Vassilis Valatas, Konstantinos I. Arvanitidis, Ioannis Karakasiliοtis et al. · 2022 · Frontiers in Immunology
  58. Investigating HMGB1 as a potential serum biomarker for early diabetic nephropathy monitoring by quantitative proteomics
    Rui Peng, Siyang Zuo, Xia Li, Yun Huang, Siyu Chen, Xue Zou, Hehua Long, Min Chen, Yuan Yang, Huixiong Yuan et al. · 2024 · iScience
  59. Transcriptional response to an alternative diet on liver, muscle, and rumen of beef cattle
    Anna Carolina Fernandes, Antônio Reverter, Kate A. Keogh, Pâmela A. Alexandre, Juliana Afonso, Júlio César Pascale Palhares, Tainã Figueiredo Cardoso, Jéssica Moraes Malheiros, Jennifer Jéssica Bruscadin, Priscila Silva Neubern de Oliveira et al. · 2024 · Scientific Reports
  60. Expression of Calcification and Extracellular Matrix Genes in the Cardiovascular System of the Healthy Domestic Sheep (Ovis aries)
    Hiu‐Gwen Tsang, Emily L. Clark, Greg Robert Markby, Stephen J. Bush, David Arthur Hume, BRENDAN M. CORCORAN, Vicky Elizabeth MacRae, KIM M. SUMMERS · 2020 · Frontiers in Genetics
  61. Differential Connectivity in Colorectal Cancer Gene Expression Network
    Fereshteh Izadi · 2018 · Iranian Biomedical Journal
  62. Identification of Novel Analgesics Through a Drug Repurposing Strategy
    Parisa Gazerani · 2019 · Pain Management
  63. Weighted gene co-expression analysis for identification of key genes regulating heat stress in wheat
    Dwijesh Chandra Mishra, Devender Arora, Ranjeet Ranjan Kumar, Suneha Goswami, Shivangi Varshney, Neeraj Budhlakoti, Sanjeev Kumar, Krishna Kumar Chaturvedi, Anu Sharma, Viswanathan Chinnusamy et al. · 2020 · Cereal Research Communications
  64. Lower Levels of GABAergic Function Markers in Corticotropin-Releasing Hormone-Expressing Neurons in the sgACC of Human Subjects With Depression
    Hyunjung Oh, Dwight F. Newton, David A. Lewis, Etienne L. Sibille · 2022 · Frontiers in Psychiatry
  65. 3D IntelliGenes: AI/ML application using multi-omics data for biomarker discovery and disease prediction with multi-dimensional visualization
    Rishabh Narayanan, Elizabeth Peker, William DeGroat, Dinesh Mendhe, Saman Zeeshan, Zeeshan Ahmed · 2025 · BMC Medical Research Methodology
  66. Circuit-wide proteomics profiling reveals brain region-specific protein signatures in the male WKY rats with endogenous depression
    Jiangfeng Liao, Xue Mi, Guirong Zeng, Yuanxiang Wei, Xiaoman Dai, Qinyong Ye, Xiaochun Chen, Jing Zhang · 2022 · Journal of Affective Disorders
  67. Identification of a TSPY co-expression network associated with DNA hypomethylation and tumor gene expression in somatic cancers
    Tatsuo Kido, Yun‐Fai Chris Lau · 2016 · Journal of genetics and genomics/Journal of Genetics and Genomics
  68. mRNA Signatures in Peripheral White Blood Cells Predict Reproductive Potential in Beef Heifers at Weaning
    Priyanka Banerjee, Wellison J. S. Diniz, Rachel Hollingsworth, Soren P P Rodning, Paul William Dyce · 2023 · Genes
  69. WGCNA combined with GSVA to explore biomarkers of refractory neocortical epilepsy
    Rui Zhang, Yan Chen, Jia He, Hai-yan Gou, Yu-lan Zhu, Yan-mei Zhu · 2022 · IBRO Neuroscience Reports
  70. Gene Network Construction from Microarray Data Identifies a Key Network Module and Several Candidate Hub Genes in Age-Associated Spatial Learning Impairment
    Raihan Uddin, Shiva M. Singh · 2017 · Frontiers in Systems Neuroscience
  71. Paternal starvation affects metabolic gene expression during zebrafish offspring development and lifelong fitness
    Ada Jiménez-González, Federico Ansaloni, Constance Nebendahl, Ghazal Alavioon, David S. Murray, Weronika Robak, Remo Sanges, Ferenc Müller, Simone Immler · 2024 · Molecular Ecology
  72. In Vivo and In Vitro Neuronal Plasticity Modulation by Epigenetic Regulators
    Melisa Carolina Monteleone, María Eugenia Pallarés, Silvia C. Billi, Marta Cristina Antonelli, Marcela Adriana Brocco · 2018 · Journal of Molecular Neuroscience
  73. Multivariate transcriptome analysis identifies networks and key drivers of chronic lymphocytic leukemia relapse risk and patient survival
    Ti’ara L. Griffen, Eric B. Dammer, Courtney Denise Dill, Kaylin Carey, Corey D. Young, Sha’Kayla K. Nunez, Adaugo Q. Ohandjo, Steven Mitchell Kornblau, James W. Lillard · 2021 · BMC Medical Genomics
  74. Genome wide analysis implicates upregulation of proteasome pathway in major depressive disorder
    Shaked Belaish, Ifat Israel‐Elgali, Guy Shapira, Israel Krieger, Aviv Segev, Uri Nitzan, Michaël Majer, Yuval Bloch, Abraham Weizman, David Gurwitz et al. · 2021 · Translational Psychiatry
  75. Sex differences in gene regulatory networks during mid-gestational brain development
    Victor Hugo Calegari de Toledo, Arthur Sant’Anna Feltrin, Amilton de Lima Barbosa, Ana Carolina Tahira, Helena Brentani · 2022 · Frontiers in Human Neuroscience
  76. Machine Learning-Based Co-Expression Network Analysis Unravels Potential Fertility-Related Genes in Beef Cows
    Wellison J. S. Diniz, Priyanka Banerjee, Soren P P Rodning, Paul William Dyce · 2022 · Animals
  77. A spectral framework to map QTLs affecting joint differential networks of gene co-expression
    Jiaxin Hu, Jesse N. Weber, Lauren E. Fuess, Natalie C. Steinel, Daniel I. Bolnick, Miaoyan Wang · 2025 · PLoS Computational Biology
  78. Using “-omics” Data to Inform Genome-wide Association Studies (GWASs) in the Osteoporosis Field
    Abdullah Abood, Charles R. Farber · 2021 · Current Osteoporosis Reports
  79. Integrative analysis identifies region- and sex-specific gene networks and Mef2c as a mediator of anxiety-like behavior
    Yizhou Hong, Jiameng Hu, Shiya Zhang, Jiaxin Liu, Fangrong Yan, Hua Yang, Hai Hu · 2024 · Cell Reports
  80. A Systems Approach Implicates a Brain Mitochondrial Oxidative Homeostasis Co-expression Network in Genetic Vulnerability to Alcohol Withdrawal
    Nicole A. R. Walter, Deaunne L. Denmark, Laura B. Kozell, Kari Johnson Buck · 2017 · Frontiers in Genetics
  81. GeNET: a web application to explore and share Gene Co-expression Network Analysis data
    Amit P. Desai, Mehdi Razeghin, Oscar Meruvia-Pastor, Lourdes Peña‐Castillo · 2017 · PeerJ
  82. Whole Transcriptome Sequencing Analyses Reveal Molecular Markers of Blood Pressure Response to Thiazide Diuretics
    Ana Caroline C. Sá, Amy Webb, Yan Gong, Caitrin W. McDonough, Somnath Datta, Taimour Yousef Langaee, Stephen T. Turner, Amber L. Beitelshees, Arlene B. Chapman, Eric Boerwinkle et al. · 2017 · Scientific Reports
  83. Weighted Gene Co-expression Network Analysis Identifies Functional Modules Associated with Multiple Abiotic Stressors in Cotton (Gossypium hirsutum L.)
    Rasmieh Hamid, Amir Ghaffar Shahriari, Bahman Panahi · 2025 · Journal of Plant Growth Regulation
  84. Cheminformatics and Bioinformatics at the Interface with Systems Biology
    Aman Chandra Kaushik, Aamir Mehmood, Dong‐Qing Wei, Sadia Nawab, Shakti Sahi, Ajay Kumar · 2023 · Royal Society of Chemistry eBooks
  85. Integrated regulatory models for inference of subtype‐specific susceptibilities in glioblastoma
    Yunpeng Liu, Ning Shi, Aviv Regev, Shan He, Michael T. Hemann · 2020 · Molecular Systems Biology
  86. Aging at Evolutionary Crossroads: Longitudinal Gene Co-expression Network Analyses of Proximal and Ultimate Causes of Aging in Bats
    Guillaume Bernard, Jérôme Teulière, Philippe Lopez, Eduardo Corel, François‐Joseph Lapointe, Eric P Bapteste · 2021 · Molecular Biology and Evolution
  87. Robust, scalable, and informative clustering for diverse biological networks
    Chris Gaiteri, David R. Connell, Faraz A. Sultan, Artemis Iatrou, Bernard Ng, Boleslaw Karol Szymanski, Ada Zhang, Shinya Tasaki · 2023 · Genome biology
  88. Discover mouse gene coexpression landscapes using dictionary learning and sparse coding
    Yujie Li, Hanbo Chen, Xi Jiang, Xiang Li, Jinglei Lv, Hanchuan Peng, Joe Z. Tsien, Tianming Liu · 2017 · Brain Structure and Function
  89. Dynamic changes in immune gene co-expression networks predict development of type 1 diabetes
    Ingrid Brænne, Suna Önengüt-Gümüşcü, Ruoxi Chen, Ani W Manichaikul, Stephen S. Rich, Wei‐Min Chen, Charles R. Farber, the TEDDY Study Group, Marian Rewers, Aaron Barbour et al. · 2021 · Scientific Reports
  90. Exploring Potential Biomarkers Underlying Pathogenesis of Alzheimer's Disease by Differential Co-expression Analysis.
    Fereshteh Izadi, Mohammad Hasan Soheilifar · 2018 · Europe PMC (PubMed Central)
  91. RegEnrich: An R package for gene regulator enrichment analysis reveals key role of ETS transcription factor family in interferon signaling
    Weiyang Tao, Timothy R. D. J. Radstake, Aridaman Pandit · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
  92. Computational Ensemble Gene Co-Expression Networks for the Analysis of Cancer Biomarkers
    Julia Figueroa-Martínez, Dulcenombre M. Saz-Navarro, Aurelio López López, Domingo S. Rodríguez–Baena, Francisco Gómez-Vela · 2024 · Informatics
  93. How a territorial challenge changes sex steroid-related gene networks in the female brain: A field experiment with the tree swallow
    Elizabeth George, Kimberly A. Rosvall · 2025 · Hormones and Behavior
  94. Multivariant Transcriptome Analysis Identifies Modules and Hub Genes Associated with Poor Outcomes in Newly Diagnosed Multiple Myeloma Patients
    Olayinka Omoyitola Adebayo, Eric B. Dammer, Courtney Denise Dill, Adeyinka O. Adebayo, Saheed Oluwasina Oseni, Ti’ara L. Griffen, Adaugo Q. Ohandjo, Fengxia Yan, Sanjay R. Jain, Benjamin G. Barwick et al. · 2022 · Cancers
  95. Estimating Cell-Type-Specific Gene Co-Expression Networks from Bulk Gene Expression Data with an Application to Alzheimer’s Disease
    Chang Su, Jingfei Zhang, Hongyu Zhao · 2023 · Journal of the American Statistical Association
  96. Modular reorganization of the global network of gene regulatory interactions during perinatal human brain development
    Jimena Monzón‐Sandoval, Atahualpa Castillo-Morales, Araxi O. Urrutia, Humberto Gutiérrez · 2016 · BMC Developmental Biology
  97. Methods for Gene Co-expression Network Visualization and Analysis
    Carlos Alberto Moreira‐Filho, Sílvia Yumi Bando, Fernanda Bernardi Bertonha, Filipi N. Silva, Luciano da Fontoura Costa · 2022 · Springer eBooks
  98. Exposure to early-life stress uncovers shared biological signatures underlying vulnerability in the habenula and insular cortex of male and female adult rats
    Valentina Zonca, Moira Marizzoni, Samantha Saleri, Monica Mazzelli, Giulia Petrillo, Maria Grazia Di Benedetto, Floriana De Cillis, Marco Andrea Riva, Annamaria Cattaneo · 2025 · Neurobiology of Stress
  99. Integrated systems biology reveals an 8-gene signature predicting early-stage lung adenocarcinoma progression and patient survival
    Corey D. Young, Kaylin Carey, Courtney Denise Dill, Sha’Kayla K. Nunez, Ti’ara L. Griffen, Eric B. Dammer, James W. Lillard · 2025 · Scientific Reports
  100. Dysconnectivity of the brain functional network and abnormally expressed peripheral transcriptional profiles in patients with anxious depression
    Jinxue Wei, Min Wang, Yikai Dou, Yu Wang, Yue Du, Liansheng Zhao, Rong‐Jun Ni, Xiao Yang, Xiaohong Ma · 2024 · Journal of Psychiatric Research