cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1038/s41598-021-81303-7

Weighted gene co-expression network analysis identifies molecular pathways and hub genes involved in broiler White Striping and Wooden Breast myopathies
Cited by: 19
Author(s): Martina Bordini, Martina Zappaterra, Francesca Soglia, Massimiliano Petracci, Roberta Davoli
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2021.650102

Identification of a MicroRNA Signature Associated With Lymph Node Metastasis in Endometrial Endometrioid Cancer
Cited by: 3
Author(s): Kaiyou Fu, Yanrui Li, Junxian Song, Weixiong Cai, Wei Wu, Xiaohang Ye, Jian Xu
Software Mentions: 1
Published: over 3 years ago

10.1186/s40529-017-0176-8

Microarray meta-analysis to explore abiotic stress-specific gene expression patterns in Arabidopsis
Cited by: 11
Author(s): Po-Chih Shen, Ai-Ling Hour, Liyu Liu
Software Mentions: 1
Published: over 7 years ago

10.3390/genes10040296

Brassica napus Infected with Leptosphaeria maculans
Cited by: 8
Author(s): Jinqi Ma, Lijuan Wei, Lin Ai, Chao Zhang, Wei Sun, Bo Yang, Kun Lu, Jiana Li
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2018.00349

Prioritized High-Confidence Risk Genes for Intellectual Disability Reveal Molecular Convergence During Brain Development
Cited by: 10
Author(s): Zhenwei Liu, Na Zhang, Yu Zhang, Yaoqiang Du, Tao Zhang, Zhongshan Li, Jinyu Wu, Xiaobing Wang
Software Mentions: 1
Published: about 6 years ago

10.1038/s41408-021-00409-3

XPO1 inhibitors represent a novel therapeutic option in Adult T-cell Leukemia, triggering p53-mediated caspase-dependent apoptosis
Cited by: 3
Author(s): Eline Boons, Tatiane C Nogueira, Tim Dierckx, Soraya Maria Menezes, Maarten Jacquemyn, Sharon Tamir, Yosef Landesman, Lourdes Farré, Achiléa Lisboa Bittencourt, Keisuke Kataoka, Seishi Ogawa, Robert Snoeck, Gracíela Andrei, Johan Van Weyenbergh, Dirk Daelemans
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2021.656637

Recovering Spatially-Varying Cell-Specific Gene Co-expression Networks for Single-Cell Spatial Expression Data
Cited by: 0
Author(s): Jianping Yu, Xiangyu Luo
Software Mentions: 1
Published: over 3 years ago

10.1186/s13068-019-1440-9

Omics-based analyses revealed metabolic responses of Clostridium acetobutylicum to lignocellulose-derived inhibitors furfural, formic acid and phenol stress for butanol fermentation
Cited by: 38
Author(s): Bin Liu, Jing Zhang, Jian Yuan, Xiaolong Jiang, Lingyan Jiang, Guang Zhao, Di Huang
Software Mentions: 1
Published: over 5 years ago

10.3389/fnagi.2017.00166

Dissecting the Molecular Mechanisms of Neurodegenerative Diseases through Network Biology
Cited by: 54
Author(s): José A. Santiago, Virginie Bottero, Judith A. Potashkin
Software Mentions: 1
Published: over 7 years ago

10.3389/fonc.2021.603634

A Prognostic Signature Based on Immunogenomic Profiling Offers Guidance for Esophageal Squamous Cell Cancer Treatment
Cited by: 8
Author(s): Jianyao Gao, Ting Tang, Baohui Zhang, Guang Li
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2021.685341

Identification of Regulatory Functions of LncRNAs Associated With T. circumcincta Infection in Adult Sheep
Cited by: 3
Author(s): P. K. Chitneedi, Rosemarie Weikard, Juan José Arranz, María Martínez‐Valladares, Christa Küehn, Beatriz Gutiérrez-Gil
Software Mentions: 1
Published: over 3 years ago

10.3389/fonc.2020.573534

Upregulated Collagen COL10A1 Remodels the Extracellular Matrix and Promotes Malignant Progression in Lung Adenocarcinoma
Cited by: 27
Author(s): Yantao Liang, Wenjie Xia, Te Zhang, Bing Chen, Hui Wang, Xinzhang Song, Zeyu Zhang, Lin Xu, Gaochao Dong, Feng Jiang
Software Mentions: 1
Published: almost 4 years ago

10.3390/ijms21249417

Activation of the Ion Channel TRPV4 Induces Epithelial to Mesenchymal Transition in Breast Cancer Cells
Cited by: 20
Author(s): Iman Azimi, Mélanie Robitaille, Kaela Armitage, Choon Leng So, Michael J. G. Milevskiy, Korinne Northwood, Huai Fang Lim, Erik W. Thompson, Sarah J. Roberts‐Thomson, Gregory R. Monteith
Software Mentions: 1
Published: almost 4 years ago

10.3390/genes10100798

Transcriptional Networks of Microglia in Alzheimer’s Disease and Insights into Pathogenesis
Cited by: 17
Author(s): Gabriel Chew, Enrico Petretto
Software Mentions: 1
Published: about 5 years ago

10.3390/genes10110920

RNA Sequencing Reveals That Both Abiotic and Biotic Stress-Responsive Genes are Induced during Expression of Steroidal Glycoalkaloid in Potato Tuber Subjected to Light Exposure
Cited by: 6
Author(s): Weina Zhang, Cunwu Zuo, Zhongjian Chen, Yichen Kang, Shuhao Qin
Software Mentions: 1
Published: about 5 years ago

10.3389/fonc.2020.01648

Aberrant Chloride Intracellular Channel 4 Expression Is Associated With Adverse Outcome in Cytogenetically Normal Acute Myeloid Leukemia
Cited by: 4
Author(s): Sai Huang, Zhi Huang, Ping Chen, Cong Feng
Software Mentions: 1
Published: about 4 years ago

10.3389/fnagi.2016.00171

A Systems View of the Differences between APOE ε4 Carriers and Non-carriers in Alzheimer’s Disease
Cited by: 12
Author(s): Shan Jiang, Ling Tang, Na Zhao, Wanling Yang, Yu Qiu, Hongzhuan Chen
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-021-85020-z

Systems-wide effects of short-term feed deprivation in obese mice
Cited by: 2
Author(s): Daniel S. Andersen, Henrik Munch Roager, Li Zhang, Janne Marie Moll, Henrik Lauritz Frandsen, Niels Banhos Danneskiold‐Samsøe, Axel Kornerup Hansen, Karsten Kristiansen, Tine Rask Licht, Susanne Brix
Software Mentions: 1
Published: over 3 years ago

10.3390/genes11030315

Grape-RNA: A Database for the Collection, Evaluation, Treatment, and Data Sharing of Grape RNA-Seq Datasets
Cited by: 11
Author(s): Yi Wang, Rui Zhang, Zhenchang Liang, Shaohua Li
Software Mentions: 1
Published: over 4 years ago

10.3390/ijms22010454

RNA-Seq Provides New Insights into the Molecular Events Involved in “Ball-Skin versus Bladder Effect” on Fruit Cracking in Litchi
Cited by: 10
Author(s): Jun Wang, Xuehong Wu, Yong Tang, Jian Guo Li, Ming Zhao
Software Mentions: 1
Published: almost 4 years ago

10.7150/ijbs.51309

CDH1 is Identified as A Therapeutic Target for Skin Regeneration after Mechanical Loading
Cited by: 9
Author(s): Xiaolu Huang, Xiao Liang, Yiwen Zhou, Haizhou Li, Hengyu Du, Yinjun Suo, Wenhui Liu, Rui Jin, Bangda Chai, Ran Duan, Qingfeng Li
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pone.0073413

A Network-Based Method to Assess the Statistical Significance of Mild Co-Regulation Effects
Cited by: 18
Author(s): Emőke-Ágnes Horvát, Jitaovid Da Zhang, Stefan Uhlmann, Özgür Şahin, Katharina Anna Zweig
Software Mentions: 1
Published: about 11 years ago

10.7150/ijbs.59559

Upregulation of ATP Binding Cassette Subfamily C Member 5 facilitates Prostate Cancer progression and Enzalutamide resistance via the CDK1-mediated AR Ser81 Phosphorylation Pathway
Cited by: 7
Author(s): Guangjie Ji, Shiming He, Cong Huang, Yanqing Gong, Xuesong Li, Liqun Zhou
Software Mentions: 1
Published: almost 4 years ago

10.1155/2016/3962761

Differentially Coexpressed Disease Gene Identification Based on Gene Coexpression Network
Cited by: 2
Author(s): Xue Jiang, Han Zhang, Xiongwen Quan
Software Mentions: 1
Published: almost 9 years ago

10.1186/s13046-018-1002-1

Classification of triple-negative breast cancers based on Immunogenomic profiling
Cited by: 274
Author(s): Hanlin Yin, Zhongshan Jiang, Chen Cai, Xiaosheng Wang
Software Mentions: 1
Published: almost 6 years ago

10.3389/fgene.2021.717557

Prediction of Disease Genes Based on Stage-Specific Gene Regulatory Networks in Breast Cancer
Cited by: 2
Author(s): Linzhuo Fan, Jinhong Hou, Guimin Qin
Software Mentions: 1
Published: over 3 years ago

10.3390/genes11080927

Genome-Wide Analysis of the Role of NAC Family in Flower Development and Abiotic Stress Responses in Cleistogenes songorica
Cited by: 10
Author(s): Xifang Zong, Yan Qi, Fan Wu, Qian Ma, Jiyu Zhang
Software Mentions: 1
Published: over 4 years ago

10.3390/genes11080942

Advances in Genomics for Drug Development
Cited by: 18
Author(s): Roberto Spreafico, Leah Soriaga, Johannes Grosse, Herbert W. Virgin, Amalio Telenti
Software Mentions: 1
Published: over 4 years ago

10.3390/ijms21030699

Review—Current Concepts in Inflammatory Skin Diseases Evolved by Transcriptome Analysis: In-Depth Analysis of Atopic Dermatitis and Psoriasis
Cited by: 36
Author(s): Julius Schwingen, Mustafa Kaplan, Florian C. Kurschus
Software Mentions: 1
Published: almost 5 years ago

10.1186/s13068-018-1291-9

De novo transcriptome assembly of the bamboo snout beetle Cyrtotrachelus buqueti reveals ability to degrade lignocellulose of bamboo feedstock
Cited by: 20
Author(s): Chaobing Luo, Yuanqiu Li, Hong Liao, Yaolong Yang
Software Mentions: 1
Published: about 6 years ago

10.1186/s13046-020-01803-8

Hepatitis B virus P protein initiates glycolytic bypass in HBV-related hepatocellular carcinoma via a FOXO3/miRNA-30b-5p/MINPP1 axis
Cited by: 47
Author(s): Wenbiao Chen, Jingjing Jiang, Lan Gong, Zheyue Shu, Da‐Xiong Xiang, Xujun Zhang, Kefan Bi, Hongyan Diao
Software Mentions: 1
Published: almost 4 years ago

10.1186/s13046-020-01782-w

Alcoholic fatty liver disease inhibited the co-expression of Fmo5 and PPARα to activate the NF-κB signaling pathway, thereby reducing liver injury via inducing gut microbiota disturbance
Cited by: 27
Author(s): Ling Kong, Jing Chen, Xiao li Ji, Qian Qin, Hui Yang, Dan Liú, De liang Li, Mei ling Sun
Software Mentions: 1
Published: almost 4 years ago

10.3390/genes12010087

K-Module Algorithm: An Additional Step to Improve the Clustering Results of WGCNA Co-Expression Networks
Cited by: 15
Author(s): Jie Hou, Xiufen Ye, Chuanlong Li, Yixing Wang
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2021.610087

Stratification of Estrogen Receptor-Negative Breast Cancer Patients by Integrating the Somatic Mutations and Transcriptomic Data
Cited by: 2
Author(s): Jie Hou, Xiufen Ye, Yixing Wang, Chuanlong Li
Software Mentions: 1
Published: almost 4 years ago

10.3390/ijms21041445

Cross-Species Root Transcriptional Network Analysis Highlights Conserved Modules in Response to Nitrate between Maize and Sorghum
Cited by: 5
Author(s): Hongyang Du, Lei Ning, Bing He, Yuancong Wang, Min Ge, Jing Xu, Han Zhao
Software Mentions: 1
Published: almost 5 years ago

10.3389/fgene.2016.00218

A Systems Approach Implicates a Brain Mitochondrial Oxidative Homeostasis Co-expression Network in Genetic Vulnerability to Alcohol Withdrawal
Cited by: 5
Author(s): Nicole A.R. Walter, De Aunne L. Denmark, Laura B. Kozell, Kari J. Buck
Software Mentions: 1
Published: almost 8 years ago

10.3390/genes12030449

Identification of Chlorophyll Metabolism- and Photosynthesis-Related Genes Regulating Green Flower Color in Chrysanthemum by Integrative Transcriptome and Weighted Correlation Network Analyses
Cited by: 7
Author(s): Hansen Fu, Tuo Zeng, Yangyang Zhao, Tingting Luo, Huijie Deng, Chenwei Meng, Luo Jia, Caiyun Wang
Software Mentions: 1
Published: over 3 years ago

10.1042/BSR20202649

Screening of key genes related to the prognosis of mouse sepsis
Cited by: 9
Author(s): Muhu Chen, Xue Chen, Yingchun Hu, Xianfu Cai
Software Mentions: 1
Published: about 4 years ago

10.3390/jof6030108

Modeling Approaches Reveal New Regulatory Networks in Aspergillus fumigatus Metabolism
Cited by: 2
Author(s): Enzo Acerbi, Marcela Hortová-Kohoutková, Tsokyi Choera, Nancy P. Keller, Jan Frič, Fabio Stella, Luigina Romani, Teresa Zelante
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pntd.0005123

Blood Transcriptional Profiling Reveals Immunological Signatures of Distinct States of Infection of Humans with Leishmania infantum
Cited by: 46
Author(s): Luiz Gustavo Gardinassi, Gustavo García, Carlos Henrique Nery Costa, Vladimir Costa Silva, Isabel Kinney Ferreira de Miranda Santos
Software Mentions: 1
Published: about 8 years ago

10.3390/ijms21051824

The Role of Gibberellins in Regulation of Nitrogen Uptake and Physiological Traits in Maize Responding to Nitrogen Availability
Cited by: 20
Author(s): Yubin Wang, Qizheng Yao, Yushi Zhang, Yuexia Zhang, Jiapeng Xing, Benzhou Yang, Guohua Mi, Zhaohu Li, Mingcai Zhang
Software Mentions: 1
Published: over 4 years ago

10.3390/ijms21051675

Genetic Identification and Transcriptome Analysis of Lintless and Fuzzless Traits in Gossypium arboreum L.
Cited by: 18
Author(s): Xueying Liu, Philippe Moncuquet, Qian Zhu, Warwick N. Stiller, Zhengsheng Zhang, Iain W. Wilson
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pmed.1003451

Associations among circulating sphingolipids, β-cell function, and risk of developing type 2 diabetes: A population-based cohort study in China
Cited by: 47
Author(s): Huan Yun, Liang Sun, Qingqing Wu, Geng Zong, Qibin Qi, Huaixing Li, Zheng He, Rong Zeng, Liming Liang, Xu Lin
Software Mentions: 1
Published: almost 4 years ago

10.3390/genes12081254

Pseudogene Transcripts in Head and Neck Cancer: Literature Review and In Silico Analysis
Cited by: 4
Author(s): Juliana Carron, Rafael Della Coletta, Gustavo Jacob Lourenço
Software Mentions: 1
Published: over 3 years ago

10.3390/jof7040270

Identifying Conserved Generic Aspergillus spp. Co-Expressed Gene Modules Associated with Germination Using Cross-Platform and Cross-Species Transcriptomics
Cited by: 4
Author(s): Tim J. H. Baltussen, Jordy P. M. Coolen, Paul E. Verweij, Jan Dijksterhuis, Willem J. G. Melchers
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pgen.1002367

Integrating Genome-Wide Genetic Variations and Monocyte Expression Data Reveals Trans-Regulated Gene Modules in Humans
Cited by: 122
Author(s): Maxime Rotival, Tanja Zeller, Philipp S. Wild, Seraya Maouche, Silke Szymczak, Arne Schillert, Raphaële Castagné, Arne Deiseroth, Carole Proust, Jessy Brocheton, Tiphaine Godefroy, Claire Perret, Marine Germain, Medea Eleftheriadis, Christoph Sinning, Renate B. Schnabel, Edith Lubos, Karl J. Lackner, Heidi Rossmann, Thomas Münzel, Augusto Rendon, Cardiogenics Consortium, Jeanette Erdmann, Panos Deloukas, Christian Hengstenberg, Patrick Diemert, Gilles Montalescot, Willem H. Ouwehand, Nilesh J. Samani, Heribert Schunkert, David‐Alexandre Trégouët, Andreas Ziegler, Alison H. Goodall, François Cambien, Laurence Tiret, Stefan Blankenberg
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pgen.1001113

An Immune Response Network Associated with Blood Lipid Levels
Cited by: 122
Author(s): Michael Inouye, Kaisa Silander, Eija Hämäläinen, Veikko Salomaa, Kennet Harald, Pekka Jousilahti, Satu Männistö, Johan G. Eriksson, Janna Saarela, Samuli Ripatti, Markus Perola, Gert‐Jan B. van Ommen, Marja‐Riitta Taskinen, Aarno Palotie, Emmanouil T. Dermitzakis, Leena Peltonen
Software Mentions: 1
Published: about 14 years ago

10.1155/2020/8872577

Identification of a β-Arrestin 2 Mutation Related to Autism by Whole-Exome Sequencing
Cited by: 5
Author(s): Yunfei Tang, Yamei Liu, Lei Tong, Shini Feng, Dongshu Du, Fuxue Chen
Software Mentions: 1
Published: about 4 years ago

10.1186/s12263-019-0639-5

Weighted gene co-expression network analysis to explain the relationship between plasma total carotenoids and lipid profile
Cited by: 9
Author(s): Bénédicte L. Tremblay, Frédéric Guénard, Benoı̂t Lamarche, Louis Pérusse, Marie‐Claude Vohl
Software Mentions: 1
Published: over 5 years ago

10.1186/s12263-021-00697-1

Vegetarian diet duration’s influence on women’s gut environment
Cited by: 3
Author(s): Xinqi Deng, Jiangtao Si, Yonglong Qu, Jie Li, Yingkun He, Chun-Guo Wang, Yuping Zhang
Software Mentions: 1
Published: about 3 years ago

10.1155/2020/9827349

The Effect of Inflammation on the Formation of Thyroid Nodules
Cited by: 4
Author(s): Zexin Li, Yiteng Huang, Xiang Cheng, Chiju Wei, Peixuan Yang, Weilai Xu
Software Mentions: 1
Published: over 4 years ago

10.1186/s12711-016-0217-x

Multi-omic data integration and analysis using systems genomics approaches: methods and applications in animal production, health and welfare
Cited by: 125
Author(s): Prashanth Suravajhala, Lisette J. A. Kogelman, Haja N. Kadarmideen
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pgen.1004006

Multi-tissue Analysis of Co-expression Networks by Higher-Order Generalized Singular Value Decomposition Identifies Functionally Coherent Transcriptional Modules
Cited by: 53
Author(s): Xiaolin Xiao, Aida Moreno‐Moral, Maxime Rotival, Leonardo Bottolo, Enrico Petretto
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pgen.1007879

An interaction-based model for neuropsychiatric features of copy-number variants
Cited by: 38
Author(s): Matthew Jensen, Santhosh Girirajan
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pgen.1008155

Enhancing face validity of mouse models of Alzheimer’s disease with natural genetic variation
Cited by: 58
Author(s): Kristen D. Onos, Asli Uyar, Kelly J. Keezer, Harriet M. Jackson, Christoph Preuß, Casey Acklin, Rita O’Rourke, Rebecca A. Buchanan, Travis Cossette, Stacey J. Sukoff Rizzo, Ileana Soto, Gregory W. Carter, Gareth R. Howell
Software Mentions: 1
Published: over 5 years ago

10.1042/BSR20204219

A dual immune signature of CD8+ T cells and MMP9 improves the survival of patients with hepatocellular carcinoma
Cited by: 6
Author(s): Huan Ding, Huan Hu, Fei Tian, Huaping Liang
Software Mentions: 1
Published: over 3 years ago

10.1186/gb-2012-13-10-r97

Aging effects on DNA methylation modules in human brain and blood tissue
Cited by: 527
Author(s): Steve Horvath, Yafeng Zhang, Peter Langfelder, René S. Kahn, Marco P. Boks, Kristel R. van Eijk, Leonard H. van den Berg, Roel A. Ophoff
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pgen.1002596

The Transcription Factor Ultraspiracle Influences Honey Bee Social Behavior and Behavior-Related Gene Expression
Cited by: 74
Author(s): Seth A. Ament, Ying Wang, Chieh Chun Chen, Charles Blatti, Feng Hong, Zhengzheng S. Liang, Nicolas Nègre, Kevin P. White, Sandra L. Rodriguez-Zas, Craig A. Mizzen, Saurabh Sinha, Sheng Zhong, Gene E. Robinson
Software Mentions: 1
Published: over 12 years ago

10.1186/s13059-014-0457-4

The small RNA diversity from Medicago truncatularoots under biotic interactions evidences the environmental plasticity of the miRNAome
Cited by: 69
Author(s): Damien Formey, Erika Sallet, Christine Lelandais‐Brière, Cécile Ben, Pilar Bustos-Sanmamed, Andréas Niebel, Florian Frugier, Jean Combier, Frederic Debellé, Caroline Hartmann, Julie Poulain, Fréderick Gavory, Patrick Wincker, Christophe Roux, Laurent Gentzbittel, Jérôme Gouzy, Martín Crespi
Software Mentions: 1
Published: about 10 years ago

10.1186/s13059-014-0525-9

Characterizing heterogeneity in leukemic cells using single-cell gene expression analysis
Cited by: 58
Author(s): Assieh Saadatpour, Guoji Guo, Stuart H. Orkin, Guo Cheng Yuan
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pgen.1004402

Mosaic Epigenetic Dysregulation of Ectodermal Cells in Autism Spectrum Disorder
Cited by: 90
Author(s): Esther R. Berko, Masako Suzuki, Faygel Beren, Christophe Lemetre, Christine M. Alaimo, R. Brent Calder, Karen Ballaban‐Gil, Batya Gounder, Kaylee Kampf, Jill Kirschen, Shahina Maqbool, Zeineen Momin, David M. Reynolds, Natalie Russo, Lisa H. Shulman, Edyta Stasiek, Jessica N. Tozour, Maria Valicenti-McDermott, Shenglong Wang, Brett S. Abrahams, Joseph Hargitai, Dov Inbar, Zhengdong Zhang, Joseph D. Buxbaum, Sophie Molholm, John J. Foxe, Robert W. Marion, Adam Auton, John M. Greally
Software Mentions: 1
Published: over 10 years ago

10.1186/s13059-014-0475-2

Big effects of small RNAs on legume root biotic interactions
Cited by: 2
Author(s): Huan Wang, Nam‐Hai Chua
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pgen.1004550

Dysfunction of the CNS-Heart Axis in Mouse Models of Huntington's Disease
Cited by: 75
Author(s): Michał Mielcarek, Linda Inuabasi, Marie K. Bondulich, Thomas Müller, Georgina F Osborne, Sophie A. Franklin, Donna Smith, Andreas Neueder, Jim Rosinski, Ivan Rattray, Andrea Protti, Gillian P. Bates
Software Mentions: 1
Published: over 10 years ago

10.3389/fgene.2021.698598

Integrative Identification of Crucial Genes Associated With Plant Hormone-Mediated Bud Dormancy in Prunus mume
Cited by: 6
Author(s): Ping Li, Tangchun Zheng, Zhiyong Zhang, Weichao Liu, Like Qiu, Jia Wang, Tangren Cheng, Qixiang Zhang
Software Mentions: 1
Published: over 3 years ago

10.3389/fgene.2020.596174

Identification of Key Modules and Hub Genes of Annulus Fibrosus in Intervertebral Disc Degeneration
Cited by: 2
Author(s): Hantao Wang, Liu Wen-hui, Bo Yu, Xiaosheng Yu, Bin Chen
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pgen.1006490

Transcriptional Orchestration of the Global Cellular Response of a Model Pennate Diatom to Diel Light Cycling under Iron Limitation
Cited by: 97
Author(s): Sarah R. Smith, Jeroen Gillard, Adam B. Kustka, John P. McCrow, Jonathan H. Badger, Hong Zheng, Ashley M. New, Chris L. Dupont, Toshihiro Obata, Alisdair R. Fernie, Andrew E. Allen
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12967-019-1777-7

An integrative genomic analysis of transcriptional profiles identifies characteristic genes and patterns in HIV-infected long-term non-progressors and elite controllers
Cited by: 10
Author(s): Jiwei Ding, Ling Ma, Jin Zhao, Yun Xie, Jinming Zhou, Xiaoyü Li, Shan Cen
Software Mentions: 1
Published: almost 6 years ago

10.3389/fgene.2020.00849

Identification and Functional Analysis of Long Non-coding RNAs in Autism Spectrum Disorders
Cited by: 5
Author(s): Zhan Tong, Yuan Zhou, Juan Wang
Software Mentions: 1
Published: about 4 years ago

10.3390/biology10040310

Insight into Liver lncRNA and mRNA Profiling at Four Developmental Stages in Ningxiang Pig
Cited by: 5
Author(s): Yan Gong, Yuebo Zhang, Biao Li, Yu Xiao, Qinghua Zeng, Kang Xu, Yehui Duan, Jun He, Haiming Ma
Software Mentions: 1
Published: over 3 years ago

10.3389/fonc.2021.679851

CD86 Molecule Might Be a Novel Immune-Related Prognostic Biomarker for Patients With Bladder Cancer by Bioinformatics and Experimental Assays
Cited by: 4
Author(s): Xin Yan, Guo-Wei Du, Zhao Chun-hua, Tong-Zu Liu, Sheng Li
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pgen.1006152

A High Temperature-Dependent Mitochondrial Lipase EXTRA GLUME1 Promotes Floral Phenotypic Robustness against Temperature Fluctuation in Rice (Oryza sativa L.)
Cited by: 27
Author(s): Biyao Zhang, Shifeng Wu, Yue Zhang, Ting Xu, Feifei Guo, Huashan Tang, Xiang Li, Pengfei Wang, Wenfeng Qian, Yongbiao Xue
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pgen.1008734

Leveraging gene co-expression patterns to infer trait-relevant tissues in genome-wide association studies
Cited by: 23
Author(s): Lulu Shang, Jennifer A. Smith, Xiang Zhou
Software Mentions: 1
Published: over 4 years ago

10.7150/ijms.61771

PD-L1 correlated gene expression profiles and tumor infiltrating lymphocytes in pancreatic cancer
Cited by: 2
Author(s): Jiajin Li, Lu Yin, Yumei Chen, Shuxian An, Yi Xiong, Gang Huang, Jianjun Li
Software Mentions: 1
Published: almost 4 years ago

10.3390/foods10020391

Transcriptome and Metabolome Dynamics Explain Aroma Differences between Green and Red Prickly Ash Fruit
Cited by: 24
Author(s): Xitong Fei, Yichen Qi, Yu Li, Shujie Wang, Hu Hong, Anzhi Wei
Software Mentions: 1
Published: almost 4 years ago

10.1042/BSR20203458

A panel of two miRNAs correlated to systolic blood pressure is a good diagnostic indicator for stroke
Cited by: 3
Author(s): Yujun Qi, Mingfeng Yuan, Qiong Yi, Yan Wang, Lei Xu, Changshui Xu, Min Lü
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pgen.1002556

Networks of Neuronal Genes Affected by Common and Rare Variants in Autism Spectrum Disorders
Cited by: 137
Author(s): Eyal Ben-David, Sagiv Shifman
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pgen.1002038

Mouse Genome-Wide Association and Systems Genetics Identify Asxl2 As a Regulator of Bone Mineral Density and Osteoclastogenesis
Cited by: 107
Author(s): Charles R. Farber, Brian J. Bennett, Luz D. Orozco, Wei Zou, Ana Lira, Emrah Kostem, Hyun Min Kang, Nicholas A. Furlotte, Ani Berberyan, Anatole Ghazalpour, Jaijam Suwanwela, Thomas A. Drake, Eleazar Eskin, Q. Tian Wang, Steven L. Teitelbaum, Aldons J. Lusis
Software Mentions: 1
Published: over 13 years ago

10.3389/fgene.2020.614195

Integrated WGCNA and PPI Network to Screen Hub Genes Signatures for Infantile Hemangioma
Cited by: 14
Author(s): Miao Xu, Tao Ouyang, Kaiyang Lv, Xiaohua Ma
Software Mentions: 1
Published: almost 4 years ago

10.1155/2020/5478574

The New Biomarker for Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (CESC) Based on Public Database Mining
Cited by: 18
Author(s): Hao Ding, Xiao-Xing Xiong, Guanlan Fan, Yuexiong Yi, Yurou Chen, Jingtao Wang, Wei Zhang
Software Mentions: 1
Published: over 4 years ago

10.22038/IJBMS.2018.29498.7123

Gene co-expression network analysis identifies BRCC3 as a key regulator in osteogenic differentiation of osteoblasts through a β-catenin signaling dependent pathway.
Cited by: 0
Author(s): Lixiong Cai, Zhiqian Huo, Huiling Yang, HE Feng-chun, Zheng-lin Cao, Feng Wu, Lianjun Liu, Bing‐Yin Sun
Software Mentions: 1
Published: almost 6 years ago

10.1042/BSR20194067

Co-expression network-based identification of biomarkers correlated with the lymph node metastasis of patients with head and neck squamous cell carcinoma
Cited by: 6
Author(s): Yu Jin, Xing Qin
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pcbi.1000117

Geometric Interpretation of Gene Coexpression Network Analysis
Cited by: 663
Author(s): Steve Horvath, Jun Dong
Software Mentions: 1
Published: over 16 years ago

10.1155/2021/6664791

Coexpressed Genes That Promote the Infiltration of M2 Macrophages in Melanoma Can Evaluate the Prognosis and Immunotherapy Outcome
Cited by: 13
Author(s): Kexin Yan, Yutao Wang, Yuxiu Lu, Zhangyong Yan
Software Mentions: 1
Published: over 3 years ago

10.1042/BSR20200124

Potential targets and molecular mechanism of miR-331-3p in hepatocellular carcinoma identified by weighted gene coexpression network analysis
Cited by: 6
Author(s): Qingjia Chi, Xinge Geng, Kang Xu, Chunli Wang, Han Zhao
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pcbi.1000707

Modeling Co-Expression across Species for Complex Traits: Insights to the Difference of Human and Mouse Embryonic Stem Cells
Cited by: 26
Author(s): Jun Cai, Dan Xie, Z. Fan, Hiram Chipperfield, John I. Marden, Wing Hung Wong, Sheng Zhong
Software Mentions: 1
Published: over 14 years ago

10.1155/2012/120350

Molecular Mechanisms of Same TCM Syndrome for Different Diseases and Different TCM Syndrome for Same Disease in Chronic Hepatitis B and Liver Cirrhosis
Cited by: 27
Author(s): Zhixin Guo, Shuhao Yu, Yan Guan, Ying-Ya Li, Yi‐Yu Lu, Hui Zhang, Shi‐Bing Su
Software Mentions: 1
Published: almost 13 years ago

10.1186/gm452

Genes and pathways underlying regional and cell type changes in Alzheimer's disease
Cited by: 209
Author(s): Jeremy A. Miller, Randall L. Woltjer, Jeff M Goodenbour, Steve Horvath, Daniel H. Geschwind
Software Mentions: 1
Published: almost 12 years ago

10.3389/fgene.2019.00005

Long Non-coding RNA LINC00941 as a Potential Biomarker Promotes the Proliferation and Metastasis of Gastric Cancer
Cited by: 42
Author(s): Haiming Liu, Nan Wu, Zhe Zhang, Xiaodan Zhong, Hao Zhang, Hao Guo, Yongzhan Nie, Yuanning Liu
Software Mentions: 1
Published: almost 6 years ago

10.1155/2021/5518908

Screening Prognosis-Related lncRNAs Based on WGCNA to Establish a New Risk Score for Predicting Prognosis in Patients with Hepatocellular Carcinoma
Cited by: 4
Author(s): Xueliang Zhou, Mengmeng Dou, Zaoqu Liu, Dechao Jiao, Zhaonan Li, Jianjian Chen, Jing Li, Yuan Yao, Lifeng Li, Yahua Li, Xinwei Han
Software Mentions: 1
Published: over 3 years ago

10.1042/BSR20203263

Exploration and validation of a novel prognostic signature based on comprehensive bioinformatics analysis in hepatocellular carcinoma
Cited by: 4
Author(s): Xiaofei Wang, Jie Qiao, Rongqi Wang
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pcbi.1004332

Revealing Pathway Dynamics in Heart Diseases by Analyzing Multiple Differential Networks
Cited by: 42
Author(s): Xiaoke Ma, Long Gao, Georgios Karamanlidis, Peng Gao, Chi Fung Lee, Lorena Garcia-Menendez, Rong Tian, Kai Tan
Software Mentions: 1
Published: over 9 years ago

10.1186/s12967-021-02879-2

METTL13 inhibits progression of clear cell renal cell carcinoma with repression on PI3K/AKT/mTOR/HIF-1α pathway and c-Myc expression
Cited by: 13
Author(s): Zhuonan Liu, Tianshui Sun, Chiyuan Piao, Zhe Zhang, Chuize Kong
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pcbi.1006436

Condition-adaptive fused graphical lasso (CFGL): An adaptive procedure for inferring condition-specific gene co-expression network
Cited by: 17
Author(s): Yafei Lyu, Lingzhou Xue, Feipeng Zhang, Hillary Koch, Laura Saba, Katerina Kechris, Qunhua Li
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2020.597888

Identifying Biomarkers to Predict the Progression and Prognosis of Breast Cancer by Weighted Gene Co-expression Network Analysis
Cited by: 6
Author(s): Gengsheng Shi, Zhenru Shen, Yi Liu, Wenqin Yin
Software Mentions: 1
Published: almost 4 years ago

10.1186/s13073-017-0444-y

brain-coX: investigating and visualising gene co-expression in seven human brain transcriptomic datasets
Cited by: 11
Author(s): Saskia Freytag, Rosemary Burgess, Karen Oliver, Melanie Bahlo
Software Mentions: 1
Published: over 7 years ago

10.1186/s13073-017-0466-5

Parkinson’s disease is associated with DNA methylation levels in human blood and saliva
Cited by: 111
Author(s): Yen Chuang, Kimberly C. Paul, Jeff M. Bronstein, Yvette Bordelon, Steve Horvath, Beate Ritz
Software Mentions: 1
Published: about 7 years ago

10.1186/s12967-015-0383-6

Berberine ameliorates nonalcoholic fatty liver disease by a global modulation of hepatic mRNA and lncRNA expression profiles
Cited by: 86
Author(s): Xinlu Yuan, Jie Wang, Xiaoyan Tang, Yixue Li, Pu Xia, Xin Gao
Software Mentions: 1
Published: almost 10 years ago

10.1038/s41388-020-1379-0

Targeting the MAPK7/MMP9 axis for metastasis in primary bone cancer
Cited by: 21
Author(s): Darrell Green, Heather Eyre, Archana Archana, Jessica Taylor, Jason Chu, Lee Jeys, Vaiyapuri P. Sumathi, Aman S. Coonar, Doris M. Rassl, Muhammad Babur, Duncan Forster, Saba Alzabin, Frida Ponthan, Adam McMahon, Brian Bigger, Tristan A. Reekie, Kaye J. Williams, Tamás Dalmay, William D. Fraser, Katherine G. Finegan
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pcbi.1002773

Distinct Neurogenomic States in Basal Ganglia Subregions Relate Differently to Singing Behavior in Songbirds
Cited by: 25
Author(s): Austin T. Hilliard, Julie E. Miller, Steve Horvath, Stephanie A. White
Software Mentions: 1
Published: about 12 years ago

10.1186/s13073-021-00845-7

Explaining decisions of graph convolutional neural networks: patient-specific molecular subnetworks responsible for metastasis prediction in breast cancer
Cited by: 36
Author(s): Hryhorii Chereda, Annalen Bleckmann, Kerstin Menck, Júlia Perera-Bel, Philip Stegmaier, Florian Auer, Frank Krämer, Andreas Leha, Tim Beißbarth
Software Mentions: 1
Published: over 3 years ago

Projects: cran: WGCNA

Papers Mentioning WGCNA 3,479