cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1371/journal.pone.0147418

Identification of Crowding Stress Tolerance Co-Expression Networks Involved in Sweet Corn Yield
Cited by: 11
Author(s): Eunsoo Choe, Jenny Drnevich, Martin Williams
Software Mentions: 1
Published: over 10 years ago

10.7150/jca.38211

Bioinformatics analysis and identification of potential genes related to pathogenesis of cervical intraepithelial neoplasia
Cited by: 9
Author(s): Xue Zhang, Jian Bai, Cheng Yuan, Long Long, Zhewen Zheng, Qingqing Wang, Fengxia Chen, Youwen Zhou
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0014821

Epigenetic Predictor of Age
Cited by: 737
Author(s): Sven Bocklandt, Wen Lin, Mary E. Sehl, Francisco J. Sánchez, Janet S. Sinsheimer, Steve Horvath, Éric Vilain
Software Mentions: 1
Published: about 15 years ago

10.7150/jca.39645

Identification of Key Gene and Pathways for the Prediction of Peritoneal Metastasis of Gastric Cancer by Co-expression Analysis
Cited by: 11
Author(s): Simeng Zhang, Dan Zang, Changhong Yu, Zhi Li, Bowen Yang, Tianshu Guo, Yunpeng Liu, Xiujuan Qu, Xiaofang Che
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0094868

Rat Hepatocytes Weighted Gene Co-Expression Network Analysis Identifies Specific Modules and Hub Genes Related to Liver Regeneration after Partial Hepatectomy
Cited by: 20
Author(s): Yun Zhou, Jiucheng Xu, Yunqing Liu, Juntao Li, Cuifang Chang, Chi Xu
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0219837

A comprehensive expression analysis of the expansin gene family in potato (Solanum tuberosum) discloses stress-responsive expansin-like B genes for drought and heat tolerances
Cited by: 29
Author(s): Yongkun Chen, Bo Zhang, Canhui Li, Chunxia Lei, Chunyan Kong, Yang Yu, Ming Gong
Software Mentions: 1
Published: about 7 years ago

10.1186/1471-2164-11-589

Is human blood a good surrogate for brain tissue in transcriptional studies?
Cited by: 101
Author(s): Chaochao Cai, Peter Langfelder, Tova Fuller, Michael C. Oldham, Rui Luo, Leonard H van den Berg, Roel A. Ophoff, Steve Horvath
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0163812

Alcohol-Induced Molecular Dysregulation in Human Embryonic Stem Cell-Derived Neural Precursor Cells
Cited by: 12
Author(s): Yi Young Kim, Ivan Roubal, Youn Soo Lee, Jin Seok Kim, Michael Hoang, Nathan Mathiyakom, Yong Kim
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0061505

When Is Hub Gene Selection Better than Standard Meta-Analysis?
Cited by: 229
Author(s): Peter Langfelder, Paul S. Mischel, Steve Horvath
Software Mentions: 1
Published: over 13 years ago

10.3390/ijms22147649

Epigenetic Changes in Gestational Diabetes Mellitus
Cited by: 11
Author(s): Dominik Dłuski, Ewa Wolińska, Maciej Skrzypczak
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0167543

The rs3957357C>T SNP in GSTA1 Is Associated with a Higher Risk of Occurrence of Hepatocellular Carcinoma in European Individuals
Cited by: 19
Author(s): Hanane Akhdar, Said El Shamieh, Orlando Musso, Romain Désert, Wissam H. Joumaa, Dominique Guyader, Caroline Aninat, Anne Corlu, Franck Morel
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2164-10-327

Signed weighted gene co-expression network analysis of transcriptional regulation in murine embryonic stem cells
Cited by: 189
Author(s): Mike J. Mason, Guoping Fan, Kathrin Plath, Qing Zhou, Steve Horvath
Software Mentions: 1
Published: about 17 years ago

10.7150/jca.52156

Identification of Prognosis-related Hub RNA Binding Proteins Function through Regulating Metabolic Processes in Tongue Cancer
Cited by: 6
Author(s): Tao Shen, Meiting Wang, Xiangting Wang
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0218528

Distinct leaf transcriptomic response of water deficient Eucalyptus grandis submitted to potassium and sodium fertilization
Cited by: 13
Author(s): Bénédicte Favreau, Marie Denis, Raphaël Ployet, Fabien Mounet, Hana Peireira da Silva, Lívia Maria Franceschini, Jean‐Paul Laclau, Carlos Alberto Labate, Helaine Carrer
Software Mentions: 1
Published: about 7 years ago

10.3390/ijms22158128

Transcriptome Analysis of Flower Development and Mining of Genes Related to Flowering Time in Tomato (Solanum lycopersicum)
Cited by: 11
Author(s): Hexuan Wang, Yahui Yang, Yiyao Zhang, Tingting Zhao, Jingbin Jiang, Jin-Fu Li, Xiangyang Xu, Huanhuan Yang
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0116644

Glioma-Associated Microglia/Macrophages Display an Expression Profile Different from M1 and M2 Polarization and Highly Express Gpnmb and Spp1
Cited by: 295
Author(s): Frank Szulzewsky, Andreas Pelz, Xi Feng, Michael Synowitz, Darko Marković, Thomas Langmann, Inge R. Holtman, Xi Wang, Bart J. L. Eggen, Hendrikus Boddeke, Dolores Hambardzumyan, Susanne Wolf, Helmut Kettenmann
Software Mentions: 1
Published: over 11 years ago

10.7150/jca.51059

A Novel Set of Immune-associated Gene Signature predicts Biochemical Recurrence in Localized Prostate Cancer Patients after Radical Prostatectomy
Cited by: 8
Author(s): Jiaochen Luan, Qijie Zhang, Kai Zhao, Xiang Zhou, Liangyu Yao, Tongtong Zhang, Taidui Zeng, Jun Xia, Ninghong Song
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0150850

Immune-Mediated Inflammation May Contribute to the Pathogenesis of Cardiovascular Disease in Mucopolysaccharidosis Type I
Cited by: 16
Author(s): Omar Khalid, Moin Vera, Philip L.S.M. Gordts, N. Matthew Ellinwood, Philip H. Schwartz, Patricia Dickson, Jeffrey D. Esko, Raymond Wang
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0178006

Disease-related gene module detection based on a multi-label propagation clustering algorithm
Cited by: 7
Author(s): Xue Jiang, Han Zhang, Xiongwen Quan, Zhandong Liu, Yanbin Yin
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0213501

Distinct transcriptional modules in the peripheral blood mononuclear cells response to human respiratory syncytial virus or to human rhinovirus in hospitalized infants with bronchiolitis
Cited by: 9
Author(s): Sandra Elisabete Vieira, Sílvia Yumi Bando, Milena de Paulis, Danielle Bruna Leal Oliveira, Luciano Matsumiya Thomazelli, Edison Luiz Durigon, Marina Baquerizo Martinez, Carlos Alberto Moreira-Filho
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0082656

Neurobiological Signatures of Alcohol Dependence Revealed by Protein Profiling
Cited by: 29
Author(s): Giorgio Gorini, Amanda J. Roberts, R. Dayne Mayfield
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0092395

Cancer-Risk Module Identification and Module-Based Disease Risk Evaluation: A Case Study on Lung Cancer
Cited by: 7
Author(s): Jian Xu, Zhengqiang Miao, Li Wan, Liangcai Zhang, Chenchen Feng, Yuehan He, Xiaoman Bi, Liqiang Wang, Ye Du, Min Hou, Dapeng Hao, Yun Xiao, Lina Chen, Kongning Li
Software Mentions: 1
Published: over 12 years ago

10.1186/s12863-015-0311-z

Gene expression in large pedigrees: analytic approaches
Cited by: 5
Author(s): Rita M. Cantor, Heather J. Cordell
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0190110

A complex network approach reveals a pivotal substructure of genes linked to schizophrenia
Cited by: 22
Author(s): A. Monaco, Anna Monda, Nicola Amoroso, Alessandro Bertolino, Giuseppe Blasi, Pasquale Di Carlo, Marco Papalino, Giulio Pergola, Sabina Tangaro, R. Bellotti
Software Mentions: 1
Published: over 8 years ago

10.1186/s12863-018-0648-1

Epigenetics, heritability and longitudinal analysis
Cited by: 5
Author(s): Haakon E. Nustad, Marcio Almeida, Angelo J. Canty, Marissa LeBlanc, Christian M. Page, Phillip E. Melton
Software Mentions: 1
Published: about 8 years ago

10.1111/jcmm.12447

Pathway mapping and development of disease‐specific biomarkers: protein‐based network biomarkers
Cited by: 23
Author(s): Hao Chen, Zhou Zhu, Ying–Hui Zhu, Jian Wang, Yunqing Mei, Yunfeng Cheng
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0150624

A Systematic Investigation into Aging Related Genes in Brain and Their Relationship with Alzheimer’s Disease
Cited by: 25
Author(s): Guofeng Meng, Xiaoyan Zhong, Hongkang Mei
Software Mentions: 1
Published: over 10 years ago

10.1111/jcmm.14300

Temporal expression and functional analysis of long non‐coding <scp>RNA</scp> s in colorectal cancer initiation
Cited by: 19
Author(s): Lei Dai, Junshu Li, Zhexu Dong, Y Liu, Ye Chen, Na Chen, Lin Cheng, Chao Fang, Huiling Wang, Yanhong Ji, Shuang Chen, Xiaolan Su, Gang Shi, Yi Lin, Shuang Zhang, Yang Yang, Qingcai Meng, Dechao Yu, Wei Huang, Zong‐Guang Zhou, Yuquan Wei, Hongxin Deng
Software Mentions: 1
Published: over 7 years ago

10.1111/jcmm.14422

Long non‐coding RNAs in the spinal cord injury: Novel spotlight
Cited by: 18
Author(s): Zheng Li, Idy H. T. Ho, Xingye Li, Derong Xu, William Ka Kei Wu, Matthew T. V. Chan, Shugang Li, Xiao Dong Liu
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0132542

Transcriptome Profiling of Peripheral Blood in 22q11.2 Deletion Syndrome Reveals Functional Pathways Related to Psychosis and Autism Spectrum Disorder
Cited by: 39
Author(s): Maria Jalbrzikowski, María Teresa Lázaro, Fuying Gao, Alden Huang, Carolyn Chow, Daniel H. Geschwind, Giovanni Coppola, Carrie E. Bearden
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0149758

Different Statistical Approaches to Investigate Porcine Muscle Metabolome Profiles to Highlight New Biomarkers for Pork Quality Assessment
Cited by: 19
Author(s): Julia Welzenbach, Christiane Neuhoff, Christian Looft, K. Schellander, Ernst Tholen, Christine Große‐Brinkhaus
Software Mentions: 1
Published: over 10 years ago

10.1111/jcmm.14746

Pan‐cancer RNA‐seq data stratifies tumours by some hallmarks of cancer
Cited by: 26
Author(s): Frederick G. Frost, Praveen F. Cherukuri, Samuel Milanovich, Cornelius F. Boerkoel
Software Mentions: 1
Published: almost 7 years ago

10.1111/jcmm.14676

Expression and functional analysis of lncRNAs in the hippocampus of immature rats with status epilepticus
Cited by: 6
Author(s): Jing Gan, Lingyi Huang, Yi Qu, Rong Luo, Qianyun Cai, Fengyan Zhao, Dezhi Mu
Software Mentions: 1
Published: almost 7 years ago

10.1111/jcmm.14828

The CCN1 (CYR61) protein promotes skin growth by enhancing epithelial‐mesenchymal transition during skin expansion
Cited by: 9
Author(s): Yiwen Zhou, Haizhou Li, Xiao Liang, Hengyu Du, Yingjun Suo, Hao Chen, Wenhui Liu, Ran Duan, Xiaolu Huang, Qingfeng Li
Software Mentions: 1
Published: almost 7 years ago

10.1111/jcmm.14852

Identification of dynamic signatures associated with smoking‐related squamous cell lung cancer and chronic obstructive pulmonary disease
Cited by: 10
Author(s): Xiaoru Sun, Jingzhe Shang, Aiping Wu, Jingyan Xia, Feng Xu
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0116776

FastGCN: A GPU Accelerated Tool for Fast Gene Co-Expression Networks
Cited by: 29
Author(s): Meimei Liang, Futao Zhang, Gulei Jin, Jun Zhu
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0187290

Influence of socioeconomic status on the whole blood transcriptome in African Americans
Cited by: 22
Author(s): Amadou Thierno Gaye, Gary H. Gibbons, Charles Barry, Rakale C. Quarells, Sharon Davis
Software Mentions: 1
Published: almost 9 years ago

10.1111/jcmm.14976

Transcriptome analyses reveal molecular mechanisms underlying phenotypic differences among transcriptional subtypes of glioblastoma
Cited by: 20
Author(s): Yuan‐Bo Pan, Siqi Wang, Biao Yang, Zhenqi Jiang, Cameron Lenahan, Jianhua Wang, Jianmin Zhang, Anwen Shao
Software Mentions: 1
Published: over 6 years ago

10.3390/ijms22168369

Transcriptomic Analysis Reveals Key Genes Involved in Oil and Linoleic Acid Biosynthesis during Artemisia sphaerocephala Seed Development
Cited by: 4
Author(s): Shuzhen Nan, Lijing Zhang, Xiaowei Hu, Xiumei Miao, Xing Han, Hua Fu
Software Mentions: 1
Published: about 5 years ago

10.1111/jcmm.15145

Gene signatures based on therapy responsiveness provide guidance for combined radiotherapy and chemotherapy for lower grade glioma
Cited by: 10
Author(s): Guangqi Li, Yufei Jiang, Xintong Lyu, Yiru Cai, Miao Zhang, Qiao Qiao
Software Mentions: 1
Published: over 6 years ago

10.3390/ijms22168835

Gene-Metabolite Network Analysis Revealed Tissue-Specific Accumulation of Therapeutic Metabolites in Mallotus japonicus
Cited by: 3
Author(s): Megha Rai, Amit Rai, Tetsuya Mori, Ryo Nakabayashi, Minako Yamamoto, Michimi Nakamura, Hideyuki Suzuki, Kazuki Saito, Mami Yamazaki
Software Mentions: 1
Published: about 5 years ago

10.18632/aging.103979

LINC01235-TWIST2 feedback loop facilitates epithelial–mesenchymal transition in gastric cancer by inhibiting THBS2
Cited by: 16
Author(s): Yongjun Tan, Xing Yao, Ban-Lai Ran, Chao Zhang, Siwei Pan, Wei An, Qingchuan Chen, Hui Xu
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0183103

Uncovering robust patterns of microRNA co-expression across cancers using Bayesian Relevance Networks
Cited by: 6
Author(s): Parameswaran Ramachandran, Daniel Sánchez-Taltavull, Theodore J. Perkins
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0202763

Identification of biomarkers for Barcelona Clinic Liver Cancer staging and overall survival of patients with hepatocellular carcinoma
Cited by: 28
Author(s): Wei Xu, Quan Rao, Yunqing An, Mengyi Li, Zhongtao Zhang
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0119201

Acceleration of Age-Associated Methylation Patterns in HIV-1-Infected Adults
Cited by: 99
Author(s): Tammy M. Rickabaugh, Ruth Baxter, Mary E. Sehl, Janet S. Sinsheimer, Patricia M. Hultin, Lance E. Hultin, Austin Quach, Otoniel Martı́nez-Maza, Steve Horvath, Éric Vilain, Beth D. Jamieson
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0082340

Analysis of Time-Resolved Gene Expression Measurements across Individuals
Cited by: 7
Author(s): Laura L. Elo, Benno Schwikowski
Software Mentions: 1
Published: almost 13 years ago

10.1186/s12876-017-0637-2

miR-363-5p as potential prognostic marker for hepatocellular carcinoma indicated by weighted co-expression network analysis of miRNAs and mRNA
Cited by: 18
Author(s): Jun Zhang, Jia Fan, Chongming Zhou, Yanyu Qi
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0148287

Genome-Wide Analysis of the Lysine Biosynthesis Pathway Network during Maize Seed Development
Cited by: 5
Author(s): Yuwei Liu, Shaojun Xie, Jingjuan Yu
Software Mentions: 1
Published: over 10 years ago

10.1111/jcmm.15561

Systematic analysis on multiple Gene Expression Omnibus data sets reveals fierce immune response in hepatitis B virus‐related acute liver failure
Cited by: 3
Author(s): Huadi Chen, Wenting Zhao, Yixi Zhang, Yiwen Guo, Weixin Luo, Xiaobo Wang, Yu Nie, Maodong Ye, Changjun Huang, Dongping Wang, Maogen Chen, Xiaoshun He, Qiang Zhao
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0140629

Identification of Photosynthesis-Associated C4 Candidate Genes through Comparative Leaf Gradient Transcriptome in Multiple Lineages of C3 and C4 Species
Cited by: 45
Author(s): Zehong Ding, S. Weissmann, Minghui Wang, Baijuan Du, Lei Huang, Lin Wang, Tu X, Silin Zhong, Christopher R. Myers, Thomas P. Brutnell, Qi Sun, Pinghua Li
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12862-017-1036-6

Annotating long intergenic non-coding RNAs under artificial selection during chicken domestication
Cited by: 12
Author(s): Yun-Mei Wang, Haibo Xu, Mingshan Wang, Newton O. Otecko, Lingqun Ye, Dongdong Wu, Yaping Zhang
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0123678

Identification of Common Regulators of Genes in Co-Expression Networks Affecting Muscle and Meat Properties
Cited by: 23
Author(s): Siriluck Ponsuksili, Puntita Siengdee, Yang Du, Nares Trakooljul, Eduard Muráni, Manfred Schwerin, Klaus Wimmers
Software Mentions: 1
Published: over 11 years ago

10.1111/jcmm.15690

Landscape of associations between long non‐coding RNAs and infiltrating immune cells in liver hepatocellular carcinoma
Cited by: 7
Author(s): Li Li, Xiaowei Song, Yanju Lv, Qi Jiang, Chengjuan Fan, Dayong Huang
Software Mentions: 1
Published: about 6 years ago

10.1111/jcmm.15923

GNG5 is an unfavourable independent prognostic indicator of gliomas
Cited by: 11
Author(s): Biao Yang, Zhaolong Han, Wen‐Juan Wang, Yupo Ma, Sheng‐Hua Chu
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0033748

Identification of Gene Modules Associated with Drought Response in Rice by Network-Based Analysis
Cited by: 62
Author(s): Lida Zhang, Shunwu Yu, Kaijing Zuo, Lijun Luo, Kexuan Tang
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0156598

Identification of the MicroRNA Repertoire in TLR-Ligand Challenged Bubaline PBMCs as a Model of Bacterial and Viral Infection
Cited by: 11
Author(s): Jasdeep Singh, C.S. Mukhopadhyay, Simarjeet Kaur, Purnima Malhotra, R. S. Sethi, Ratan K. Choudhary
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0170870

Preferential expression of scores of functionally and evolutionarily diverse DNA and RNA-binding proteins during Oxytricha trifallax macronuclear development
Cited by: 7
Author(s): Zachary T. Neeb, Daniel J. Hogan, Sol Katzman, Alan M. Zahler
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0183359

Titanium biomaterials with complex surfaces induced aberrant peripheral circadian rhythms in bone marrow mesenchymal stromal cells
Cited by: 18
Author(s): Nathaniel Hassan, Kirstin McCarville, Kenzo Morinaga, Cristiane Machado Mengatto, Peter Langfelder, Akishige Hokugo, Yu Tahara, Christopher S. Colwell, Ichiro Nishimura
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0100204

Whole Brain Expression of Bipolar Disorder Associated Genes: Structural and Genetic Analyses
Cited by: 23
Author(s): Michael J. McCarthy, Sheng-Fu Liang, Andrea D. Spadoni, John R. Kelsoe, Alan N. Simmons
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0077629

Serum Metabolomics of Slow vs. Rapid Motor Progression Parkinson’s Disease: a Pilot Study
Cited by: 101
Author(s): James R. Roede, Karan Uppal, Youngja Park, Kichun Lee, ViLinh Tran, Douglas I. Walker, Frederick H. Strobel, Shannon Rhodes, Beate Ritz, Dean P. Jones
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0134706

Interleukin 21 Controls mRNA and MicroRNA Expression in CD40-Activated Chronic Lymphocytic Leukemia Cells
Cited by: 15
Author(s): Loris De Cecco, Matteo Capaia, Simona Zupo, Giovanna Cutrona, Serena Matis, Antonella Brizzolara, Anna Maria Orengo, Michela Croce, Edoardo Marchesi, Manlio Ferrarini, Silvana Canevari, Silvano Ferrini
Software Mentions: 1
Published: about 11 years ago

10.1186/s12872-016-0217-3

Weighted gene co-expression network analysis identifies specific modules and hub genes related to coronary artery disease
Cited by: 66
Author(s): Jing Liu, Ling Jing, Xilin Tu
Software Mentions: 1
Published: over 10 years ago

10.3390/ijms22189954

WGCNA Identifies Translational and Proteasome-Ubiquitin Dysfunction in Rett Syndrome
Cited by: 7
Author(s): Florencia Haase, Brian Gloss, Patrick Tam, Wendy Gold
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0020716

Hippocampal Gene Expression Analysis Highlights Ly6a/Sca-1 as Candidate Gene for Previously Mapped Novelty Induced Behaviors in Mice
Cited by: 6
Author(s): Simone de Jong, Martien Kas, Jeffrey Kiernan, Annetrude J G de Mooij-van Malsen, Hugo Oppelaar, Esther Janson, Igor Vukobradovic, Charles R. Farber, William L. Stanford, Roel A. Ophoff
Software Mentions: 1
Published: over 15 years ago

10.18632/aging.102653

Network analysis of human muscle adaptation to aging and contraction
Cited by: 14
Author(s): Craig R. G. Willis, Ryan M. Ames, Colleen S. Deane, Bethan E. Phillips, Catherine Boereboom, Haitham Abdulla, Syed S I Bukhari, Jonathan N. Lund, John P. Williams, Daniel J. Wilkinson, Kenneth Smith, Fawzi Kadi, Nathaniel J. Szewczyk, Philip J. Atherton, Timothy Etheridge
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.10385

The m6A reader protein YTHDC2 is a potential biomarker and associated with immune infiltration in head and neck squamous cell carcinoma
Cited by: 27
Author(s): Yang Li, Ji-Na Zheng, En-Hao Wang, Chan-Juan Gong, Keng-Fu Lan, Xiaobo Ding
Software Mentions: 1
Published: almost 6 years ago

10.7717/peerj.8318

Gene co-expression network for analysis of plasma exosomal miRNAs in the elderly as markers of aging and cognitive decline.
Cited by: 7
Author(s): Ye Zheng, Bo Sun, Xue Mi, Xiao Zhang
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.8504

A transcriptional co-expression network-based approach to identify prognostic biomarkers in gastric carcinoma
Cited by: 5
Author(s): Danqi Liu, Boting Zhou, Rangru Liu
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.7197

Screening of immunosuppressive factors for biomarkers of breast cancer malignancy phenotypes and subtype-specific targeted therapy
Cited by: 2
Author(s): Ping Wang, Jiaxuan Liu, Yunlei Song, Qiang Liu, Chao Wang, Caiyun Qian, Shuhua Zhang, Weixing Zhu, Xiaohong Yang, Fang Wan, Kebin Liu, Daya Luo
Software Mentions: 1
Published: about 7 years ago

10.7717/peerj.8843

Identification of key gene modules and hub genes of human mantle cell lymphoma by coexpression network analysis
Cited by: 12
Author(s): Dongmei Guo, Hongchun Wang, Li Sun, Shuang Liu, Shisuo Du, Wenming Qiao, Weiyan Wang, Gang Hou, Kaigang Zhang, Chunpu Li, Qingliang Teng
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.10198

Construction and analysis of macrophage infiltration related circRNA-miRNA-mRNA regulatory networks in hepatocellular carcinoma
Cited by: 10
Author(s): Yuhan Chen, Yalin Li, Guanglei Zheng, Pengyu Zhou
Software Mentions: 1
Published: almost 6 years ago

10.1111/acel.12788

Synergistic effects of TGFβ2, WNT9a, and FGFR4 signals attenuate satellite cell differentiation during skeletal muscle development
Cited by: 19
Author(s): Weiya Zhang, Yongming Xu, Lu Zhang, Sheng Wang, Binxu Yin, Zhao Song, Xinyun Li
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-10127-1

Analysis of temporal expression profiles after sciatic nerve injury by bioinformatic method
Cited by: 4
Author(s): Yichong Zhang, Yuanbo Zhan, Ning Han, Yuhui Kou, Xiaofeng Yin, Peixun Zhang
Software Mentions: 1
Published: about 9 years ago

10.7717/peerj.7722

<i>CD36</i> identified by weighted gene co-expression network analysis as a hub candidate gene in lupus nephritis
Cited by: 14
Author(s): Huiying Yang, Hua Li
Software Mentions: 1
Published: almost 7 years ago

10.18632/aging.102422

Selected by gene co-expression network and molecular docking analyses, ENMD-2076 is highly effective in glioblastoma-bearing rats
Cited by: 16
Author(s): Sheng Zhong, Yang Bai, Bo Wu, Junliang Ge, Shanshan Jiang, Weihang Li, Xinhui Wang, Junan Ren, Haidong Xu, Yong Chen
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12989-019-0321-5

An in-depth multi-omics analysis in RLE-6TN rat alveolar epithelial cells allows for nanomaterial categorization
Cited by: 24
Author(s): Isabel Karkossa, Anne Bannuscher, Bryan Hellack, Aileen Bahl, Sophia Buhs, Peter Nollau, Andreas Luch, Kristin Schubert, Martin von Bergen, Andrea Haase
Software Mentions: 1
Published: almost 7 years ago

10.3390/v11080683

Hepatitis C Virus as a Unique Human Model Disease to Define Differences in the Transcriptional Landscape of T Cells in Acute versus Chronic Infection
Cited by: 5
Author(s): David Wolski, Georg M. Lauer
Software Mentions: 1
Published: about 7 years ago

10.18632/aging.102816

Cancer stem cell-specific expression profiles reveal emerging bladder cancer biomarkers and identify circRNA_103809 as an important regulator in bladder cancer
Cited by: 19
Author(s): Tao Tao, Simin Yuan, Jinjian Liu, Da Shi, Mian Peng, Chong Li, Song Wu
Software Mentions: 1
Published: over 6 years ago

10.1186/s12985-019-1231-8

Identifying novel biomarkers of the pediatric influenza infection by weighted co-expression network analysis
Cited by: 19
Author(s): Mohadeseh Zarei Ghobadi, Sayed‐Hamidreza Mozhgani, Mahdieh Farzanehpour, Farida Behzadian
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-14120-6

Early-onset and classical forms of type 2 diabetes show impaired expression of genes involved in muscle branched-chain amino acids metabolism
Cited by: 45
Author(s): María Isabel Hernández‐Álvarez, Ángels Díaz-Ramos, María Berdasco, Jeff E. Cobb, Evarist Planet, Diane Cooper, Agnieszka Pazderska, Krzystof Wanic, Declan O’Hanlon, Antonio Gómez, Laura Rodríguez de la Ballina, Manel Esteller, Manuel Palacı́n, Donal J. O'Gorman, John J. Nolan, António Zorzano
Software Mentions: 1
Published: almost 9 years ago

10.15252/msb.20145399

Integrative network analysis reveals molecular mechanisms of blood pressure regulation
Cited by: 92
Author(s): Tianxiao Huan, Qingying Meng, Mohamed A. Saleh, Allison E. Norlander, Roby Joehanes, Jun Zhu, Brian H. Chen, Bin Zhang, Andrew D. Johnson, Saixia Ying, Paul Courchesne, Nalini Raghavachari, Thomas J. Wang, Poching Liu, Christopher J. O’Donnell, Ramachandran S. Vasan, Peter J. Munson, Meena S Madhur, David G. Harrison, Xia Yang, Daniel Levy
Software Mentions: 1
Published: over 11 years ago

10.1038/s41380-018-0243-x

Adolescent exposure to Δ9-tetrahydrocannabinol alters the transcriptional trajectory and dendritic architecture of prefrontal pyramidal neurons
Cited by: 74
Author(s): Michael L. Miller, Benjamin Chadwick, Dara L. Dickstein, Immanuel Purushothaman, Gábor Egervári, Tanni Rahman, Chloé Tessereau, Patrick R. Hof, Panos Roussos, Li Shen, Mark G. Baxter, Yasmin L. Hurd
Software Mentions: 1
Published: almost 8 years ago

10.1186/s13024-018-0268-2

TMEM106B haplotypes have distinct gene expression patterns in aged brain
Cited by: 29
Author(s): Yingxue Ren, Marka van Blitterswijk, Mariet Allen, Minerva M. Carrasquillo, Joseph S. Reddy, Xue Wang, Thomas G. Beach, Dennis W. Dickson, Nilüfer Ertekin-Taner, Yan W. Asmann, Rosa Rademakers
Software Mentions: 1
Published: about 8 years ago

10.1186/s12872-021-01973-z

Comparative transcriptome analysis of transcripts of uncertain coding potential in septic myocardial depression
Cited by: 1
Author(s): Tie-Ning Zhang, Ri Wen, Ni Yang, Chunfeng Liu
Software Mentions: 1
Published: over 5 years ago

10.1186/s13024-016-0085-4

Frontotemporal dementia: insights into the biological underpinnings of disease through gene co-expression network analysis
Cited by: 39
Author(s): Raffaele Ferrari, Paola Forabosco, Jana Vandrovcová, Juan A. Botía, Sebastian Guelfi, Jason D. Warren, Parastoo Momeni, Michael E. Weale, Mina Ryten, John Hardy
Software Mentions: 1
Published: over 10 years ago

10.1007/s12035-021-02388-9

Sorting Out Sorting Nexins Functions in the Nervous System in Health and Disease
Cited by: 13
Author(s): Neide Vieira, Teresa Rito, Margarida Correia-Neves, Nuno Sousa
Software Mentions: 1
Published: over 5 years ago

10.18632/aging.104075

Weighted gene correlation network analysis identifies microenvironment-related genes signature as prognostic candidate for Grade II/III glioma
Cited by: 3
Author(s): Yong Li, Gang Deng, Huikai Zhang, Yangzhi Qi, Lun Gao, Yinqiu Tan, Ping Hu, Yixuan Wang, Baohui Liu
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-017-18287-w

Integrated transcriptional analysis unveils the dynamics of cellular differentiation in the developing mouse hippocampus
Cited by: 6
Author(s): Giovanni Iacono, Marco Benevento, Aline Dubos, Yann Hérault, Hans van Bokhoven, Nael Nadif Kasri, Hendrik G. Stunnenberg
Software Mentions: 1
Published: over 8 years ago

10.1186/s10020-019-0135-9

Identification of biomarkers in common chronic lung diseases by co-expression networks and drug-target interactions analysis
Cited by: 29
Author(s): Mazaher Maghsoudloo, Sadegh Azimzadeh Jamalkandi, Ali Najafi, Ali Masoudi‐Nejad
Software Mentions: 1
Published: over 6 years ago

10.1002/mgg3.427

Identification and functional annotation of metabolism-associated lncRNAs and their related protein-coding genes in gastric cancer
Cited by: 14
Author(s): Xiaoyan Mo, Tianwen Li, Youhua Xie, Linwen Zhu, Bingxiu Xiao, Qi Liao, Junming Guo
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-017-18084-5

A Global View of Transcriptome Dynamics During Male Floral Bud Development in Populus tomentosa
Cited by: 25
Author(s): Zhong Chen, Pian Rao, Xiaoyu Yang, Xiaoxing Su, Tianyun Zhao, Kai Gao, Xiong Yang, Xinmin An
Software Mentions: 1
Published: over 8 years ago

10.1002/mgg3.1478

Identification of a missense <i>ARSA</i> mutation in metachromatic leukodystrophy and its potential pathogenic mechanism
Cited by: 2
Author(s): Liyuan Guo, Bo Jin, Yidan Zhang, Jing Wang
Software Mentions: 1
Published: about 6 years ago

10.1093/jnci/djx121

Targeting the Myofibroblastic Cancer-Associated Fibroblast Phenotype Through Inhibition of NOX4
Cited by: 125
Author(s): Christopher J. Hanley, Massimiliano Mellone, Kirsty Ford, Steve Thirdborough, Toby Mellows, Steven J. Frampton, David M. Smith, Elena L. Harden, Cédric Szyndralewiez, Marc D. Bullock, Fergus Noble, Karwan A. Moutasim, Emma V. King, Pandurangan Vijayanand, Alex H. Mirnezami, Tim Underwood, Christian Ottensmeier, Gareth J. Thomas
Software Mentions: 1
Published: about 9 years ago

10.1186/s12872-021-02211-2

Identification of key miRNAs and mRNAs related to coronary artery disease by meta-analysis
Cited by: 3
Author(s): Long Liu, Jingze Zhang, Mei Yi Wu, Haiming Xu
Software Mentions: 1
Published: almost 5 years ago

10.3390/molecules22060889

Comprehensive Characterization for Ginsenosides Biosynthesis in Ginseng Root by Integration Analysis of Chemical and Transcriptome
Cited by: 21
Author(s): Jingjing Zhang, He Su, Lei Zhang, Baosheng Liao, Shaobo Xiao, Lixin Dong, Zhigang Hu, Ping Wang, Xiwen Li, Zhixing Huang, Zhiming Gao, Lianjuan Zhang, Liang Shen, Ruiyang Cheng, Jiang Xu, Shilin Chen
Software Mentions: 1
Published: over 9 years ago

10.3390/molecules25010190

Metabolome and Transcriptome Analysis Reveals Putative Genes Involved in Anthocyanin Accumulation and Coloration in White and Pink Tea (Camellia sinensis) Flower
Cited by: 51
Author(s): Caibi Zhou, Xin Mei, Dylan O’Neill Rothenberg, Zuoren Yang, Wenting Zhang, Shihua Wan, Haijun Yang, Lingyun Zhang
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-018-21524-5

Consequences of VHL Loss on Global DNA Methylome
Cited by: 14
Author(s): Claire M. Robinson, François Lefebvre, Betty Poon, Aurélie Bousard, Xiaojun Fan, Mark Lathrop, Jörg Tost, William Y. Kim, Yasser Riazalhosseini, Michael Ohh
Software Mentions: 1
Published: over 8 years ago

10.1074/mcp.RA118.001021

Characterization of Proteome Variation During Modern Maize Breeding*
Cited by: 34
Author(s): Luguang Jiang, Bo Li, Shengxue Liu, Hongwei Wang, Cuiping Li, Shuhui Song, Mary Beatty, Gina Zastrow-Hayes, Xiaohong Yang, Feng Qin, Yan He
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-018-21779-y

An Epidemiological Human Disease Network Derived from Disease Co-occurrence in Taiwan
Cited by: 19
Author(s): Yefei Jiang, Shuangge Ma, Ben‐Chang Shia, Tian Shyug Lee
Software Mentions: 1
Published: over 8 years ago

10.1186/s12974-016-0603-x

Pathways and gene networks mediating the regulatory effects of cannabidiol, a nonpsychoactive cannabinoid, in autoimmune T cells
Cited by: 51
Author(s): Ewa Kozela, Ana Juknat, Fuying Gao, Nathali Kaushansky, Giovanni Coppola, Zvi Vogel
Software Mentions: 1
Published: over 10 years ago

Projects: cran: WGCNA

Science Score: 85/100

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Papers Mentioning WGCNA 3,479