Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: WGCNA

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/WGCNA

Weighted Correlation Network Analysis
52 versions
Latest release: about 2 years ago
20 dependent packages
9,120 downloads last month

Papers Mentioning WGCNA 3,479

10.1038/s41598-020-59934-z
Immunosuppressive effect and global dysregulation of blood transcriptome in response to psychosocial stress in vervet monkeys (Chlorocebus sabaeus)
Cited by: 2
Author(s): Anna J. Jasinska, Ivona Pandrea, Tianyu He, Cassandra Benjamin, Maurice Newton, Jen‐Chieh Lee, Nelson B. Freimer, Giovanni Coppola, J. David Jentsch
Software Mentions: 4
Published: almost 5 years ago
10.3389/fgene.2020.597459
Pearl Sac Gene Expression Profiles Associated With Pearl Attributes in the Silver-Lip Pearl Oyster, Pinctada maxima
Cited by: 9
Author(s): Carmel McDougall, Felipe Aguilera, Ali Shokoohmand, Patrick Moase, Bernard M. Degnan
Software Mentions: 4
Published: about 4 years ago
10.3389/fgene.2021.735103
Editorial: Computational Tools in Inferring Cancer Tissue-of-Origin and Molecular Classification Towards Personalized Cancer Therapy, Volume II
Cited by: 0
Author(s): Ling Kui, Wenzhe Mao, Aasim Majeed, Jian Chen
Software Mentions: 4
Published: over 3 years ago
10.3389/fgene.2020.00427
Bioinformatics Analysis Reveals Biomarkers With Cancer Stem Cell Characteristics in Lung Squamous Cell Carcinoma
Cited by: 38
Author(s): Yi Liao, Hua Xiao, Mengqing Cheng, Xiaoxuan Fan
Software Mentions: 4
Published: almost 5 years ago
10.1155/2016/4241293
Differential Regulatory Analysis Based on Coexpression Network in Cancer Research
Cited by: 12
Author(s): Junyi Li, Yixue Li, Yuanyuan Li
Software Mentions: 4
Published: about 9 years ago
10.1186/s12864-017-4392-0
Molecular characterization of larval development from fertilization to metamorphosis in a reef-building coral
Cited by: 36
Author(s): Marie E. Strader, Galina V. Aglyamova, Mikhail V. Matz
Software Mentions: 4
Published: about 7 years ago
10.1038/s41598-020-61633-8
MicroRNA hsa-mir-3923 serves as a diagnostic and prognostic biomarker for gastric carcinoma
Cited by: 11
Author(s): Xiaohui Yang, Ze Zhang, Lichao Zhang, Li Zhou
Software Mentions: 4
Published: almost 5 years ago
10.3389/fgene.2020.00650
Genome Regulation and Gene Interaction Networks Inferred From Muscle Transcriptome Underlying Feed Efficiency in Pigs
Cited by: 9
Author(s): Victor Adriano Okstoft Carmelo, Haja N. Kadarmideen
Software Mentions: 4
Published: over 4 years ago
10.1038/s41598-019-53471-0
Feature selection with the Fisher score followed by the Maximal Clique Centrality algorithm can accurately identify the hub genes of hepatocellular carcinoma
Cited by: 31
Author(s): Chengzhang Li, Jiucheng Xu
Software Mentions: 4
Published: about 5 years ago
10.1038/s41598-019-54051-y
Widespread Sexual Dimorphism in the Transcriptome of Human Airway Epithelium in Response to Smoking
Cited by: 12
Author(s): Cheng Wei Tony Yang, Henry Shi, Irving Ding, Stephen Milne, Ana I Hernández Cordero, Edward Kyoo Hoon Kim, Tillie L. Hackett, Janice M. Leung, Don D. Sin, Ma’en Obeidat
Software Mentions: 4
Published: about 5 years ago
10.3389/fgene.2021.661296
Combined Analysis of Volatile Terpenoid Metabolism and Transcriptome Reveals Transcription Factors Related to Terpene Synthase in Two Cultivars of Dendrobium officinale Flowers
Cited by: 20
Author(s): Ninghong Li, Yan Dong, Min Lv, Qian Li, Xinwei Sun, Liu Lin, Yongping Cai, Honghong Fan
Software Mentions: 4
Published: almost 4 years ago
10.1155/2020/3416807
Identification of Hub Genes as Biomarkers Correlated with the Proliferation and Prognosis in Lung Cancer: A Weighted Gene Co-Expression Network Analysis
Cited by: 2
Author(s): Xuting Xu, Limin Xu, Huilian Huang, Jing Li, Shunli Dong, Lili Jin, Zhiyong Ma, Liqin Li
Software Mentions: 4
Published: over 4 years ago
10.1186/s12859-019-2596-9
Assessment of weighted topological overlap (wTO) to improve fidelity of gene co-expression networks
Cited by: 8
Author(s): André Voigt, Eivind Almaas
Software Mentions: 4
Published: about 6 years ago
10.3389/fgene.2021.645443
Global Transcriptome and Weighted Gene Co-expression Network Analyses of Growth-Stage-Specific Drought Stress Responses in Maize
Cited by: 21
Author(s): Songtao Liu, Tinashe Zenda, Anyi Dong, Yatong Yang, Nan Wang, Huijun Duan
Software Mentions: 4
Published: about 4 years ago
10.3389/fgene.2021.668448
Integrated Analysis of lncRNAs, mRNAs, and TFs to Identify Regulatory Networks Underlying MAP Infection in Cattle
Cited by: 6
Author(s): Maryam Heidari, A. Pakdel, Mohammad Reza Bakhtiarizadeh, Fariba Dehghanian
Software Mentions: 4
Published: over 3 years ago
10.1038/s41398-017-0058-6
Enriched expression of genes associated with autism spectrum disorders in human inhibitory neurons
Cited by: 43
Author(s): Ping Wang, Dejian Zhao, Herbert M. Lachman, Deyou Zheng
Software Mentions: 4
Published: about 7 years ago
10.1038/s41598-019-47454-4
Glial gene networks associated with alcohol dependence
Cited by: 38
Author(s): Emma K. Erickson, Yuri A. Blednov, R. Adron Harris
Software Mentions: 4
Published: over 5 years ago
10.1371/journal.pone.0170025
Underexpression of Specific Interferon Genes Is Associated with Poor Prognosis of Melanoma
Cited by: 12
Author(s): Aamir Zainulabadeen, Philip Yao, Habil Zare
Software Mentions: 4
Published: about 8 years ago
10.1038/s41598-019-43881-5
Comprehensive and Systematic Analysis of Gene Expression Patterns Associated with Body Mass Index
Cited by: 13
Author(s): Paule V. Joseph, Rosario B. Jaime-Lara, Yupeng Wang, Lichen Xiang, Wendy A. Henderson
Software Mentions: 4
Published: almost 6 years ago
10.1038/s41598-019-44266-4
Transcriptomics Analysis Reveals New Insights into the Roles of Notch1 Signaling on Macrophage Polarization
Cited by: 21
Author(s): Chetan P. Hans, Neekun Sharma, Sidharth Sen, Shuai Zeng, Rishabh Dev, Yuyong Jiang, Advitiya Mahajan, Trupti Joshi
Software Mentions: 4
Published: over 5 years ago
10.1038/s41598-019-45236-6
In-silico Prediction of Synergistic Anti-Cancer Drug Combinations Using Multi-omics Data
Cited by: 55
Author(s): Remzi Çelebi, Oliver Bear Don't Walk, Rajiv Movva, Semih Alpsoy, Michel Dumontier
Software Mentions: 4
Published: over 5 years ago
10.1371/journal.pone.0210431
Assessment of complementarity of WGCNA and NERI results for identification of modules associated to schizophrenia spectrum disorders
Cited by: 20
Author(s): Arthur Sant’Anna Feltrin, Ana Carolina Tahira, Sérgio Nery Simões, Helena Brentani, David Martins
Software Mentions: 4
Published: about 6 years ago
10.1038/s41598-019-38965-1
Initial findings of striatum tripartite model in OCD brain samples based on transcriptome analysis
Cited by: 14
Author(s): Bianca Cristina Garcia Lisbôa, Kátia C. Oliveira, Ana Carolina Tahira, André Rocha Barbosa, Arthur Sant’Anna Feltrin, Gisele Rodrigues Gouveia, Luzia Carreira Lima, Ana Cecília Feio dos Santos, David Martins, Renato Puga, Ariane Cristine Moretto, Carlos Alberto de Bragança Pereira, Beny Lafer, Renata Elaine Paraízo Leite, Renata Eloah de Lucena Ferretti‐Rebustini, José Marcelo Farfel, Lea T. Grinberg, Wilson Jacob‐Filho, Eurí­pedes Constantino Miguel, Marcelo Q. Hoexter, Helena Brentani
Software Mentions: 4
Published: almost 6 years ago
10.1155/2020/4908427
Comprehensive Analysis of mRNA Expression Profiles in Head and Neck Cancer by Using Robust Rank Aggregation and Weighted Gene Coexpression Network Analysis
Cited by: 4
Author(s): Zijian Cao, Yin-Jie Ao, Yu Guo, Shui‐Hong Zhou
Software Mentions: 4
Published: about 4 years ago
10.1186/s12864-016-3070-y
The polymyxin B-induced transcriptomic response of a clinical, multidrug-resistant Klebsiella pneumoniae involves multiple regulatory elements and intracellular targets
Cited by: 27
Author(s): Pablo Ivan Pereira Ramos, Márlon Grégori Flores Custódio, Guadalupe del Rosario Quispe Saji, Thiago Bérgamo Cardoso, Gisele Lucchetti da Silva, Graziela Braun, Willames M. B. S. Martins, Raquel Girardello, Ana Tereza Ribeiro de Vasconcelos, Elmer Fernández, Ana Cristina Gales, Marisa Fabiana Nicolás
Software Mentions: 4
Published: over 8 years ago
10.3389/fgene.2019.01214
Weighted Gene Co-Expression Network Analysis Identifies Critical Genes in the Development of Heart Failure After Acute Myocardial Infarction
Cited by: 59
Author(s): Xiaowei Niu, Jingjing Zhang, Lanlan Zhang, Yufei Hou, Shuangshuang Pu, Ai-Ai Chu, Ming Bai, Zheng Zhang
Software Mentions: 4
Published: about 5 years ago
10.1038/s41598-019-41298-8
Regeneration associated transcriptional signature of retinal microglia and macrophages
Cited by: 54
Author(s): Diana Mitchell, Chi Sun, Samuel S. Hunter, Daniel D. New, Deborah L. Stenkamp
Software Mentions: 4
Published: almost 6 years ago
10.1186/s12864-021-07881-y
Comprehensive analysis of lncRNAs involved in skeletal muscle development in ZBED6-knockout Bama pigs
Cited by: 5
Author(s): Dandan Wang, Pu Yun, Yefang Li, Dengke Pan, Shengnan Wang, Wenjie Tian, Yuehui Ma, Lin Jiang
Software Mentions: 4
Published: over 3 years ago
10.3389/fgene.2021.680413
Identification of a Prognostic Signature for Ovarian Cancer Based on the Microenvironment Genes
Cited by: 9
Author(s): Xiao Huo, Hengzi Sun, Shuangwu Liu, Bing Liang, Huimin Bai, Shuzhen Wang, Shuhong Li
Software Mentions: 4
Published: almost 4 years ago
10.3389/fgene.2021.695699
Integrated Analysis of mRNA- and miRNA-Seq in the Ovary of Rare Minnow Gobiocypris rarus in Response to 17α-Methyltestosterone
Cited by: 3
Author(s): Shaozhen Liu, Qiong Yang, Yue Chen, Qing Liu, Weiwei Wang, Jing Song, Yao Zheng, Wenzhong Liu
Software Mentions: 4
Published: over 3 years ago
10.1038/s41598-018-35578-y
Gene mutation associated with esl mediates shifts on fungal community composition in rhizosphere soil of rice at grain-filling stage
Cited by: 1
Author(s): Puleng Letuma, Yasir Arafat, Muhammad Mohsin Waqas, Feifan Lin, Wenxiong Lin, Yiyang Zhang, Mamello Masita, Kai Fan, Zhaowei Li
Software Mentions: 4
Published: about 6 years ago
10.3389/fgene.2021.634171
Weighted Gene Co-expression Network Analysis Reveals Different Immunity but Shared Renal Pathology Between IgA Nephropathy and Lupus Nephritis
Cited by: 6
Author(s): Niya Jia, Xing-Zi Liu, Zhao Zhang, Hong Zhang
Software Mentions: 4
Published: almost 4 years ago
10.1038/s41598-018-37284-1
A gene expression signature in developing Purkinje cells predicts autism and intellectual disability co-morbidity status
Cited by: 12
Author(s): Harry Clifford, Anna Dulneva, Chris P. Ponting, Wilfried Haerty, Esther B. E. Becker
Software Mentions: 4
Published: about 6 years ago
10.1038/s41598-018-26438-w
Unravelling miRNA regulation in yield of rice (Oryza sativa) based on differential network model
Cited by: 21
Author(s): Jihong Hu, Tao Zeng, Xia QiongMei, Qian Qian, Chunrong Yang, Yi Ding, Luonan Chen, Wen Wang
Software Mentions: 4
Published: over 6 years ago
10.18632/aging.103859
Weighted gene coexpression network analysis identifies the key role associated with acute coronary syndrome
Cited by: 4
Author(s): Yong Wang, Miao Liu, Tao Lin, Jianhong Chen, Chuan-Meng Zhu, Ye Li, Bin Qi, Fei Liao, Rongshan Li
Software Mentions: 4
Published: over 4 years ago
10.18632/aging.102275
Co-expression network analysis identified hub genes critical to triglyceride and free fatty acid metabolism as key regulators of age-related vascular dysfunction in mice
Cited by: 52
Author(s): Huimin Li, Xinhui Wang, Xinyue Lu, Hongxin Zhu, Sheng Li, Shiwei Duan, Xinzhi Zhao, Fuquan Zhang, Gil Alterovitz, Fudi Wang, Qiang Li, Xiao-Li Tian, Mingqing Xu
Software Mentions: 4
Published: over 5 years ago
10.1186/s12864-020-06789-3
Distinctions between sex and time in patterns of DNA methylation across puberty
Cited by: 11
Author(s): Sarah R. Moore, Kathryn L. Humphreys, Natalie L. Colich, Elena Goetz Davis, David Lin, Julia L. MacIsaac, Michæl S. Kobor, Ian H. Gotlib
Software Mentions: 4
Published: over 4 years ago
10.1038/s41598-018-27172-z
Heterogeneity of interactions of microbial communities in regions of Taihu Lake with different nutrient loadings: A network analysis
Cited by: 32
Author(s): Xinyi Cao, Dayong Zhao, Huimin Xu, Rui Huang, Jin Zeng, Zhigang Yu
Software Mentions: 4
Published: over 6 years ago
10.1038/s41598-017-11327-5
Genome-wide identification and co-expression network analysis provide insights into the roles of auxin response factor gene family in chickpea
Cited by: 26
Author(s): Vikash Singh, Mohan Singh Rajkumar, Rohini Garg, Mukesh Jain
Software Mentions: 4
Published: over 7 years ago
10.1186/s12917-020-02430-3
Gut microbiota profiles of commercial laying hens infected with tumorigenic viruses
Cited by: 1
Author(s): Xianhua Wan, Laipeng Xu, Xiaolun Sun, Hui Li, Fengbin Yan, Ruili Han, Hong Li, Zhuanjian Li, Yadong Tian, Xiaojun Liu, Xin Kang, Zhenya Wang, Yanbin Wang
Software Mentions: 4
Published: over 4 years ago
10.1038/s41598-017-19072-5
Integrative approach using liver and duodenum RNA-Seq data identifies candidate genes and pathways associated with feed efficiency in pigs
Cited by: 45
Author(s): Yuliaxis Ramayo-Caldas, María Ballester, Juan Pablo Sánchez, Olga González‐Rodríguez, Manuel Revilla, Henry Reyer, Klaus Wimmers, D. Torrallardona, Raquel Quintanilla
Software Mentions: 4
Published: about 7 years ago
10.3389/fgene.2020.581789
Integrated Analysis of Key Genes and Pathways Involved in Fetal Growth Restriction and Their Associations With the Dysregulation of the Maternal Immune System
Cited by: 2
Author(s): Xue Wang, Hong Zhu, Lei Lei, Yang Zhang, Chao Tang, Jingyi Wu, Jing Zhou, Xirong Xiao
Software Mentions: 4
Published: about 4 years ago
10.1186/s12918-017-0440-2
Evaluation and improvement of the regulatory inference for large co-expression networks with limited sample size
Cited by: 14
Author(s): Wenbin Guo, Cristiane P. G. Calixto, Nikoleta A. Τzioutziou, Ping Lin, Robbie Waugh, John W. Brown, Runxuan Zhang
Software Mentions: 4
Published: over 7 years ago
10.1038/s41598-017-05724-z
Comprehensive transcriptomics and proteomics analyses of pollinated and parthenocarpic litchi (Litchi chinensis Sonn.) fruits during early development
Cited by: 14
Author(s): Wei Liu, Maoshan Chen, Lijun Bai, Zhenhua Zhuang, Chao Fan, Jiang Nong-hui, Junsheng Zhao, Shuaipeng Ma, Xiang Xu
Software Mentions: 4
Published: over 7 years ago
10.3389/fgene.2020.00877
Muscle Transcriptome Analysis Reveals Potential Candidate Genes and Pathways Affecting Intramuscular Fat Content in Pigs
Cited by: 25
Author(s): Xueyan Zhao, Hongmei Hu, Haichao Lin, Wang Cheng, Yanping Wang, Jiying Wang
Software Mentions: 4
Published: over 4 years ago
10.1186/1752-0509-7-S5-S1
Co-expression network analysis identifies Spleen Tyrosine Kinase (SYK) as a candidate oncogenic driver in a subset of small-cell lung cancer
Cited by: 68
Author(s): Akshata R. Udyavar, Megan D. Hoeksema, Jonathan E. Clark, Yong Zou, Zuojian Tang, Zhiguo Li, Ming Li, Heidi Chen, Alexander Statnikov, Yu Shyr, Daniel C. Liebler, John K. Field, Rosana Eisenberg, Lourdes Estrada, Pierre P. Massion, Vito Quaranta
Software Mentions: 4
Published: about 11 years ago
10.3389/fmicb.2020.573829
Evolution and Plasticity of the Transcriptome Under Temperature Fluctuations in the Fungal Plant Pathogen Zymoseptoria tritici
Cited by: 2
Author(s): Arthur J. Jallet, Arnaud Le Rouzic, Anne Génissel
Software Mentions: 4
Published: over 4 years ago
10.1371/journal.pone.0122309
Module-Based Association Analysis for Omics Data with Network Structure
Cited by: 5
Author(s): Zhi Wang, Arnab Maity, Chuhsing Kate Hsiao, Deepak Voora, Rima Kaddurah‐Daouk, Jung Ying Tzeng
Software Mentions: 4
Published: almost 10 years ago
10.1371/journal.pone.0149171
RNA-Seq Reveals the Angiogenesis Diversity between the Fetal and Adults Bone Mesenchyme Stem Cell
Cited by: 2
Author(s): Xin Zhao, Yingmin Han, Yu Liang, Chao Nie, Jian Wang
Software Mentions: 4
Published: almost 9 years ago
10.3389/fgene.2021.694777
Identification of Signature Genes Associated With Invasiveness and the Construction of a Prognostic Model That Predicts the Overall Survival of Bladder Cancer
Cited by: 10
Author(s): Yang He, Yu Wu, Zhe Liu, Boping Li, Ning Jiang, Peng Xu, Aiming Xu
Software Mentions: 4
Published: over 3 years ago
10.1038/s41598-019-39274-3
Genome analysis of the rice coral Montipora capitata
Cited by: 49
Author(s): Alexander Shumaker, Hollie M. Putnam, Huan Qiu, Dana C. Price, Ehud Zelzion, Amnon Harel, Nicole Wagner, Ruth D. Gates, Hwan Su Yoon, Debashish Bhattacharya
Software Mentions: 4
Published: almost 6 years ago
10.1038/s41598-021-86536-0
Modular genome-wide gene expression architecture shared by early traits of osteoporosis and atherosclerosis in the Young Finns Study
Cited by: 6
Author(s): Binisha H. Mishra, Pashupati P. Mishra, Emma Raitoharju, Saara Marttila, Nina Mononen, Harri Sievänen, Jorma Viikari, Markus Juonala, Marika Laaksonen, Nina Hutri‐Kähönen, Mika Kähönen, Olli T. Raitakari, Terho Lehtimäki
Software Mentions: 4
Published: almost 4 years ago
10.3389/fgene.2020.00478
Bioinformatics Analysis of Prognostic miRNA Signature and Potential Critical Genes in Colon Cancer
Cited by: 25
Author(s): Weigang Chen, Chang Gao, Yong Liu, Ying Wen, Xiaoling Hong, Zunnan Huang
Software Mentions: 4
Published: over 4 years ago
10.1038/srep12615
Decrease of mRNA Editing after Spinal Cord Injury is Caused by Down-regulation of ADAR2 that is Triggered by Inflammatory Response
Cited by: 27
Author(s): Antonio Fabio Di Narzo, Alexey Kozlenkov, Yongchao Ge, Bin Zhang, Leo Sanelli, Zacnicte May, Yanqing Li, Karim Fouad, Christopher P. Cardozo, Eugene V. Koonin, David J. Bennett, Stella Dracheva
Software Mentions: 4
Published: over 9 years ago
10.1186/s12864-021-07989-1
Global identification of long non-coding RNAs involved in the induction of spinach flowering
Cited by: 11
Author(s): Fatemeh Ghorbani, Reza Abolghasemi, Maryam Haghighi, Nematollah Etemadi, Shui Wang, Marzieh Karimi, Aboozar Soorni
Software Mentions: 4
Published: over 3 years ago
10.1186/s12931-020-01368-2
IRF4 and STAT3 activities are associated with the imbalanced differentiation of T-cells in responses to inhalable particulate matters
Cited by: 2
Author(s): Jinzhun Wu, Dongyu Ge, Taoling Zhong, Zuojia Chen, Ying Zhou, Lingyun Hou, Xinhua Lin, Jiaxu Hong, Kuai Liu, Hui Qi, Chaoying Wang, Yulin Zhou, Cheng Li, Chuan Wu, Shi Wu, Zuguo Liu, Qiyuan Li
Software Mentions: 4
Published: over 4 years ago
10.1186/s13104-019-4471-1
Shiny-Seq: advanced guided transcriptome analysis
Cited by: 26
Author(s): Zenitha Sundararajan, Rainer Knoll, Peter Hombach, Matthias Becker, Joachim L. Schultze, Thomas Ulas
Software Mentions: 4
Published: over 5 years ago
10.18632/aging.101751
miRNA-mRNA crosstalk in myocardial ischemia induced by calcified aortic valve stenosis
Cited by: 12
Author(s): Chenyang Duan, Zhijun Cao, Fuqin Tang, Jian Zhao, Chunshui Liang, Hong Liu, Xiao Ye, Liangming Liu, Rong Ma
Software Mentions: 4
Published: about 6 years ago
10.3389/fgene.2021.628192
KLF4, a Key Regulator of a Transitive Triplet, Acts on the TGF-β Signaling Pathway and Contributes to High-Altitude Adaptation of Tibetan Pigs
Cited by: 7
Author(s): Tao Wang, Yuanyuan Guo, Shengwei Liu, Chaoxin Zhang, Tongyan Cui, Kun Ding, Peng Wang, Xibiao Wang, Zhipeng Wang
Software Mentions: 4
Published: almost 4 years ago
10.3389/fgene.2021.664334
Disruption of Circadian Transcriptome in Lung by Acute Sleep Deprivation
Cited by: 6
Author(s): Yuntao Lu, Bing Liu, Junjie Ma, Shuo Yang, Ju Huang
Software Mentions: 4
Published: almost 4 years ago
10.1007/s00404-019-05336-0
Changes in intestinal microflora in digestive tract diseases during pregnancy
Cited by: 20
Author(s): Min Jin, Dong Li, Rui Ji, Wen Li, Xiaofei Xu, Yanqing Li
Software Mentions: 4
Published: about 5 years ago
10.3389/fgene.2021.630215
Comparing Statistical Tests for Differential Network Analysis of Gene Modules
Cited by: 2
Author(s): Jaron Arbet, Yaxu Zhuang, Elizabeth Litkowski, Laura Saba, Katerina Kechris
Software Mentions: 4
Published: over 3 years ago
10.3389/fgene.2020.00934
Integrated Analysis of a Risk Score System Predicting Prognosis and a ceRNA Network for Differentially Expressed lncRNAs in Multiple Myeloma
Cited by: 8
Author(s): Sijie Zhou, Jiuyuan Fang, Yan Sun, Huixiang Li
Software Mentions: 4
Published: over 4 years ago
10.1126/sciadv.abf9808
Mechanisms underlying divergent responses of genetically distinct macrophages to IL-4
Cited by: 23
Author(s): Marten A. Hoeksema, Zeyang Shen, Inge R. Holtman, An Zheng, Nathan Spann, Isidoro Cobo, Melissa Gymrek, Christopher K. Glass
Software Mentions: 4
Published: over 3 years ago
10.1038/srep33956
A systems biology approach to defining regulatory mechanisms for cartilage and tendon cell phenotypes
Cited by: 19
Author(s): Alan Mueller, Simon R. Tew, Olga Vasieva, Peter Clegg, Elizabeth G. Canty‐Laird
Software Mentions: 4
Published: over 8 years ago
10.3389/fgene.2021.633059
Prediction of a Competing Endogenous RNA Co-expression Network by Comprehensive Methods in Systemic Sclerosis-Related Interstitial Lung Disease
Cited by: 2
Author(s): Yue-Mei Yan, Ji-Na Zheng, Liwei Wu, Qianwen Rao, Qiaorong Yang, Di Gao, Qiang Wang
Software Mentions: 4
Published: over 3 years ago
10.3389/fgene.2020.597803
A Novel Transcriptome Integrated Network Approach Identifies the Key Driver lncRNA Involved in Cell Cycle With Chromium (VI)-Treated BEAS-2B Cells
Cited by: 0
Author(s): Pai Zheng, Yulin Kang, Shuo Han, Huimin Feng, Feizai Ha, Changmao Long, Di Zhou, Guiping Hu, Zhangjian Chen, Zengmiao Wang, Tiancheng Wang, Guang Jia
Software Mentions: 4
Published: about 4 years ago
10.1186/s12870-017-1077-4
Maize network analysis revealed gene modules involved in development, nutrients utilization, metabolism, and stress response
Cited by: 23
Author(s): Shisong Ma, Zehong Ding, Pinghua Li
Software Mentions: 4
Published: over 7 years ago
10.1186/s12870-019-2012-7
Drought tolerance of the grapevine, Vitis champinii cv. Ramsey, is associated with higher photosynthesis and greater transcriptomic responsiveness of abscisic acid biosynthesis and signaling
Cited by: 18
Author(s): Noé Cochetel, Ryan Ghan, Haley S. Toups, Asfaw Degu, Richard L. Tillett, Karen Schlauch, Grant R. Cramer
Software Mentions: 4
Published: about 5 years ago
10.1371/journal.pone.0140049
Transcriptome Analysis of CD4+ T Cells in Coeliac Disease Reveals Imprint of BACH2 and IFNγ Regulation
Cited by: 29
Author(s): Emma M. Quinn, Ciara Coleman, Ben Molloy, Patricia Domínguez Castro, Paul Cormican, Valerie Trimble, Nasir Mahmud, Ross McManus
Software Mentions: 4
Published: over 9 years ago
10.3389/fendo.2021.705154
Weighted Gene Co-Expression Network Analysis Identifies ANGPTL4 as a Key Regulator in Diabetic Cardiomyopathy via FAK/SIRT3/ROS Pathway in Cardiomyocyte
Cited by: 8
Author(s): Lei Dai, Yang Xie, Wenjun Zhang, Xiaodan Zhong, Mengwen Wang, Hongchen Jiang, Zhen He, Xiaolei Liu, Hesong Zeng, Hongjie Wang
Software Mentions: 4
Published: over 3 years ago
10.1371/journal.pone.0171046
Metabox: A Toolbox for Metabolomic Data Analysis, Interpretation and Integrative Exploration
Cited by: 79
Author(s): Kwanjeera Wanichthanarak, Sili Fan, Dmitry Grapov, Dinesh Kumar Barupal, Oliver Fiehn
Software Mentions: 4
Published: about 8 years ago
10.3389/fendo.2020.581768
Identification of the Biomarkers and Pathological Process of Heterotopic Ossification: Weighted Gene Co-Expression Network Analysis
Cited by: 7
Author(s): Shuang Wang, Jun Tian, Jianzhong Wang, Sizhu Liu, Lianwei Ke, Chaojiang Shang, Jichun Yang, Lin Wang
Software Mentions: 4
Published: about 4 years ago
10.1093/jxb/erw006
Evidence for maternal control of seed size in maize from phenotypic and transcriptional analysis
Cited by: 32
Author(s): Xia Zhang, Candice N. Hirsch, Rajandeep S. Sekhon, Natalia de León, Shawn M. Kaeppler
Software Mentions: 4
Published: about 9 years ago
10.1093/jxb/erx224
Root transcriptomic responses of grafted grapevines to heterogeneous nitrogen availability depend on rootstock genotype
Cited by: 38
Author(s): Noé Cochetel, Frédéric Escudié, Sarah Jane Cookson, Zhanwu Dai, Philippe Vivin, Pierre‐François Bert, Mindy Muñoz, Serge Delrot, Christophe Klopp, Nathalie Ollat, Virginie Lauvergeat
Software Mentions: 4
Published: over 7 years ago
10.1186/s12859-018-2053-1
CEMiTool: a Bioconductor package for performing comprehensive modular co-expression analyses
Cited by: 176
Author(s): Pedro Russo, Gustavo Rodrigues Ferreira, Lucas Esteves Cardozo, Matheus Carvalho Bürger, Raúl Arias‐Carrasco, Sandra Regina Maruyama, Thiago Dominguez Crespo Hirata, Diógenes Saulo de Lima, Fernando M. Passos, Kiyoshi F. Fukutani, Melissa Lever, João Silva, Vinicius Maracaja‐Coutinho, Hidehiko Nakaya
Software Mentions: 4
Published: almost 7 years ago
10.3389/fcimb.2019.00225
Cepharanthine Hydrochloride Improves Cisplatin Chemotherapy and Enhances Immunity by Regulating Intestinal Microbes in Mice
Cited by: 25
Author(s): Pengjun Zhou, Ziyao Li, Dandan Xu, Ying Wang, Qi Bai, Yulin Feng, Guifeng Su, Pengxiao Chen, Yao Wang, Huizhong Liu, Xiaogang Wang, Zhang Rong, Yifei Wang
Software Mentions: 4
Published: over 5 years ago
10.1155/2020/4581954
Comprehensive Analysis of Differentially Expressed miRNAs and mRNAs Reveals That miR-181a-5p Plays a Key Role in Diabetic Dermal Fibroblasts
Cited by: 4
Author(s): Peng Liu, Yi Zhu, Qin Li, Biao Cheng
Software Mentions: 4
Published: over 4 years ago
10.1186/s12870-020-2268-y
Modulation of volatile compound metabolome and transcriptome in grape berries exposed to sunlight under dry-hot climate
Cited by: 24
Author(s): Lei He, Xiaoqing Xu, Yu Wang, Wei-Kai Chen, Ruonan Sun, Guodong Cheng, Bin Liu, Changyong Wu, Chang‐Qing Duan, Jun Wang, Qiu-Hong Pan
Software Mentions: 4
Published: about 5 years ago
10.3390/ani10010144
Characterization of Anaerobic Rumen Fungal Community Composition in Yak, Tibetan Sheep and Small Tail Han Sheep Grazing on the Qinghai-Tibetan Plateau
Cited by: 16
Author(s): Wei Guo, Weiwei Wang, Sisi Bi, Ruijun Long, Farman Ullah, Muhammad Shafiq, Mi Zhou, Ying Zhang
Software Mentions: 4
Published: about 5 years ago
10.1371/journal.pone.0228514
Innate immune gene expression in Acropora palmata is consistent despite variance in yearly disease events
Cited by: 12
Author(s): Benjamin Young, Xaymara M. Serrano, Stephanie M. Rosales, Margaret W. Miller, Dana E. Williams, Nikki Traylor-Knowles
Software Mentions: 4
Published: over 4 years ago
10.1186/s12870-021-03149-5
Pathogen and drought stress affect cell wall and phytohormone signaling to shape host responses in a sorghum COMT bmr12 mutant
Cited by: 6
Author(s): Maya Khasin, Lois F. Bernhardson, Patrick M. O’Neill, Nathan A. Palmer, Erin D. Scully, Scott E. Sattler, Deanna L. Funnell‐Harris
Software Mentions: 4
Published: over 3 years ago
10.1186/s12864-015-1816-6
Uncovering co-expression gene network modules regulating fruit acidity in diverse apples
Cited by: 54
Author(s): Yang Bai, Laura Dougherty, Lailiang Cheng, Gan-Yuan Zhong, Kenong Xu
Software Mentions: 4
Published: over 9 years ago
10.18632/aging.202153
Upregulation of KIF20A promotes tumor proliferation and invasion in renal clear cell carcinoma and is associated with adverse clinical outcome
Cited by: 30
Author(s): Xiaohan Ren, Xinglin Chen, Yisheng Ji, Liang-In Lin, Yunxin Li, Chao Qin, Kai Fang
Software Mentions: 4
Published: about 4 years ago
10.1186/s12864-018-4632-y
Gene co-expression networks in liver and muscle transcriptome reveal sex-specific gene expression in lambs fed with a mix of essential oils
Cited by: 18
Author(s): Marcella Sabino, Victor Adriano Okstoft Carmelo, Gianluca Mazzoni, Katia Cappelli, Stefano Capomaccio, Paolo Ajmone‐Marsan, Andrea Verini-Supplizi, Massimo Trabalza‐Marinucci, Haja N. Kadarmideen
Software Mentions: 4
Published: almost 7 years ago
10.1186/s12870-020-02336-0
Morpho-physiological integrators, transcriptome and coexpression network analyses signify the novel molecular signatures associated with axillary bud in chrysanthemum
Cited by: 10
Author(s): Sagheer Ahmad, Cunquan Yuan, Qingqing Yang, Yujie Yang, Tangren Cheng, Jia Wang, Huitang Pan, Qixiang Zhang
Software Mentions: 4
Published: almost 5 years ago
10.1038/s41438-020-00432-8
Transcriptional regulation of bark freezing tolerance in apple (Malus domestica Borkh.)
Cited by: 9
Author(s): Yin Liang, Shanshan Wang, Chang Zhao, Xinwei Ma, Yiyong Zhao, Jing Shao, Yuebo Li, Honglian Li, Song Hong‐wei, Hong Mā, Hao Li, Bingbing Zhang, Liangsheng Zhang
Software Mentions: 4
Published: about 4 years ago
10.1371/journal.ppat.1004959
Fungal Morphology, Iron Homeostasis, and Lipid Metabolism Regulated by a GATA Transcription Factor in Blastomyces dermatitidis
Cited by: 16
Author(s): Amber J. Marty, Aimee Teo Broman, Robert Żarnowski, Teigan G. Dwyer, Laura M. Bond, Anissa Lounès-Hadj Sahraoui, Joël Fontaine, James M. Ntambi, Sündüz Keleş, Christina Kendziorski, Gregory M. Gauthier
Software Mentions: 4
Published: over 9 years ago
10.3389/fcell.2019.00082
Transcriptome Analysis of Small Molecule–Mediated Astrocyte-to-Neuron Reprogramming
Cited by: 30
Author(s): Xin Ning, Jiu Chao Yin, Gong Chen
Software Mentions: 4
Published: over 5 years ago
10.3389/fcell.2021.652300
Development of a Novel Immune Infiltration-Related ceRNA Network and Prognostic Model for Sarcoma
Cited by: 1
Author(s): Deyao Shi, Shidai Mu, Feifei Pu, Botao Zhong, Binwu Hu, Jianxiang Liu, Tong‐Chuan He, Zhicai Zhang, Zhimin Shao
Software Mentions: 4
Published: over 3 years ago
10.18632/aging.102190
Long non-coding RNA CASC19 is associated with the progression and prognosis of advanced gastric cancer
Cited by: 23
Author(s): Wenjie Wang, Changan Guo, Rui Li, Zipeng Xu, Jianping Yu, Ye Yan, Jun Zhao, Jing Wang, Wen-An Wang, An Zhang, Hongtao Li, Chen Wang, Hongbin Liu
Software Mentions: 4
Published: over 5 years ago
10.1186/s13058-020-01295-6
Secreted breast tumor interstitial fluid microRNAs and their target genes are associated with triple-negative breast cancer, tumor grade, and immune infiltration
Cited by: 24
Author(s): Thilde Terkelsen, Francesco Russo, Pavel Gromov, Vilde Drageset Haakensen, Søren Brunak, Irina Gromova, Anders Krogh, Elena Papaleo
Software Mentions: 4
Published: over 4 years ago
10.3389/fcell.2021.709498
The Dynamic Changes of Transcription Factors During the Development Processes of Human Biparental and Uniparental Embryos
Cited by: 3
Author(s): Chenxi Zhang, Conghui Li, Ling Yang, Lizhi Leng, Dragomirka Jovic, Jun Wang, Fang Fang, Guibo Li, Depeng Zhao, Xuemei Li, Lin Lin, Yonglun Luo, Lars Bolund, Jinrong Huang, Ge Lin, Fengping Xu
Software Mentions: 4
Published: over 3 years ago
10.1371/journal.pone.0088669
Generalization of Clustering Coefficients to Signed Correlation Networks
Cited by: 46
Author(s): Giulio Costantini, Marco Perugini
Software Mentions: 4
Published: almost 11 years ago
10.1186/s41065-019-0100-1
A co-expression network for differentially expressed genes in bladder cancer and a risk score model for predicting survival
Cited by: 16
Author(s): Zihao Chen, Guojun Liu, Aslam Hossain, И. Г. Данилова, Mikhail A. Bolkov, Guoqing Liu, Irina A. Tuzankina, Wanlong Tan
Software Mentions: 4
Published: over 5 years ago
10.3389/fcell.2021.675438
Identification of Key Genes With Differential Correlations in Lung Adenocarcinoma
Cited by: 9
Author(s): You Zhou, Bin Xu, Yi Zhou, Jian Liu, Xiao Zheng, Yingting Liu, Hepu Deng, Ming Liu, Xiubao Ren, Jianchuan Xia, Xiangyin Kong, Tao Huang, Jingting Jiang
Software Mentions: 4
Published: almost 4 years ago
10.1186/s12870-020-02637-4
Revealing the full-length transcriptome of caucasian clover rhizome development
Cited by: 13
Author(s): Xiujie Yin, Kun Yi, Yihang Zhao, Yue Hu, Li Xu, Taotao He, Jiaxue Liu, Guowen Cui
Software Mentions: 4
Published: over 4 years ago
10.3389/fcell.2021.630634
FGD5-AS1 Is a Hub lncRNA ceRNA in Hearts With Tetralogy of Fallot Which Regulates Congenital Heart Disease Genes Transcriptionally and Epigenetically
Cited by: 13
Author(s): Xingyu Zhang, Yun‐Qian Gao, Xiaoping Zhang, Xiaoqing Zhang, Ying Xiang, Qin Fu, Bo Wang, Zhuoming Xu
Software Mentions: 4
Published: almost 4 years ago
10.5808/GI.2020.18.3.e26
A semi-automatic cell type annotation method for single-cell RNA sequencing dataset
Cited by: 0
Author(s): Wan Kim, Sung Min Yoon, Sang Soo Kim
Software Mentions: 4
Published: over 4 years ago
10.1155/2020/4348371
<i>DHX36</i>, <i>BAX</i>, and <i>ARPC1B</i> May Be Critical for the Diagnosis and Treatment of Tuberculosis
Cited by: 3
Author(s): Yunli Zhang, Yanming Liu, Hongling Li, Qingxia Liu, Wei Wang, Zijuan Jian, Wenen Liu
Software Mentions: 4
Published: over 4 years ago