cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1186/s12943-021-01398-4

N6-methyladenosine-modified circIGF2BP3 inhibits CD8+ T-cell responses to facilitate tumor immune evasion by promoting the deubiquitination of PD-L1 in non-small cell lung cancer
Cited by: 121
Author(s): Zhenchuan Liu, Tingting Wang, Yunlang She, Kaiqing Wu, Shaorui Gu, Lei Li, Chunyan Dong, Chang Chen, Yilu Zhou
Software Mentions: 1
Published: about 5 years ago

10.1186/s12859-016-1319-8

SABRE: a method for assessing the stability of gene modules in complex tissues and subject populations
Cited by: 14
Author(s): Casey P. Shannon, Virginia Chen, Mandeep Takhar, Zsuzsanna Hollander, Robert Balshaw, Bruce M. McManus, Scott J. Tebbutt, Don D. Sin, Raymond T. Ng
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12943-021-01341-7

The role of mRNA in the development, diagnosis, treatment and prognosis of neural tumors
Cited by: 16
Author(s): Yiyang Zheng, Yingwei Luo, Xixi Chen, Huiting Li, Baojun Huang, Baofeng Zhou, Lei Zhu, Xianhui Kang, Geng Wang
Software Mentions: 1
Published: over 5 years ago

10.1186/s12943-015-0350-0

Correlations between immune response and vascularization qRT-PCR gene expression clusters in squamous cervical cancer
Cited by: 36
Author(s): Simone Punt, Jeanine J. Houwing-Duistermaat, Iris A. Schulkens, Victor L. Thijssen, Elisabeth M. Osse, Cornelis D. de Kroon, Arjan W. Griffioen, Gert Jan Fleuren, Arko Gorter, Ekaterina S. Jordanova
Software Mentions: 1
Published: over 11 years ago

10.1038/s41598-020-58179-0

Depicting the genetic architecture of pediatric cancers through an integrative gene network approach
Cited by: 15
Author(s): Clara Savary, Artem Kim, Alexandra Lespagnol, Virginie Gandemer, Isabelle Pellier, Catherine Andrieu, Gilles Pagès, Marie‐Dominique Galibert, Yuna Blum, Marie de Tayrac
Software Mentions: 1
Published: over 6 years ago

10.1186/s13041-019-0521-9

Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice
Cited by: 14
Author(s): Ji-Won Kwon, Yeong Jae Kim, Kyoung Soon Choi, Sihwan Seol, Hyo Jung Kang
Software Mentions: 1
Published: almost 7 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 9 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: over 5 years ago

10.1186/s12859-018-2433-6

A fully automated pipeline for quantitative genotype calling from next generation sequencing data in autopolyploids
Cited by: 41
Author(s): Gualter Silva Pereira, Antônio Augusto Franco Garcia, Gabriel Rodrigues Alves Margarido
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-020-60456-x

Functionally Enigmatic Genes in Cancer: Using TCGA Data to Map the Limitations of Annotations
Cited by: 14
Author(s): Alexandra Maertens, Vy Tran, Mikhail Maertens, André Kleensang, Thomas Luechtefeld, Thomas Hartung, Channing J. Paller
Software Mentions: 1
Published: over 6 years ago

10.1186/s12859-016-0952-6

A NMF based approach for integrating multiple data sources to predict HIV-1–human PPIs
Cited by: 17
Author(s): Sumanta Ray, Sanghamitra Bandyopadhyay
Software Mentions: 1
Published: over 10 years ago

10.18632/oncotarget.23219

Co-expression analysis revealed PTCH1-3'UTR promoted cell migration and invasion by activating miR-101-3p/SLC39A6 axis in non-small cell lung cancer: implicating the novel function of PTCH1
Cited by: 21
Author(s): Xuechao Wan, Zhe Kong, Kaili Chu, Chuanyou Yi, Jian Hu, Rui Qin, Chunxia Zhao, Fangqiu Fu, Hai Wu, Yao Li, Yan Huang
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-020-59953-w

Comprehensive analyses of the annexin (ANN) gene family in Brassica rapa, Brassica oleracea and Brassica napus reveals their roles in stress response
Cited by: 25
Author(s): Xin He, Li Liao, Sai Xie, Yang Gi Min, Ping Xie, Wei Liu, Yu Kang, Luyao Huang, Mei Wang, Lunwen Qian, Zhongsong Liu, Chunyun Guan, Mei Guan, Wei Hua
Software Mentions: 1
Published: over 6 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 7 years ago

10.1186/1471-2105-15-S15-S3

Gene differential coexpression analysis based on biweight correlation and maximum clique
Cited by: 35
Author(s): Chun-Hou Zheng, Yandan Lin, Shengjun Wen, Zhan-Li Sun
Software Mentions: 1
Published: almost 12 years ago

10.1038/s41598-020-59605-z

Identification of Key Components in Colon Adenocarcinoma Using Transcriptome to Interactome Multilayer Framework
Cited by: 8
Author(s): Ehsan Pournoor, Zaynab Mousavian, Abbas Nowzari Dalini, Ali Masoudi‐Nejad
Software Mentions: 1
Published: over 6 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: almost 8 years ago

10.1155/2018/8726456

“Omics” Signatures in Peripheral Monocytes from Women with Low BMD Condition
Cited by: 2
Author(s): Bhavna Daswani, M. Ikram Khatkhatay
Software Mentions: 1
Published: over 8 years ago

10.18632/aging.202285

Identification of key modules and genes associated with breast cancer prognosis using WGCNA and ceRNA network analysis
Cited by: 44
Author(s): Xin Yin, Pei Wang, Tianshu Yang, Gen Li, Xu Teng, Wei Huang, Hefen Yu
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12859-017-1946-8

A comprehensive analysis on preservation patterns of gene co-expression networks during Alzheimer’s disease progression
Cited by: 19
Author(s): Sumanta Ray, Sk Md Mosaddek Hossain, Lutfunnesa Khatun, Anirban Mukhopadhyay
Software Mentions: 1
Published: almost 9 years ago

10.18632/aging.102309

Hypermethylated long noncoding RNA MEG3 promotes the progression of gastric cancer
Cited by: 15
Author(s): Lei Ding, Yuan Tian, Ling Wang, Miaomiao Bi, Dengke Teng, Sen Hong
Software Mentions: 1
Published: almost 7 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: almost 6 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 5 years ago

10.1016/j.isci.2021.102265

Temporal metabolic and transcriptomic characteristics crossing islets and liver reveal dynamic pathophysiology in diet-induced diabetes
Cited by: 8
Author(s): Rui Gao, Qi Fu, Hemin Jiang, Min Shen, Ruipeng Zhao, Yu Q, Yunqiang He, Kuanfeng Xu, Xinyu Xu, Heng Chen, Quan Zhang, Tao Yang
Software Mentions: 1
Published: over 5 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: over 5 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: over 6 years ago

10.18632/oncotarget.26554

Integrative system genetic analysis reveals mRNA-lncRNA network associated with mouse spontaneous lung cancer susceptibility
Cited by: 2
Author(s): Yanzhao Zhou, Ming You
Software Mentions: 1
Published: over 7 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 6 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: almost 6 years ago

10.1042/BSR20191511

Weighted gene co-expression network analysis reveals specific modules and hub genes related to neuropathic pain in dorsal root ganglions
Cited by: 8
Author(s): Nan Cheng, Zheng Zhang, Yue Guo, Zhuolin Qiu, Jikun Du, Ziqing Hei, Xiang Li
Software Mentions: 1
Published: almost 7 years ago

10.3390/biom10040549

Biochemical and Comparative Transcriptome Analyses Reveal Key Genes Involved in Major Metabolic Regulation Related to Colored Leaf Formation in Osmanthus fragrans ‘Yinbi Shuanghui’ during Development
Cited by: 13
Author(s): Xuan Chen, Xia Yang, Jun Xie, Wenjie Ding, Yuli Li, Yuanzheng Yue
Software Mentions: 1
Published: over 6 years ago

10.18632/aging.202713

LncRNA-mRNA co-expression analysis discovered the diagnostic and prognostic biomarkers and potential therapeutic agents for myocardial infarction
Cited by: 6
Author(s): Xiaocong Zhang, Ziqi Chen, Jiabin Zang, Chun Yao, Jian Shi, Ruqiong Nie, Guifu Wu
Software Mentions: 1
Published: over 5 years ago

10.3390/biom8030070

Functional Annotation of Caenorhabditis elegans Genes by Analysis of Gene Co-Expression Networks
Cited by: 4
Author(s): Wei Liu, Ling Li, Yiruo He, Sen Cai, Wenjie Zhao, Hao Zheng, Yuexian Zhong, Shaobo Wang, Yang Zou, Zhenhua Xu, Yu Zhang, Wei Tu
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-020-69249-8

Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach
Cited by: 35
Author(s): Negar Sadat Soleimani Zakeri, Saeid Pashazadeh, Habib MotieGhader
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-020-69708-2

Integrated bioinformatics analysis to decipher molecular mechanism of compound Kushen injection for esophageal cancer by combining WGCNA with network pharmacology
Cited by: 19
Author(s): Wei Zhou, Jiarui Wu, Jingyuan Zhang, Xinkui Liu, Siyu Guo, Shanshan Jia, Xiaomeng Zhang, Yimin Zhu, Miaomiao Wang
Software Mentions: 1
Published: about 6 years ago

10.1155/2020/3876834

Identification of Genes Associated with the Metastasis of Pheochromocytoma/Paraganglioma Based on Weighted Gene Coexpression Network Analysis
Cited by: 4
Author(s): Qingde Su, Qinpei Ding, Zunni Zhang, Zheng Yang, Yuling Qiu, Xiaohong Li, Wuning Mo
Software Mentions: 1
Published: over 6 years ago

10.1155/2020/4169691

Identifying Tumorigenesis and Prognosis-Related Genes of Lung Adenocarcinoma: Based on Weighted Gene Coexpression Network Analysis
Cited by: 20
Author(s): Ming Yi, Tianye Li, Shuang Qin, Shengnan Yu, Qian Chu, An‐Ping Li, Kongming Wu
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-020-70578-x

A proteogenomic profile of early lung adenocarcinomas by protein co-expression network and genomic alteration analysis
Cited by: 3
Author(s): Toshihide Nishimura, Hiroki Nakamura, Kien Thiam Tan, De-Wei Zhuo, Kiyonaga Fujii, Hirotaka Koizumi, Saeko Naruki, Masayuki Takagi, Naoki Furuya, Yasufumi Kato, Shu‐Jen Chen, Harubumi Kato, Hisashi Saji
Software Mentions: 1
Published: about 6 years ago

10.1155/2020/4921387

Investigation of Potential Genetic Biomarkers and Molecular Mechanism of Ulcerative Colitis Utilizing Bioinformatics Analysis
Cited by: 19
Author(s): Jiaqi Zhang, Xue Wang, Lin Xu, Zedan Zhang, Fengyun Wang, Xudong Tang
Software Mentions: 1
Published: over 6 years ago

10.1186/s13048-020-00710-y

Identification of WTAP-related genes by weighted gene co-expression network analysis in ovarian cancer
Cited by: 11
Author(s): Jing Wang, Jing Xu, Ke Li, Yunke Huang, Yilin Dai, Congjian Xu, Yu Kang
Software Mentions: 1
Published: almost 6 years ago

10.1155/2021/9957569

Application of Weighted Gene Coexpression Network Analysis to Identify Key Modules and Hub Genes in Systemic Juvenile Idiopathic Arthritis
Cited by: 5
Author(s): Mi Zhou, Ruru Guo, Yong Fei Wang, Wanling Yang, Rongxiu Li, Liangjing Lu
Software Mentions: 1
Published: about 5 years ago

10.18632/aging.104083

Identification of novel prognosis-related genes in the endometrial cancer immune microenvironment
Cited by: 14
Author(s): Jian Ma, Jingkai Zhang, Di Yang, Xiaoxin Ma
Software Mentions: 1
Published: almost 6 years ago

10.18632/aging.202761

A five-m6A regulatory gene signature is a prognostic biomarker in lung adenocarcinoma patients
Cited by: 12
Author(s): Ximei Wu, Hongxu Sheng, Luming Wang, Pinghui Xia, Yiqing Wang, Li Yu, Wang Lv, Jian Hu
Software Mentions: 1
Published: over 5 years ago

10.1155/2015/316735

Gene Coexpression and Evolutionary Conservation Analysis of the Human Preimplantation Embryos
Cited by: 3
Author(s): Tiancheng Liu, Yuling Lin, Guohui Ding, Zhen Wang, Lei Liu, Hong Li, Yixue Li
Software Mentions: 1
Published: over 11 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 6 years ago

10.1038/s41598-020-75039-z

Crucial transcripts predict response to initial immunoglobulin treatment in acute Kawasaki disease
Cited by: 9
Author(s): Zhimin Geng, Jingjing Liu, Jian Hu, Ying Wang, Yijing Tao, Fei Zheng, Yujia Wang, Songling Fu, Wei Wang, Chunhong Xie, Yiying Zhang, Fangqi Gong
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-020-75511-w

Dynamic transcriptional response of Saccharomyces cerevisiae cells to copper
Cited by: 7
Author(s): Sebnem Oc, Serpil Eraslan, Betül Kırdar
Software Mentions: 1
Published: almost 6 years ago

10.1155/2020/6782046

Gene Coexpression Network and Module Analysis across 52 Human Tissues
Cited by: 1
Author(s): Binsheng He, Junlin Xu, Yingxiang Tian, Bo Liao, Jidong Lang, Huixin Lin, Xiaofei Mo, Qingqing Lu, Geng Tian, Pingping Bing
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-020-75945-2

Weighted miRNA co-expression networks analysis identifies circulating miRNA predicting overall survival in hepatocellular carcinoma patients
Cited by: 14
Author(s): Devis Pascut, Muhammad Yogi Pratama, F Gilardi, Mauro Giuffré, Lory Saveria Crocè, Claudio Tiribelli
Software Mentions: 1
Published: almost 6 years ago

10.1155/2018/2914280

A Risk Stratification Model for Lung Cancer Based on Gene Coexpression Network and Deep Learning
Cited by: 13
Author(s): Hongyoon Choi, Kwon Joong Na
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-020-76011-7

Singular manifolds of proteomic drivers to model the evolution of inflammatory bowel disease status
Cited by: 2
Author(s): Ian Morilla, Thibaut Léger, Assiya Marah, Isabelle Pic, Hatem Zaag, Éric Ogier–Denis
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-020-76117-y

Analysis of transcriptional modules during human fibroblast ageing
Cited by: 9
Author(s): Yaelim Lee, G. V. Shivashankar
Software Mentions: 1
Published: almost 6 years ago

10.1155/2019/9637479

Xiao-Qing-Long Tang Prevents Cardiomyocyte Hypertrophy, Fibrosis, and the Development of Heart Failure with Preserved Ejection Faction in Rats by Modulating the Composition of the Gut Microbiota
Cited by: 14
Author(s): Guocheng Zhou, Yue-Hua Jiang, Daifu Ma, Yongcheng Wang, Jinlong Yang, Jiye Chen, Chen-Yu Chi, Xiaowei Han, Zhaoyu Li, Xiao Li
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-020-76750-7

Transcriptome profiling and weighted gene co-expression network analysis of early floral development in Aquilegia coerulea
Cited by: 11
Author(s): Ya Min, Elena M. Kramer
Software Mentions: 1
Published: almost 6 years ago

10.1155/2020/4264291

Coexpression Network Analysis Identifies a Novel Nine-RNA Signature to Improve Prognostic Prediction for Prostate Cancer Patients
Cited by: 7
Author(s): Jiarong Cai, Zheng Chen, Xuelian Chen, He Huang, Xiao Lin, Benchun Miao
Software Mentions: 1
Published: about 6 years ago

10.18632/oncotarget.8496

Development of a prediction model for radiosensitivity using the expression values of genes and long non-coding RNAs
Cited by: 8
Author(s): Weian Wang, Liang‐Chuan Lai, Mong-Hsun Tsai, Tzu-Pin Lu, Eric Y. Chuang
Software Mentions: 1
Published: over 10 years ago

10.1155/2021/1093702

Microarray Data Mining and Preliminary Bioinformatics Analysis of Hepatitis D Virus-Associated Hepatocellular Carcinoma
Cited by: 6
Author(s): Zhe Yu, Xuemei Ma, Wei Zhang, Xiujuan Chang, Lihui An, Ming Niu, Yan Chen, Chao Sun, Yongping Yang
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-020-75217-z

Quantitative comparison of the biomass-degrading enzyme repertoires of five filamentous fungi
Cited by: 46
Author(s): Magnus Ø. Arntzen, Oskar Bengtsson, Anikó Várnai, Francesco Delogu, Geir Mathiesen, Vincent G. H. Eijsink
Software Mentions: 1
Published: almost 6 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: over 10 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: almost 6 years ago

10.18632/aging.101550

A seven-long noncoding RNA signature predicts overall survival for patients with early stage non-small cell lung cancer
Cited by: 39
Author(s): Ting Lin, Yunong Fu, Xing Zhang, Jingxian Gu, Xiaojie Ma, Runchen Miao, Xiaohong Xiang, Wenquan Niu, Kai Qu, Chang Liu, Qifei Wu
Software Mentions: 1
Published: about 8 years ago

10.1186/s12938-019-0625-6

Potential biomarkers of acute myocardial infarction based on weighted gene co-expression network analysis
Cited by: 21
Author(s): Zhihua Liu, Chenguang Ma, Junhua Gu, Ming Yu
Software Mentions: 1
Published: over 7 years ago

10.3390/biology10020127

Comprehensive Analysis and Expression Profiling of PIN, AUX/LAX, and ABCB Auxin Transporter Gene Families in Solanum tuberosum under Phytohormone Stimuli and Abiotic Stresses
Cited by: 11
Author(s): Chan Yang, Dongdong Wang, Chao Zhang, Minghui Ye, Nana Kong, Hongwei Ma, Qin Chen
Software Mentions: 1
Published: over 5 years ago

10.1089/pancan.2020.0007

Gene Expression Network Analysis of Precursor Lesions in Familial Pancreatic Cancer
Cited by: 13
Author(s): Ming Tan, Ove B. Schaffalitzky de Muckadell, Maiken Thyregod Jøergensen
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-021-81509-9

Protein co-expression networks identified from HOT lesions of ER+HER2–Ki-67high luminal breast carcinomas
Cited by: 3
Author(s): Kimito Yamada, Toshihide Nishimura, Midori Wakiya, Eiichi Satoh, Tetsuya Fukuda, Keigo Amaya, Yoshio Bando, Hiroshi Honda, Takashi Ishikawa
Software Mentions: 1
Published: over 5 years ago

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: over 5 years ago

10.3390/biology8040093

Transcriptome Analysis of Wheat Roots Reveals a Differential Regulation of Stress Responses Related to Arbuscular Mycorrhizal Fungi and Soil Disturbance
Cited by: 19
Author(s): Catarina Campos, Tânia Nobre, M. J. Goss, J. A. Brandão Faria, Pedro Barrulas, Mário de Carvalho
Software Mentions: 1
Published: almost 7 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 5 years ago

10.1186/s12859-020-03861-3

LC-N2G: a local consistency approach for nutrigenomics data analysis
Cited by: 1
Author(s): Xiangnan Xu, Samantha M. Solon-Biet, Alistair M. Senior, David Raubenheimer, Stephen J. Simpson, Luigi Fontana, Samuel Mueller, Jean Yee Hwa Yang
Software Mentions: 1
Published: almost 6 years ago

10.3390/biology9080201

Unravelling the Role of miR-20b-5p, CCNB1, HMGA2 and E2F7 in Development and Progression of Non-Small Cell Lung Cancer (NSCLC)
Cited by: 16
Author(s): Shweta Arora, Prithvi Singh, Arshad Husain Rahmani, Saleh A. Almatroodi, Ravins Dohare, Mansoor Ali Syed
Software Mentions: 1
Published: about 6 years ago

10.1093/bioinformatics/btv598

Web-based Gene Pathogenicity Analysis (WGPA): a web platform to interpret gene pathogenicity from personal genome data
Cited by: 1
Author(s): Juan J. Díaz-Montaña, Owen J. L. Rackham, Norberto Díaz–Díaz, Enrico Petretto
Software Mentions: 1
Published: almost 11 years ago

10.1155/2021/9987990

Identification of Prognostic Genes in Neuroblastoma in Children by Weighted Gene Coexpression Network Analysis
Cited by: 0
Author(s): Jun Yang, Ying Zhang, Jianyi Zhou, Shaohua Wang
Software Mentions: 1
Published: about 5 years ago

10.1186/s12859-020-3418-9

Combining feature selection and shape analysis uncovers precise rules for miRNA regulation in Huntington’s disease mice
Cited by: 5
Author(s): Lucile Mégret, Satish S. Nair, Julia Dancourt, Jeff Aaronson, Jim Rosinski, Christian Néri
Software Mentions: 1
Published: over 6 years ago

10.1186/s12859-019-3089-6

A robustness metric for biological data clustering algorithms
Cited by: 6
Author(s): Yuping Lu, Charles Phillips, Michael A. Langston
Software Mentions: 1
Published: almost 7 years ago

10.18632/oncotarget.10680

Aberrant transcriptional networks in step-wise neurogenesis of paroxysmal kinesigenic dyskinesia-induced pluripotent stem cells
Cited by: 4
Author(s): Chun Li, Yu Ma, Kunshan Zhang, Junjie Gu, Fan Tang, Shengdi Chen, Li Cao, Siguang Li, Ying Jin
Software Mentions: 1
Published: about 10 years ago

10.1186/s13040-016-0105-5

Mango: combining and analyzing heterogeneous biological networks
Cited by: 2
Author(s): Jennifer Chang, Hyejin Cho, Hui‐Hsien Chou
Software Mentions: 1
Published: about 10 years ago

10.1186/1752-0509-5-43

Gene networks associated with conditional fear in mice identified using a systems genetics approach
Cited by: 74
Author(s): Christopher C. Park, Greg D. Gale, Simone de Jong, Anatole Ghazalpour, Brian J. Bennett, Charles R. Farber, Peter Langfelder, Andy Lin, Khan Ah, Eleazar Eskin, Steve Horvath, Aldons J. Lusis, Roel A. Ophoff, Desmond J. Smith
Software Mentions: 1
Published: over 15 years ago

10.1186/1752-0509-8-S2-S5

Weighted Interaction SNP Hub (WISH) network method for building genetic networks for complex diseases and traits using whole genome genotype data
Cited by: 27
Author(s): Lisette J. A. Kogelman, Haja N. Kadarmideen
Software Mentions: 1
Published: over 12 years ago

10.18632/oncotarget.11304

Identification and functional analysis of long non-coding RNAs in human and mouse early embryos based on single-cell transcriptome data
Cited by: 27
Author(s): Jiajun Qiu, Zhaorui Ren, Jingbin Yan
Software Mentions: 1
Published: about 10 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 5 years ago

10.1186/1752-0509-8-S2-S7

Pathway network inference from gene expression data
Cited by: 26
Author(s): Ignacio Ponzoni, María José Nueda, Sonia Tarazona, Stefan Götz, David Montaner, Julieta Sol Dussaut, Joaquín Dopazo, Ana Conesa
Software Mentions: 1
Published: over 12 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: over 5 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: over 5 years ago

10.1186/s12918-015-0165-z

Urothelial cancer gene regulatory networks inferred from large-scale RNAseq, Bead and Oligo gene expression data
Cited by: 10
Author(s): Ricardo de Matos Simoes, Sabine Dalleau, Kate E. Williamson, Frank Emmert‐Streib
Software Mentions: 1
Published: over 11 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 8 years ago

10.1186/s12859-018-2193-3

Identification of common coexpression modules based on quantitative network comparison
Cited by: 4
Author(s): Yousang Jo, Sang-Hyun Kim, Doheon Lee
Software Mentions: 1
Published: over 8 years ago

10.1186/1756-0500-5-265

Human gene correlation analysis (HGCA): A tool for the identification of transcriptionally co-expressed genes
Cited by: 24
Author(s): Ioannis Michalopoulos, Georgios A. Pavlopoulos, Apostolos Malatras, Alexandros Karelas, Myrto Kostadima, Reinhard Schneider, Σοφία Κοσσίδα
Software Mentions: 1
Published: over 14 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: over 5 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: over 5 years ago

10.1186/s13104-019-4559-7

A seed germination transcriptomic study contrasting two soybean genotypes that differ in terms of their tolerance to the deleterious impacts of elevated temperatures during seed fill
Cited by: 14
Author(s): Jason D. Gillman, Jessica J. Biever, Songqing Ye, William G. Spollen, Scott A. Givan, Zhen Lyu, Trupti Joshi, James R. Smith, Felix B. Fritschi
Software Mentions: 1
Published: about 7 years ago

10.1186/1753-6561-5-S2-S3

Nonlinear gene cluster analysis with labeling for microarray gene expression data in organ development
Cited by: 7
Author(s): Martin Ehler, Vinodh N. Rajapakse, Barry R. Zeebèrg, Brian P. Brooks, Jacob D. Brown, Wojciech Czaja, Robert F. Bonner
Software Mentions: 1
Published: over 15 years ago

10.1186/s12919-016-0009-x

Using gene expression data to identify causal pathways between genotype and phenotype in a complex disease: application to Genetic Analysis Workshop 19
Cited by: 3
Author(s): Holly F. Ainsworth, Heather J. Cordell
Software Mentions: 1
Published: almost 10 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: about 6 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 5 years ago

10.1186/1471-2229-12-245

OPTIMAS-DW: A comprehensive transcriptomics, metabolomics, ionomics, proteomics and phenomics data resource for maize
Cited by: 46
Author(s): Christian Colmsee, Martin Mascher, Tobias Czauderna, Anja Hartmann, Urte Schlüter, Nina Zellerhoff, J. E. Schmitz, Andrea Bräutigam, Thea R. Pick, Philipp Alter, Manfred Gahrtz, Sandra A. Witt, Alisdair R. Fernie, Frederik Börnke, Holger Fahnenstich, Marcel Bucher, Thomas Dresselhaus, Andreas P.M. Weber, Falk Schreiber, Uwe Scholz, Uwe Sonnewald
Software Mentions: 1
Published: almost 14 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: about 6 years ago

10.1186/s12870-018-1544-6

Canopy attachment position influences metabolism and peel constituency of European pear fruit
Cited by: 20
Author(s): Sara Serra, Nathanael Sullivan, James P. Mattheis, Stefano Musacchi, David R. Rudell
Software Mentions: 1
Published: almost 8 years ago

10.1186/s13075-020-02248-2

Identification of novel genes associated with dysregulation of B cells in patients with primary Sjögren’s syndrome
Cited by: 22
Author(s): Jun Inamo, Katsuya Suzuki, Masaru Takeshita, Yoshiaki Kassai, Maiko Takiguchi, Rina Kurisu, Yuumi Okuzono, Shinya Tasaki, Akihiko Yoshimura, Tsutomu Takeuchi
Software Mentions: 1
Published: about 6 years ago

10.1186/s12870-020-02606-x

Transcriptome analysis provides new insights into the transcriptional regulation of methyl jasmonate-induced flavonoid biosynthesis in pear calli
Cited by: 34
Author(s): Apekshika T Premathilake, Junbei Ni, Jiemin Shen, Songling Bai, Yuanwen Teng
Software Mentions: 1
Published: about 6 years ago

10.1186/s12870-020-02569-z

Transcriptomic profiling of germinating seeds under cold stress and characterization of the cold-tolerant gene LTG5 in rice
Cited by: 31
Author(s): Yinghua Pan, He Liang, Lijun Gao, Gaoxing Dai, Weiwei Chen, Yang Xiao-ling, Dongjin Qing, Ju Gao, Hao Wu, Juan Huang, Weiyong Zhou, Chengcui Huang, Yuntao Liang, Gaofeng Deng
Software Mentions: 1
Published: about 6 years ago

Projects: cran: WGCNA

Science Score: 85/100

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Papers Mentioning WGCNA 3,479