cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1186/s13020-020-00339-5

Identification of drug targets and potential molecular mechanisms for Wantong Jingu Tablet extract in treatment of rheumatoid arthritis: bioinformatics analysis of fibroblast-like synoviocytes
Cited by: 6
Author(s): Zhaodong Li, Fanghua Qi, Fan Li
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-019-52712-6

Whole blood transcriptome analysis in ewes fed with hemp seed supplemented diet
Cited by: 18
Author(s): Marco Iannaccone, Andrea Ianni, Felice Contaldi, Salvatore Esposito, Camillo Martino, Francesca Bennato, Elisabetta De Angelis, Lisa Grotta, Francesco Pomilio, Daniele Giansante, Giuseppe Martino
Software Mentions: 3
Published: almost 7 years ago

10.3390/ijms18081727

Spatial Distribution Patterns of Root-Associated Bacterial Communities Mediated by Root Exudates in Different Aged Ratooning Tea Monoculture Systems
Cited by: 54
Author(s): Yasir Arafat, Xiaoya Wei, Yuhang Jiang, Ting Chen, Hafiz Sohaib Ahmed Saqib, Shan Lin, Wenxiong Lin
Software Mentions: 3
Published: about 9 years ago

10.1186/s12935-021-01929-5

ESR1 as a recurrence-related gene in intrahepatic cholangiocarcinoma: a weighted gene coexpression network analysis
Cited by: 3
Author(s): Fengwei Li, Qinjunjie Chen, Yang Yang, Meihui Li, Lei Zhang, Zhenlin Yan, Junjie Zhang, Kui Wang
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-018-4807-6

Genome-wide analysis of long non-coding RNAs affecting roots development at an early stage in the rice response to cadmium stress
Cited by: 56
Author(s): Liang Chen, Shilai Shi, Ninfei Jiang, Hira Khanzada, Ziming Wu, Zhu C, Xiaosong Peng, Jie Xu, Yujin Chen, Qi Yu, Xu He, Junru Fu, Xiaorong Chen, Lifang Hu, Liang Ouyang, Xiaotang Sun, Haohua He, Jianmin Bian
Software Mentions: 3
Published: over 8 years ago

10.1186/s13148-019-0705-2

DNA methylation modules associate with incident cardiovascular disease and cumulative risk factor exposure
Cited by: 42
Author(s): Kenneth Westerman, Paola Sebastiani, Paul F. Jacques, Simin Liu, Dawn L. DeMeo, José M. Ordovás
Software Mentions: 3
Published: about 7 years ago

10.1186/s13148-020-00988-1

High-resolution analyses of human sperm dynamic methylome reveal thousands of novel age-related epigenetic alterations
Cited by: 23
Author(s): Mingju Cao, Xiaojian Shao, Peter Chan, Warren A. Cheung, Tony Kwan, Tomi Pastinen, Bernard Robaire
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-019-52559-x

Transcriptomic Analysis of mRNA-lncRNA-miRNA Interactions in Hepatocellular Carcinoma
Cited by: 35
Author(s): Xia Tang, Delong Feng, Min Li, Jinxue Zhou, Xiaoyuan Li, Dachun Zhao, Bingtao Hao, Dewei Li, Keyue Ding
Software Mentions: 3
Published: almost 7 years ago

10.1186/s40168-017-0264-8

Chemical and pathogen-induced inflammation disrupt the murine intestinal microbiome
Cited by: 93
Author(s): Mikayla A. Borton, Anice Sabag-Daigle, Jikang Wu, Lindsey Solden, Bridget S. O’Banion, Rebecca A. Daly, Richard A. Wolfe, Juan F. González, Vicki H. Wysocki, Brian M. M. Ahmer, Kelly Wrighton
Software Mentions: 3
Published: over 9 years ago

10.1038/s41598-019-51862-x

Using Machine Learning to Uncover Hidden Heterogeneities in Survey Data
Cited by: 10
Author(s): Christina M. Ramirez, Marisa Abrajano, R. Michael Alvarez
Software Mentions: 3
Published: almost 7 years ago

10.18632/aging.102196

Comprehensive transcriptomic analysis indicates brain regional specific alterations in type 2 diabetes
Cited by: 3
Author(s): Zhe Zhou, Yizhang Zhu, Yang Liu, Yuxin Yin
Software Mentions: 3
Published: about 7 years ago

10.7717/peerj.8456

Key genes and co-expression modules involved in asthma pathogenesis
Cited by: 12
Author(s): Yuyi Huang, Hui Liu, Li Zuo, Ailin Tao
Software Mentions: 3
Published: over 6 years ago

10.1186/1471-2164-16-S8-S5

Bioinformatics analysis of thousands of TCGA tumors to determine the involvement of epigenetic regulators in human cancer
Cited by: 30
Author(s): Florian Gnad, Sophia Doll, Gerard Manning, David Arnott, Zemin Zhang
Software Mentions: 3
Published: over 11 years ago

10.1042/BSR20193377

Identification of hub genes related to prognosis in glioma
Cited by: 4
Author(s): De‐Long Zhang, Jinxin Zhao, Chengzheng Han, Xiaocen Liu, Jun Li, Hui Yang
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-019-52375-3

A New Strategy for Identifying Mechanisms of Drug-drug Interaction Using Transcriptome Analysis: Compound Kushen Injection as a Proof of Principle
Cited by: 4
Author(s): Hao Shen, Zhibo Qu, Yuka Harata-Lee, Jingang Cui, Thazin Nwe Aung, Wei Wang, R. Daniel Kortschak, David L. Adelson
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-019-51627-6

Multi-tissue network analysis for drug prioritization in knee osteoarthritis
Cited by: 11
Author(s): Michael Neidlin, Smaragda Dimitrakopoulou, Leonidas G. Alexopoulos
Software Mentions: 3
Published: about 7 years ago

10.3389/fcvm.2021.713983

Pan-Cancer Analysis of Atrial-Fibrillation-Related Innate Immunity Gene ANXA4
Cited by: 6
Author(s): Tao Yan, Shijie Zhu, Yu Shi, Changming Xie, Miao Zhu, Yangyang Zhang, Chunsheng Wang, Changfa Guo
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-46491-3

Transcriptome Network Analysis Identifies CXCL13-CXCR5 Signaling Modules in the Prostate Tumor Immune Microenvironment
Cited by: 21
Author(s): Adaugo Q. Ohandjo, Zongzhi Liu, Eric B. Dammer, Courtney D. Dill, Tiara Griffen, Kaylin Carey, Denise E. Hinton, Robert Meller, James W. Lillard
Software Mentions: 3
Published: about 7 years ago

10.18632/aging.202754

Identification of vital prognostic genes related to tumor microenvironment in pheochromocytoma and paraganglioma based on weighted gene co-expression network analysis
Cited by: 6
Author(s): Chun-Xian Chen, Dong‐Ning Chen, Xiong‐Lin Sun, Zhi‐Bin Ke, Fei Lin, Hang Chen, Xuan Tao, Fei Huang, Yong Wei, Ning Xu
Software Mentions: 3
Published: over 5 years ago

10.1042/BSR20191247

HPO-Shuffle: an associated gene prioritization strategy and its application in drug repurposing for the treatment of canine epilepsy
Cited by: 5
Author(s): Shuguang Wang, Xiangyu Meng, Yuxing Wang, Ye-Mao Liu, Jingbo Xia
Software Mentions: 3
Published: about 7 years ago

10.3389/fcvm.2021.693351

Plasma Testosterone Levels and Atherosclerotic Plaque Gene Expression in Men With Advanced Atherosclerosis
Cited by: 3
Author(s): Floor Groepenhoff, Ernest Diez Benavente, Arjan Boltjes, Nathalie Timmerman, Farahnaz Waissi, Robin Hartman, N. Charlotte Onland‐Moret, Gérard Pasterkamp, Hester M. den Ruijter
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-016-2720-4

Genome-wide analysis of the transcriptional response to porcine reproductive and respiratory syndrome virus infection at the maternal/fetal interface and in the fetus
Cited by: 27
Author(s): Jamie M. Wilkinson, Hua Bao, Andrea Ladinig, Linjun Hong, Paul Stothard, Joan K. Lunney, Graham Plastow, John C. S. Harding
Software Mentions: 3
Published: over 10 years ago

10.1038/s41598-019-51535-9

Transcriptomic analysis reveals potential genes involved in tanshinone biosynthesis in Salvia miltiorrhiza
Cited by: 29
Author(s): Yuan‐Jen Chang, Meizhen Wang, Jiang Li, Shanfa Lu
Software Mentions: 3
Published: about 7 years ago

10.1186/s12864-016-3384-9

Placental transcriptome co-expression analysis reveals conserved regulatory programs across gestation
Cited by: 25
Author(s): Sam Buckberry, Tina Bianco‐Miotto, Stephen J. Bent, Vicki L. Clifton, Cheryl Shoubridge, Kartik Shankar, Claire T. Roberts
Software Mentions: 3
Published: almost 10 years ago

10.7717/peerj.10977

Comparative transcriptomic analysis reveals the cold acclimation during chilling stress in sensitive and resistant passion fruit (Passiflora edulis) cultivars
Cited by: 7
Author(s): Yanyan Wu, Weihua Huang, Qian Tian, Jieyun Liu, Xiuzhong Xia, Yang Xiao-ling, Haifei Mou
Software Mentions: 3
Published: over 5 years ago

10.1155/2020/1937387

Protein Level and Infantile Diarrhea in a Postweaning Piglet Model
Cited by: 10
Author(s): Jing Gao, Jie Yin, Kang Xu, Hui Han, Zemin Liu, Chenyu Wang, Tiejun Li, Yulong Yin
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-020-07151-3

Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production
Cited by: 3
Author(s): Jinwei Xin, Zhixin Chai, Chengfu Zhang, Qiang Zhang, Yong Zhu, Hanwen Cao, Yangji Cidan, Xiaoying Chen, Hui Jiang, Jincheng Zhong, Qiumei Ji
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pgen.1009270

Physiological and genetic convergence supports hypoxia resistance in high-altitude songbirds
Cited by: 10
Author(s): Ying Xiong, Liqing Fan, Yan Hao, Yalin Cheng, Ying Chang, Jing Wang, Haiyan Lin, Gang Song, Yanhua Qu, Fumin Lei
Software Mentions: 3
Published: almost 6 years ago

10.3389/fcell.2021.629941

Identification of a ceRNA Network in Lung Adenocarcinoma Based on Integration Analysis of Tumor-Associated Macrophage Signature Genes
Cited by: 8
Author(s): Lei Zhang, Kai Zhang, Shasha Li, Ruizhe Zhang, Yang Yang, Qi Wang, Song Zhao, Yang Li, Yi Zhang, Jiaxiang Wang
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-019-50148-6

Gene co-expression network analysis reveals key potential gene modules in utero-vaginal junction associated with duration of fertility trait of breeder hens
Cited by: 1
Author(s): Lantao Gu, Ruoxi Jing, Yanzhang Gong, Mei Yu, Abdelmotaleb A. Elokil, Shijun Li
Software Mentions: 3
Published: about 7 years ago

10.3389/fcell.2021.729211

The Expression and Prognostic Value of SUMO1-Activating Enzyme Subunit 1 and Its Potential Mechanism in Triple-Negative Breast Cancer
Cited by: 7
Author(s): Qingshui Wang, Wenting Zhong, Lin Deng, Qili Lin, You‐Yu Lin, Hongxia Liu, Luyun Xu, Lingfang Lu, Yajuan Chen, Jianping Huang, Meiyan Jiang, Xiao Han, Jie Zhang, He Li, Yuxiang Lin, Chuan-Gui Song, Yao Lin
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-48925-4

Network construction of gastric microbiome and organization of microbial modules associated with gastric carcinogenesis
Cited by: 17
Author(s): Chan Hyuk Park, Jae Gon Lee, Areum Lee, Chang Soo Eun, Dong Soo Han
Software Mentions: 3
Published: about 7 years ago

10.1186/s12864-018-5021-2

Long non-coding RNAs potentially function synergistically in the cellular reprogramming of SCNT embryos
Cited by: 20
Author(s): Fengrui Wu, Yong Liu, Qingqing Wu, Dengkun Li, Ling Zhang, Xiaoqing Wu, Rong Wang, Di Zhang, Shaorong Gao, Wenyong Li
Software Mentions: 3
Published: about 8 years ago

10.1038/s41598-019-43110-z

High-throughput sequencing reveals the diversity and community structure of rhizosphere fungi of Ferula Sinkiangensis at different soil depths
Cited by: 25
Author(s): Tao Zhang, Zhongke Wang, Xinhua Lv, Yang Li, Zhuang Li
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-019-42608-w

Gene co-expression networks contributing to the expression of compensatory growth in metabolically active tissues in cattle
Cited by: 9
Author(s): Kate Keogh, David A. Kenny, Sinéad M. Waters
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-020-07191-9

Immune challenge reduces gut microbial diversity and triggers fertility-dependent gene expression changes in a social insect
Cited by: 5
Author(s): Matteo Negroni, Francisca H. I. D. Segers, Fanny Vogelweith, Susanne Foitzik
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pgen.1005963

De Novo and Rare Variants at Multiple Loci Support the Oligogenic Origins of Atrioventricular Septal Heart Defects
Cited by: 87
Author(s): James R. Priest, Kazutoyo Osoegawa, Nebil Mohammed, Vivek Nanda, Ramendra K. Kundu, Kathleen Schultz, Edward J. Lammer, Santhosh Girirajan, Todd E. Scheetz, Daryl Waggott, François Haddad, Sushma Reddy, Daniel Bernstein, Trudy L. Burns, Jeffrey D. Steimle, Xinan Yang, Ivan P. Moskowitz, Matthew E. Hurles, Richard P. Lifton, Debbie Nickerson, Michael J. Bamshad, Evan E. Eichler, Seema Mital, Val C. Sheffield, Thomas Quertermous, Bruce D. Gelb, Michael A. Portman, Euan A. Ashley
Software Mentions: 3
Published: over 10 years ago

10.1042/BSR20193938

Weighted gene correlation network analysis reveals novel regulatory modules associated with recurrent early pregnancy loss
Cited by: 5
Author(s): Xiaoxiao Li, Yuanqi He, Cuifang Hao, Xiaona Li, Xue Li
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pgen.1008768

Additive and mostly adaptive plastic responses of gene expression to multiple stress in Tribolium castaneum
Cited by: 30
Author(s): Eva L. Koch, Frédéric Guillaume
Software Mentions: 3
Published: over 6 years ago

10.7717/peerj.9622

Gut microbiota of obese and diabetic Thai subjects and interplay with dietary habits and blood profiles
Cited by: 7
Author(s): Lucsame Gruneck, Niwed Kullawong, Kongkiat Kespechara, Siam Popluechai
Software Mentions: 3
Published: about 6 years ago

10.1038/s41598-019-41918-3

Integrating gene regulatory pathways into differential network analysis of gene expression data
Cited by: 45
Author(s): Tyler Grimes, S. Steven Potter, Somnath Datta
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-020-07310-6

Genome-wide identification and characterization of long non-coding RNAs conferring resistance to Colletotrichum gloeosporioides in walnut (Juglans regia)
Cited by: 23
Author(s): Shan Feng, Hongcheng Fang, Xia Liu, Yixin Dong, Qingpeng Wang, Ke Qiang Yang
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12967-021-03014-x

Identification of tumor antigens and immune subtypes in lower grade gliomas for mRNA vaccine development
Cited by: 14
Author(s): Liguo Ye, Long Wang, Jian Yang, Ping Hu, Chunyu Zhang, Shiao Tong, Zhennan Liu, Daofeng Tian
Software Mentions: 3
Published: about 5 years ago

10.1042/BSR20181925

Co-expression of key gene modules and pathways of human breast cancer cell lines
Cited by: 13
Author(s): Yadong Wu, Lin Feng, Siyang Luo, Xinhai Yin, He Dan, Jianguo Liu, Zhao-hui Yue, Jukun Song
Software Mentions: 3
Published: over 7 years ago

10.3390/ijms21093040

Genetic Dissection of Hypertrophic Cardiomyopathy with Myocardial RNA-Seq
Cited by: 22
Author(s): Jun Gao, John Collyer, Maochun Wang, Fengjun Sun, Fuyi Xu
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pgen.1008513

Drosophila RpS12 controls translation, growth, and cell competition through Xrp1
Cited by: 34
Author(s): Zhejun Ji, Marianthi Kiparaki, Virginia Folgado, Amit Kumar, Jorge Polo Blanco, Gerard Rimesso, Jacky Chuen, Yang Liu, Deyou Zheng, Nicholas E. Baker
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-019-41248-4

Parkinson’s Disease is Associated with Dysregulations of a Dopamine-Modulated Gene Network Relevant to Sleep and Affective Neurobehaviors in the Striatum
Cited by: 11
Author(s): Peng Jiang, Joseph R. Scarpa, Vance D. Gao, Martha Hotz Vitaterna, Andrew Kasarskis, Fred W. Turek
Software Mentions: 3
Published: over 7 years ago

10.18632/aging.202493

Identification of hub genes associated with adult acute myeloid leukemia progression through weighted gene co-expression network analysis
Cited by: 4
Author(s): Ruiqi Zhu, Wenyi Lin, Liang Tang, Yu Hu
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pgen.1006745

GRHL3 binding and enhancers rearrange as epidermal keratinocytes transition between functional states
Cited by: 39
Author(s): Rachel Herndon Klein, Ziguang Lin, Amelia Soto Hopkin, William Gordon, Lam C. Tsoi, Yun Liang, Jóhann E. Guðjónsson, Bogi Andersen
Software Mentions: 3
Published: over 9 years ago

10.18632/oncotarget.13104

Identification of KLK10 as a therapeutic target to reverse trastuzumab resistance in breast cancer
Cited by: 15
Author(s): Zhuo Wang, Beihong Ruan, Y. Jin, Yulong Zhang, Jiaqiu Li, Liyuan Zhu, Wenxia Xu, Lifeng Feng, Hongchuan Jin, Xian Wang
Software Mentions: 3
Published: almost 10 years ago

10.3390/ph12040156

C3orf70 Is Involved in Neural and Neurobehavioral Development
Cited by: 8
Author(s): Yoshifumi Ashikawa, Takashi Shiromizu, Koki Miura, Yoshiyuki Adachi, Takaaki Matsui, Yasumasa Bessho, Toshio Tanaka, Yuhei Nishimura
Software Mentions: 3
Published: about 7 years ago

10.1111/acel.12358

The effects of age and dietary restriction on the tissue‐specific metabolome of <scp>D</scp> rosophila 
Cited by: 63
Author(s): Matthew J. Laye, ViLinh Tran, Dean P. Jones, Pankaj Kapahi, Daniel E. L. Promislow
Software Mentions: 3
Published: over 11 years ago

10.1186/s40168-021-01061-6

Gut microbiome variation modulates the effects of dietary fiber on host metabolism
Cited by: 54
Author(s): Sofia M Murga-Garrido, Qilin Hong, Tzu Wen L. Cross, Evan Hutchison, Jessica Han, Sydney P. Thomas, Eugenio I. Vivas, John M. Denu, Danilo Guillermo Ceschin, Zheng-Zheng Tang, Federico E. Rey
Software Mentions: 3
Published: over 5 years ago

10.18632/oncotarget.13569

Proteomic profiling of NCI-60 extracellular vesicles uncovers common protein cargo and cancer type-specific biomarkers
Cited by: 187
Author(s): Stephanie N. Hurwitz, Mark A. Rider, Joseph L. Bundy, Xia Liu, Rakesh Kumar Singh, David G. Meckes
Software Mentions: 3
Published: almost 10 years ago

10.1186/s13195-019-0558-0

APOE2 orchestrated differences in transcriptomic and lipidomic profiles of postmortem AD brain
Cited by: 36
Author(s): Iliya Lefterov, Cody M. Wolfe, Nicholas F. Fitz, Kyong Nyon Nam, Florent Letronne, Richard J. Biedrzycki, Julia Kofler, Xianlin Han, Jianing Wang, Jonathan Schug, Radosveta Koldamova
Software Mentions: 3
Published: almost 7 years ago

10.3389/fcell.2021.718638

Identification of ARHGEF38, NETO2, GOLM1, and SAPCD2 Associated With Prostate Cancer Progression by Bioinformatic Analysis and Experimental Validation
Cited by: 8
Author(s): Zhuolun Sun, Yunfei Mao, Xu Zhang, Shuo Lu, Hua Wang, Chi Zhang, Chutian Xiao, Yinghao Cao, Yunhao Qing, Yu Wang, Ké Li
Software Mentions: 3
Published: about 5 years ago

10.1042/BSR20200514

Identification of co-expressed genes associated with MLL rearrangement in pediatric acute lymphoblastic leukemia
Cited by: 2
Author(s): Hao Zhang, Bei Liu, Juan Cheng, Haizhen Ma, Zijian Li, Yuandi Xi
Software Mentions: 3
Published: over 6 years ago

10.1155/2021/6692022

Identification of a Seven-lncRNA-mRNA Signature for Recurrence and Prognostic Prediction in Relapsed Acute Lymphoblastic Leukemia Based on WGCNA and LASSO Analyses
Cited by: 6
Author(s): Haiyan Qi, Long Chi, Xiaogang Wang, Xing Jin, Wensong Wang, Jianping Lan
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-018-20232-4

Lnc2Catlas: an atlas of long noncoding RNAs associated with risk of cancers
Cited by: 25
Author(s): Chao Ren, Gaole An, Chenghui Zhao, Zhangyi Ouyang, Xiaochen Bo, Wenjie Shu
Software Mentions: 3
Published: almost 9 years ago

10.1186/s12935-020-01587-z

Identified IGSF9 association with prognosis and hypoxia in nasopharyngeal carcinoma by bioinformatics analysis
Cited by: 6
Author(s): Danxia Huang, Qianqian Liu, Weijun Zhang, Chunyue Huang, Ronghui Zheng, Gaoqiang Xie, Hongmei Wang, Baochang Jia, Jianjun Shi, Yawei Yuan, Min Deng
Software Mentions: 3
Published: about 6 years ago

10.1186/s12935-021-02008-5

Prognostic signature composed of transcription factors accurately predicts the prognosis of gastric cancer patients
Cited by: 4
Author(s): Liqun Zhou, Zhiqing Chen, You Wu, Hao Lü, Lin Xin
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-017-17735-x

Transcriptomic signatures of cellular and humoral immune responses in older adults after seasonal influenza vaccination identified by data-driven clustering
Cited by: 25
Author(s): Emily A. Voigt, Diane E. Grill, Michael T. Zimmermann, Whitney L. Simon, Inna G. Ovsyannikova, Richard B. Kennedy, Gregory A. Poland
Software Mentions: 3
Published: almost 9 years ago

10.3390/ijms21155535

Deep Transcriptomic Analysis Reveals the Dynamic Developmental Progression during Early Development of Channel Catfish (Ictalurus punctatus)
Cited by: 4
Author(s): Xiaoli Ma, Baofeng Su, Yuan Tian, Nathan J. C. Backenstose, Yang Liu, Anthony G. Moss, Dương Thúy Yên, Xiaozhu Wang, Rex A. Dunham
Software Mentions: 3
Published: about 6 years ago

10.1002/cam4.2833

Identification of three m6A‐related mRNAs signature and risk score for the prognostication of hepatocellular carcinoma
Cited by: 50
Author(s): Zedong Li, Fazhan Li, Pei Yu, Jianyu Fang, Jun Zhou
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-017-18705-z

Application of Weighted Gene Co-expression Network Analysis for Data from Paired Design
Cited by: 94
Author(s): Jianqiang Li, Doudou Zhou, Weiliang Qiu, Yuliang Shi, Ji-Jiang Yang, Shi Chen, Qing Wang, Hui Pan
Software Mentions: 3
Published: almost 9 years ago

10.1042/BSR20202921

Immune-associated biomarkers for early diagnosis of Parkinson’s disease based on hematological lncRNA–mRNA co-expression
Cited by: 8
Author(s): Kecheng Lei, Liwen Zhang, Yijing He, Hui Sun, Weifang Tong, Yawei Xu, Lingjing Jin
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12920-021-01010-0

Identification of macrophage related gene in colorectal cancer patients and their functional roles
Cited by: 2
Author(s): Yingxiang Chen, Cui Zhang, Xiang Zou, Man Yu, Bo Yang, Chenfeng Ji, Shuangquan Gao, Jun Li, Bin Liu
Software Mentions: 3
Published: over 5 years ago

10.1186/s12967-021-03083-y

Gene clusters based on OLIG2 and CD276 could distinguish molecular profiling in glioblastoma
Cited by: 1
Author(s): Minjie Fu, Jinsen Zhang, Weifeng Liu, Shan He, Jingwen Zhang, Daniel Tennant, Wei Hua, Ying Mao
Software Mentions: 3
Published: about 5 years ago

10.1155/2021/6697407

Identification of a 5-Gene-Based Scoring System by WGCNA and LASSO to Predict Prognosis for Rectal Cancer Patients
Cited by: 3
Author(s): He Huang, Shilei Xu, Aidong Chen, Fen Li, Jiezhong Wu, Xusheng Tu, Kunpeng Hu
Software Mentions: 3
Published: over 5 years ago

10.3389/fcell.2021.615098

Transcriptome Analysis of Dnmt3l Knock-Out Mice Derived Multipotent Mesenchymal Stem/Stromal Cells During Osteogenic Differentiation
Cited by: 2
Author(s): Chih-Yi Yang, Rita Jui-Hsien Lu, Ming-Kang Lee, Felix Shih-Hsian Hsiao, Ya-Ping Yen, Chi‐Feng Cheng, Pu-Sheng Hsu, Yi-Tzang Tsai, Shih‐Kuo Chen, I-Hsuan Liu, Pao‐Yang Chen, Shau-Ping Lin
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-017-17322-0

Transcriptomic profiling of the human brain reveals that altered synaptic gene expression is associated with chronological aging
Cited by: 43
Author(s): Allissa Dillman, Elisa Majounie, Jinhui Ding, J. Raphael Gibbs, Dena G. Hernandez, Sampath Arepalli, Bryan J. Traynor, Andrew B. Singleton, Dagmar Galter, Mark Cookson
Software Mentions: 3
Published: almost 9 years ago

10.1186/s12864-021-07683-2

A comprehensive RNA-Seq-based gene expression atlas of the summer squash (Cucurbita pepo) provides insights into fruit morphology and ripening mechanisms
Cited by: 11
Author(s): Aliki Xanthopoulou, Javier Montero‐Pau, Belén Picó, Panagiotis Boumpas, Eleni Tsaliki, Harry S. Paris, Athanasios Tsaftaris, Apostolos Kalivas, Ιfigeneia Mellidou, Ioannis Ganopoulos
Software Mentions: 3
Published: over 5 years ago

10.1093/bfgp/elx046

Mapping gene regulatory networks from single-cell omics data
Cited by: 165
Author(s): Mark Fiers, Liesbeth Minnoye, Sara Aibar, Carmen Bravo González-Blas, Zeynep Kalender Atak, Stein Aerts
Software Mentions: 3
Published: almost 9 years ago

10.1038/s41598-017-15963-9

Transcriptomics reveals multiple resistance mechanisms against cotton leaf curl disease in a naturally immune cotton species, Gossypium arboreum
Cited by: 51
Author(s): Rubab Zahra Naqvi, Syed Shan-e-Ali Zaidi, Khalid Pervaiz Akhtar, Susan R. Strickler, Melkamu Woldemariam, Bharat Mishra, M. Shahid Mukhtar, Brian E. Scheffler, Jodi A. Scheffler, Georg Jander, Lukas A. Mueller, Muhammad Asif, Shahid Mansoor
Software Mentions: 3
Published: almost 9 years ago

10.1038/s41598-017-15221-y

Deconvolution of Transcriptional Networks in Post-Traumatic Stress Disorder Uncovers Master Regulators Driving Innate Immune System Function
Cited by: 12
Author(s): Abolfazl Doostparast Torshizi, Kai Wang
Software Mentions: 3
Published: almost 9 years ago

10.18632/aging.202714

High expression of CD52 in adipocytes: a potential therapeutic target for obesity with type 2 diabetes
Cited by: 3
Author(s): Rui Mao, Fan Yang, Yu Zhang, Hongtao Liu, Pengsen Guo, Yanjun Liu, Tongtong Zhang
Software Mentions: 3
Published: over 5 years ago

10.7554/eLife.04775

Genes associated with ant social behavior show distinct transcriptional and evolutionary patterns
Cited by: 77
Author(s): Alexander S. Mikheyev, Timothy A. Linksvayer
Software Mentions: 3
Published: almost 12 years ago

10.1186/s12920-021-00892-4

Identification of biomarkers and pathogenesis in severe asthma by coexpression network analysis
Cited by: 7
Author(s): Zeyi Zhang, Jingjing Wang, Ou Chen
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-017-13176-8

Comparative transcriptomics reveal developmental turning points during embryogenesis of a hemimetabolous insect, the damselfly Ischnura elegans
Cited by: 11
Author(s): Sabrina Simon, Sven Sagasser, Edoardo Saccenti, Mercer R. Brugler, Heike Hadrys, George Amato, Rob DeSalle
Software Mentions: 3
Published: about 9 years ago

10.3389/fcimb.2019.00409

Gut Microbiota Dysbiosis and Increased Plasma LPS and TMAO Levels in Patients With Preeclampsia
Cited by: 81
Author(s): Jing Wang, Xunke Gu, Jing Yang, Yuan Wei, Yangyu Zhao
Software Mentions: 3
Published: almost 7 years ago

10.3390/biomedicines9050546

Weighted Gene Co-Expression Network Analysis Reveals Key Genes and Potential Drugs in Abdominal Aortic Aneurysm
Cited by: 5
Author(s): Kejia Kan, Feng Guo, Lei Zhu, Prama Pallavi, Martin Sigl, Michael Keese
Software Mentions: 3
Published: over 5 years ago

10.1186/1471-2164-15-905

Limited sex-biased neural gene expression patterns across strains in Zebrafish (Danio rerio)
Cited by: 54
Author(s): Ryan Y. Wong, Melissa M McLeod, John Godwin
Software Mentions: 3
Published: almost 13 years ago

10.1038/s41598-017-13012-z

Global misregulation of genes largely uncoupled to DNA methylome epimutations characterizes a congenital overgrowth syndrome
Cited by: 30
Author(s): Zhiyuan Chen, Darren E. Hagen, Tieming Ji, Christine G. Elsik
Software Mentions: 3
Published: about 9 years ago

10.18632/aging.103704

Prognostic value and underlying mechanism of KIAA0101 in hepatocellular carcinoma: database mining and co-expression analysis
Cited by: 4
Author(s): Weiyu Xu, Xuezhu Wang, Xiaoqian Wu, Si Yu, Jianping Xiong, Xinting Sang, Yongchang Zheng, Zhongtao Zhang
Software Mentions: 3
Published: about 6 years ago

10.3389/fncel.2020.00059

Cell Type-Specific Gene Network-Based Analysis Depicts the Heterogeneity of Autism Spectrum Disorder
Cited by: 8
Author(s): Jinting Guan, Yiping Lin, Guoli Ji
Software Mentions: 3
Published: over 6 years ago

10.1155/2020/4673250

Changes in Gut Microorganism in Patients with Positive Immune Antibody-Associated Recurrent Abortion
Cited by: 4
Author(s): Min Jin, Dong Li, Rui Ji, Wen Liu, Xiaofei Xu, Xin Feng
Software Mentions: 3
Published: about 6 years ago

10.3389/fncel.2020.00144

MicroRNA-124 Overexpression in Schwann Cells Promotes Schwann Cell-Astrocyte Integration and Inhibits Glial Scar Formation Ability
Cited by: 4
Author(s): Zhijun Li, Yifei Yu, Juanjuan Kang, Yangyang Zheng, Jinying Xu, Kan Xu, Kun Hou, Yi Hou, Guangfan Chi
Software Mentions: 3
Published: over 6 years ago

10.3390/ani11030628

Dissecting the Gene Expression Networks Associated with Variations in the Major Components of the Fatty Acid Semimembranosus Muscle Profile in Large White Heavy Pigs
Cited by: 8
Author(s): Martina Zappaterra, Silvia Gioiosa, Giovanni Chillemi, Paolo Zambonelli, Roberta Davoli
Software Mentions: 3
Published: over 5 years ago

10.3390/ani11071863

Differential Expression and Functional Analysis of CircRNA in the Ovaries of Low and High Fecundity Hanper Sheep
Cited by: 8
Author(s): Aiju Liu, Xiaoyong Chen, Menghe Liu, Limeng Zhang, Xiaofei Ma, Shujun Tian
Software Mentions: 3
Published: over 5 years ago

10.1111/jcmm.16264

Construction of co‐expression modules related to survival by WGCNA and identification of potential prognostic biomarkers in glioblastoma
Cited by: 22
Author(s): Jing Zhou, Hao Guo, Likun Liu, Shulan Hao, Zhi Guo, Fupeng Zhang, Yu Tang Gao, Zhi Wang, Weiwei Zhang
Software Mentions: 3
Published: almost 6 years ago

10.1111/jcmm.15973

Integrative analysis provides multi‐omics evidence for the pathogenesis of placenta percreta
Cited by: 6
Author(s): Qingyuan Jiang, Lei Dai, Na Chen, Junshu Li, Y Gao, Jing Zhao, Ding Li, Chengbin Xie, Xiaolian Yi, Hongxin Deng, Xiaodong Wang
Software Mentions: 3
Published: about 6 years ago

10.1155/2021/5963868

Identification and Prognostic Value Exploration of Radiotherapy Sensitivity-Associated Genes in Non-Small-Cell Lung Cancer
Cited by: 6
Author(s): Qing Ma, Kai Geng, Ping Xiao, Lili Zeng
Software Mentions: 3
Published: about 5 years ago

10.1111/jcmm.15957

Prediction of a competing endogenous RNA co‐expression network as a prognostic marker in glioblastoma
Cited by: 13
Author(s): Qing Peng, Runmin Li, Ying Liu, Xianghong Xu, Wensi Ni, Huiran Lin, Ning Liang
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pgen.1003053

Network Analysis of a Pkd1-Mouse Model of Autosomal Dominant Polycystic Kidney Disease Identifies HNF4α as a Disease Modifier
Cited by: 72
Author(s): Luís F. Menezes, Fang Zhou, Andrew D. Patterson, Klaus Piontek, Kristopher W. Krausz, Frank J. Gonzalez, Gregory G. Germino
Software Mentions: 3
Published: almost 14 years ago

10.1186/s12864-020-06877-4

Pervasive duplication, biased molecular evolution and comprehensive functional analysis of the PP2C family in Glycine max
Cited by: 4
Author(s): Kai Fan, Yunrui Chen, Zhijun Mao, Fang Yao, Zhaowei Li, Weiwei Lin, Yongqiang Zhang, Jianping Liu, Jinwen Huang
Software Mentions: 3
Published: over 6 years ago

10.1161/ATVBAHA.119.312399

Adventitial Cell Atlas of wt (Wild Type) and ApoE (Apolipoprotein E)-Deficient Mice Defined by Single-Cell RNA Sequencing
Cited by: 73
Author(s): Wenduo Gu, Zhichao Ni, Yuan Qing Tan, Jiacheng Deng, Si Jin Zhang, Zi Lv, Xiao Jian Wang, Ting Chen, Zhongyi Zhang, Yanhua Hu, Zhi‐Cheng Jing, Qingbo Xu
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pgen.1009461

The long noncoding RNA FRILAIR regulates strawberry fruit ripening by functioning as a noncanonical target mimic
Cited by: 28
Author(s): Yajun Tang, Zhibo Qu, Jiajun Li, Reqing He, David L. Adelson, Youlin Zhu, Zhenbiao Yang, Dong Wang
Software Mentions: 3
Published: over 5 years ago

10.18632/oncotarget.10249

Gene network analysis reveals a novel 22-gene signature of carbon metabolism in hepatocellular carcinoma
Cited by: 16
Author(s): Jinqiang Zhang, Melody Baddoo, Chang Han, Michael J. Strong, Jennifer Cvitanovic, Krzysztof Moroz, Srikanta Dash, Erik K. Flemington, Tong Wu
Software Mentions: 3
Published: over 10 years ago

10.1111/jcmm.15193

To construct a ceRNA regulatory network as prognostic biomarkers for bladder cancer
Cited by: 45
Author(s): Jiazhi Jiang, Yaqiong Bi, Xiaoping Li, Donghu Yu, Xin Yan, Jie Yao, Tongzu Liu, Li Sheng
Software Mentions: 3
Published: over 6 years ago

10.7554/eLife.30054

Inducible and reversible phenotypes in a novel mouse model of Friedreich’s Ataxia
Cited by: 59
Author(s): Vijayendran Chandran, Kun Gao, Vivek Swarup, Revital Versano, Hongmei Dong, Maria C. Jordan, Daniel H. Geschwind
Software Mentions: 3
Published: almost 9 years ago

Projects: cran: WGCNA

Science Score: 85/100

Bonuses:

Penalties:

Papers Mentioning WGCNA 3,479