cran: WGCNA | Projects | Ecosyste.ms: Papers

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

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/s41598-019-42953-w

Modulation of chromatin remodeling proteins SMYD1 and SMARCD1 promotes contractile function of human pluripotent stem cell-derived ventricular cardiomyocyte in 3D-engineered cardiac tissues
Cited by: 7
Author(s): Maggie Zi Ying Chow, Stephanie N. Sadrian, Wendy Keung, Lin Geng, Lihuan Ren, Chi-Wing Kong, Andy O.-T. Wong, Jean‐Sébastien Hulot, Christopher Chen, Kevin D. Costa, Roger J. Hajjar, Gary Tse
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-44203-5

Co-expression network analysis identifies gonad- and embryo-associated protein modules in the sentinel species Gammarus fossarum
Cited by: 12
Author(s): Davide Degli Esposti, Christine Almunia, Marc-Antoine Guery, Natacha Koenig, Jean Armengaud, Arnaud Chaumot, Olivier Geffard
Software Mentions: 1
Published: over 7 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

10.18632/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: almost 9 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

10.1186/1471-2105-15-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

10.1155/2015/316735

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: almost 12 years ago

10.1038/s41598-019-46219-3

A gene expression network analysis of the pancreatic islets from lean and obese mice identifies complement 1q like-3 secreted protein as a regulator of β-cell function
Cited by: 7
Author(s): James E. Koltes, Itika Arora, Rajesh Gupta, Dan C. Nguyen, Michael D. Schaid, Jeong‐A Kim, Michelle E. Kimple, Sushant Bhatnagar
Software Mentions: 1
Published: over 7 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: almost 9 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/s41598-019-48287-x

Genome-wide Identification, Classification, Expression and Duplication Analysis of GRAS Family Genes in Juglans regia L.
Cited by: 18
Author(s): Shaowen Quan, Jianxin Niu, Li Zhou, Hang Xu, Lan Ma, Qin Yang
Software Mentions: 1
Published: about 7 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

10.1155/2020/6782046

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

10.1155/2018/2914280

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: almost 9 years ago

10.1038/s41598-019-50507-3

Genome-wide association analysis of hippocampal volume identifies enrichment of neurogenesis-related pathways
Cited by: 18
Author(s): Alzheimer’s Disease Neuroimaging Initiative
Software Mentions: 1
Published: about 7 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: over 7 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

10.1186/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

10.1155/2021/1093702

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

10.1155/2016/3962761

Differentially Coexpressed Disease Gene Identification Based on Gene Coexpression Network
Cited by: 2
Author(s): Xue Jiang, Han Zhang, Xiongwen Quan
Software Mentions: 1
Published: almost 11 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

10.1186/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: almost 8 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

10.1038/s41598-019-50909-3

Proteomic analysis of eleven tissues in the Chinese giant salamander (Andrias davidianus)
Cited by: 5
Author(s): Xiaofang Geng, Jiuxin Guo, Xiayan Zang, Cuifang Chang, Haitao Shang, Hong Wei, Chi Xu
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-019-53052-1

Products of Chemoenzymatic Synthesis Representing MUC1 Tandem Repeat Unit with T-, ST- or STn-antigen Revealed Distinct Specificities of Anti-MUC1 Antibodies
Cited by: 23
Author(s): Yayoi Yoshimura, Kaori Denda-Nagai, Yoshie Takahashi, Izuru Nagashima, H. Shimizu, Toshimitsu Kishimoto, Miki Noji, Shigeyuki Shichino, Yasunori Chiba, Tatsuro Irimura
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-019-52883-2

Comprehensive Analysis of the Expression Profiles of Long Non-Coding RNAs with Associated ceRNA Network Involved in the Colon Cancer Staging and Progression
Cited by: 14
Author(s): Man‐Li C. Wu, Wenliang Li, Fengchang Huang, Jing Sun, Kang ping Li, Jiandong Shi, Jingyu Yang, Jianfang Li, Yanhan Li, Ningzhu Hu, Yunzhang Hu
Software Mentions: 1
Published: almost 7 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

10.3390/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

10.1038/s41598-019-54943-z

Water-soluble phosphorus contributes significantly to shaping the community structure of rhizospheric bacteria in rocky desertification areas
Cited by: 9
Author(s): Jinge Xie, Wei Xue, Cong Liu, Zongqiang Yan, Dong Li, Guoqiang Li, Xiwen Chen, Defu Chen
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-019-54995-1

Morpho-physiological and proteomic responses to water stress in two contrasting tobacco varieties
Cited by: 17
Author(s): Zheng Chen, Jianing Xu, Fazhan Wang, Lin Wang, Zicheng Xu
Software Mentions: 1
Published: almost 7 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: about 7 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: about 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: 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

10.1186/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

10.1038/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: almost 7 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: almost 13 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

10.1186/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

10.18632/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: 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

10.18632/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

10.1186/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: about 6 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

10.1186/1756-0500-5-265

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

10.18632/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

10.1038/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/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

10.18632/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

10.18632/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

10.18632/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

10.1089/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

10.1186/1753-6561-5-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: about 10 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

10.1186/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/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

10.1186/s12870-020-02442-z

Comparative transcriptome analysis between inbred and hybrids reveals molecular insights into yield heterosis of upland cotton
Cited by: 23
Author(s): Kashif Shahzad, Xuexian Zhang, Liping Guo, Ting Qi, Lisheng Bao, Meng Zhang, Bingbing Zhang, Hailin Wang, Huini Tang, Xin Qiao, Juanjuan Feng, Jianyong Wu, Chaozhu Xing
Software Mentions: 1
Published: over 6 years ago

10.1186/s12870-019-2192-1

Full-length transcriptome sequencing reveals the low-temperature-tolerance mechanism of Medicago falcata roots
Cited by: 40
Author(s): Guowen Cui, Hua Chai, Hang Yin, Mei Yang, Guofu Hu, Mingying Guo, Rugeletu Yi, Pan Zhang
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12870-021-03133-z

Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon
Cited by: 10
Author(s): Qingyou Zheng, Wenxing Chen, Man Luo, Lingfei Xu, Qinglin Zhang, Zhitian Luo
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-019-2125-z

PI signal transduction and ubiquitination respond to dehydration stress in the red seaweed Gloiopeltis furcata under successive tidal cycles
Cited by: 10
Author(s): Shun Liu, Zi‐Min Hu, Quansheng Zhang, Xiaoqi Yang, Alan T. Critchley, Delin Duan
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12870-021-02961-3

Analysis of miRNA-mediated regulation of flowering induction in Lilium × formolongi
Cited by: 4
Author(s): Qian Zhang, Yuqian Zhao, Xue Gao, Guanqing Jia
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-021-02952-4

Explore the gene network regulating the composition of fatty acids in cottonseed
Cited by: 7
Author(s): Lihong Ma, Xinqi Cheng, Chuan Wang, Xinyu Zhang, Fei Xue, Yanjun Li, Qian Zhu, Jie Sun, Feng Liu
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

10.1186/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

10.1038/s41598-021-90082-0

Revealing the developmental dynamics in male strobilus transcriptome of Gnetum luofuense using nanopore sequencing technology
Cited by: 5
Author(s): Chen Hou, Yuxin Tian, Yingli Wang, Huiming Lian, Dongcheng Liang, Shengqing Shi, Nan Deng, Boxiang He
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-021-89747-7

The novel immune-related genes predict the prognosis of patients with hepatocellular carcinoma
Cited by: 3
Author(s): Lunxu Li, Shilin Xia, Xueying Shi, Chen Xu, Dong Shang
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-021-90192-9

Estimates of gene ensemble noise highlight critical pathways and predict disease severity in H1N1, COVID-19 and mortality in sepsis patients
Cited by: 7
Author(s): Tristan V de Jong, Victor Guryev, Yuri M. Moshkin
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-020-02460-x

The differential expression patterns of paralogs in response to stresses indicate expression and sequence divergences
Cited by: 7
Author(s): Shuaibin Lian, Yongjie Zhou, Zixiao Liu, Andong Gong, Lin Cheng
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

10.1186/s12870-018-1497-9

Global dissection of alternative splicing uncovers transcriptional diversity in tissues and associates with the flavonoid pathway in tea plant (Camellia sinensis)
Cited by: 38
Author(s): Junyan Zhu, Xuewen Wang, Qingshan Xu, Sheng Zhao, Yuling Tai, Chaoling Wei
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12870-020-02715-7

Comparative cellular, physiological and transcriptome analyses reveal the potential easy dehulling mechanism of rice-tartary buckwheat (Fagopyrum Tararicum)
Cited by: 10
Author(s): Hongyou Li, Chaoxin Wu, Qiuyu Lv, Taoxiong Shi, Qijiao Chen
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-021-93250-4

A comprehensive transcriptomic landscape of cholangiocarcinoma based on bioinformatics analysis from large cohort of patients
Cited by: 4
Author(s): Hongguang Li, Lingxin Qu, Haibin Zhang, Jun Li, Xiaolu Zhang
Software Mentions: 1
Published: over 5 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: over 10 years ago

10.1038/s41598-021-94074-y

Circular noncoding RNA hsa_circ_0005986 as a prognostic biomarker for hepatocellular carcinoma
Cited by: 5
Author(s): Gyeonghwa Kim, Ja Ryung Han, Soo Young Park, Won Young Tak, Young-Oh Kweon, Yu Rim Lee, Young Seok Han, Jung Gil Park, Min Kyu Kang, Hye Won Lee, Won Kee Lee, Deokhoon Kim, Se Young Jang, Keun Hur
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-016-0804-6

Transcriptomic network analyses of leaf dehydration responses identify highly connected ABA and ethylene signaling hubs in three grapevine species differing in drought tolerance
Cited by: 53
Author(s): Daniel Hopper, Ryan Ghan, Karen Schlauch, Grant R. Cramer
Software Mentions: 1
Published: over 10 years ago

10.1186/s12870-021-02986-8

Discovery of genes involved in anthocyanin biosynthesis from the rind and pith of three sugarcane varieties using integrated metabolic profiling and RNA-seq analysis
Cited by: 11
Author(s): Ni Yang, Haimei Chen, Di Liu, Lihui Zeng, Pinghua Chen, Chang Liu
Software Mentions: 1
Published: over 5 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/s41598-021-96459-5

Target identification of hepatic fibrosis using Pien Tze Huang based on mRNA and lncRNA
Cited by: 4
Author(s): Jiaquan Zhu, Di Zhang, Ting Wang, Zhiliang Chen, Luan Chen, Hao Wu, Hui Cong, Jing Ping Sun, Na Zhang, Muyun Wei, Hong Fu, Shengying Qin
Software Mentions: 1
Published: about 5 years ago

10.1186/s12870-020-02578-y

Scion genotypes exert long distance control over rootstock transcriptome responses to low phosphate in grafted grapevine
Cited by: 15
Author(s): Antoine Gautier, Noé Cochetel, Isabelle Merlin, Cyril Hévin, Virginie Lauvergeat, Philippe Vivin, Alain Mollier, Nathalie Ollat, Sarah Jane Cookson
Software Mentions: 1
Published: about 6 years ago

10.1186/s12870-021-03206-z

Genome-wide identification and analysis of WRKY gene family in maize provide insights into regulatory network in response to abiotic stresses
Cited by: 27
Author(s): Weixin Hu, Qiaoyu Ren, Yali Chen, Guoliang Xu, Yexiong Qian
Software Mentions: 1
Published: about 5 years ago

10.1186/s12870-021-02879-w

Genome-wide analysis and expression profile of the bZIP gene family in poplar
Cited by: 48
Author(s): Kai Zhao, Ching Song, Wenjing Yao, Zihao Cheng, Boru Zhou, Tingbo Jiang
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-020-2314-9

Transcriptome co-expression network analysis identifies key genes and regulators of ripening kiwifruit ester biosynthesis
Cited by: 20
Author(s): Aidi Zhang, Qiuyun Zhang, Jianzhao Li, Hansheng Gong, Xinguang Fan, Yanqing Yang, Xiaofen Liu, Yin X
Software Mentions: 1
Published: over 6 years ago

10.1186/s12870-019-2186-z

Comparative physiological, metabolomic, and transcriptomic analyses reveal developmental stage-dependent effects of cluster bagging on phenolic metabolism in Cabernet Sauvignon grape berries
Cited by: 31
Author(s): Ruonan Sun, Guodong Cheng, Qiang Li, Yanrong Zhu, Xue Zhang, Yu Wang, Yuan He, Siyu Li, Lei He, Chen Wu, Qiu-Hong Pan, Chang‐Qing Duan, Jun Wang
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-021-97616-6

Analysis of weighted gene co-expression network of triterpenoid-related transcriptome characteristics from different strains of Wolfiporia cocos
Cited by: 0
Author(s): Zeng GuiPing, Li Zhong, Zhi Zhao
Software Mentions: 1
Published: about 5 years ago

10.1186/s12870-020-02798-2

Genome-wide identification and comprehensive analysis of NAC family genes involved in fruit development in kiwifruit (Actinidia)
Cited by: 15
Author(s): Dongfeng Jia, Zhiqiang Jiang, Haihui Fu, Lu Chen, Guanglian Liao, Yanqun He, Chunhui Huang, Xiaobiao Xu
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-021-98381-2

Glycolysis-related gene expression profiling serves as a novel prognosis risk predictor for human hepatocellular carcinoma
Cited by: 11
Author(s): Lingyu Zhang, Li Yu, Yibei Dai, Danhua Wang, Xuchu Wang, Ying Cao, Weiwei Liu, Zhihua Tao
Software Mentions: 1
Published: about 5 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/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: over 6 years ago

10.1002/path.4467

Cancer‐associated fibroblasts predict poor outcome and promote periostin‐dependent invasion in oesophageal adenocarcinoma
Cited by: 148
Author(s): Tim Underwood, Annette Hayden, Mathieu Derouet, Edwin Garcia, Fergus Noble, Michael J. White, Steve Thirdborough, Abbie Mead, Nicholas J. Clemons, Massimiliano Mellone, Chudy Uzoho, John Primrose, Jeremy P. Blaydes, Gareth J. Thomas
Software Mentions: 1
Published: almost 12 years ago

10.3390/antiox10091385

Characterization of Heat Shock Protein 60 as an Interacting Partner of Superoxide Dismutase 2 in the Silkworm, Bombyx mori, and Its Response to the Molting Hormone, 20-Hydroxyecdysone
Cited by: 2
Author(s): Yosui Nojima
Software Mentions: 1
Published: about 5 years ago

10.1186/s40064-016-3385-9

Discovery of the molecular mechanisms of the novel chalcone-based Magnaporthe oryzae inhibitor C1 using transcriptomic profiling and co-expression network analysis
Cited by: 3
Author(s): Hui Chen, Xiaoyun Wang, Hong Jin, Rui Li, Taiping Hou
Software Mentions: 1
Published: about 10 years ago

10.1186/s12870-020-02785-7

Transcriptome profiling reveals the effects of drought tolerance in Giant Juncao
Cited by: 15
Author(s): Jiawei Zhou, Siqi Chen, Wen-jiao Shi, Rakefet David‐Schwartz, Sutao Li, Fulin Yang, Zhan-xi Lin
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12870-020-02437-w

Long non-coding RNAs in the alkaline stress response in sugar beet (Beta vulgaris L.)
Cited by: 11
Author(s): Chunlei Zou, Yübo Wang, Bin Wang, Dan Liú, Lei Liu, Zhongtao Gai, Caifeng Li
Software Mentions: 1
Published: over 6 years ago

Projects: cran: WGCNA

Science Score: 85/100

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Papers Mentioning WGCNA 3,479