cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1186/s40035-021-00249-y

Several miRNAs derived from serum extracellular vesicles are potential biomarkers for early diagnosis and progression of Parkinson’s disease
Cited by: 31
Author(s): Shulei He, Lu Huang, Ci Shao, Tiejian Nie, Xia Li, Bozhou Cui, Fangfang Lu, Lin Zhu, Bolin Chen, Qian Yang
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0188016

Estimation of the proteomic cancer co-expression sub networks by using association estimators
Cited by: 2
Author(s): Cihat Erdoğan, Zeyneb Kurt, Banu Di̇ri̇
Software Mentions: 3
Published: almost 9 years ago

10.1038/s41598-020-75794-z

Comparative physiological and transcriptomic analysis of pear leaves under distinct training systems
Cited by: 4
Author(s): Zheng Liu, Liyuan An, Shan Lin, Tao Wu, Xianming Li, Junfan Tu, Yang Fang, Hongliang Zhu, Li Yang, Yuxiang Cheng, Qin ZhongQi
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12859-020-3446-5

Efficient identification of multiple pathways: RNA-Seq analysis of livers from 56Fe ion irradiated mice
Cited by: 8
Author(s): Anna M. Nia, Tianlong Chen, Brooke L. Barnette, Kamil Khanipov, Robert L. Ullrich, Suresh K. Bhavnani
Software Mentions: 3
Published: over 6 years ago

10.7150/jca.58484

Comprehensive analysis of Transcription Factors identified novel prognostic biomarker in human bladder cancer
Cited by: 5
Author(s): Yihao Liao, Xudong Zou, Keke Wang, Youzhi Wang, Miaomiao Wang, Tao Guo, Boqiang Zhong, Ning Jiang
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12870-015-0568-4

Comprehensive meta-analysis, co-expression, and miRNA nested network analysis identifies gene candidates in citrus against Huanglongbing disease
Cited by: 43
Author(s): Nidhi Rawat, Sandhya.P. Kiran, Dongliang Du, Fred G. Gmitter, Zhanao Deng
Software Mentions: 3
Published: over 11 years ago

10.1186/s12870-020-02419-y

Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency
Cited by: 16
Author(s): Yang Xiao-ling, Xiuzhong Xia, Zhen Yu, Baoxuan Nong, Zongqiong Zhang, Yanyan Wu, Qian Tian, Weiying Zeng, Ju Gao, Weiyong Zhou, He Liang, Danting Li, Gaofeng Deng
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2020.570530

Identification of Signatures of Prognosis Prediction for Melanoma Using a Hypoxia Score
Cited by: 19
Author(s): Yanhong Shou, Lu Yang, Yue Yang, Xiao‐Dong Zhu, Feng Li, Jianhua Xu
Software Mentions: 3
Published: about 6 years ago

10.1590/1414-431X20198333

Screening potential prognostic biomarkers of long non-coding RNAs for predicting the risk of chronic kidney disease
Cited by: 11
Author(s): Na Li, Yan Cui, Min Yin, Feng Liu
Software Mentions: 3
Published: almost 8 years ago

10.15252/embj.201696056

A novel microglial subset plays a key role in myelinogenesis in developing brain
Cited by: 316
Author(s): Agnieszka Włodarczyk, Inge R. Holtman, Martin Krueger, Nir Yogev, Julia Bruttger, Reza Khorooshi, Anouk Benmamar‐Badel, Jelkje J. de Boer-Bergsma, Nellie Anne Martin, Khalad Karram, Isabella Kramer, Erik Boddeke, Ari Waisman, Bart J. L. Eggen, Trevor Owens
Software Mentions: 3
Published: about 9 years ago

10.1186/s12864-020-06918-y

Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey
Cited by: 1
Author(s): Zhi Wang, Wenjun Ma, Tianqing Zhu, Nan Lu, Fangqun Ouyang, Nan Wang, Guijuan Yang, Lisheng Kong, Guanzheng Qu, Shougong Zhang, Junhui Wang
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0245046

Liver epigenome changes in patients with hepatopulmonary syndrome: A pilot study
Cited by: 4
Author(s): Núria Mendoza, Eva Rivas, Roberto Rodríguez-Roisin, Tamara García, Miquel Bruguera, Àlvar Agustí, Rosa Faner
Software Mentions: 3
Published: over 5 years ago

10.1186/s12870-019-1952-2

Genome-wide transcriptional adaptation to salt stress in Populus
Cited by: 28
Author(s): Jin-Gui Liu, Xiao Han, Tianbo Yang, Wenhui Cui, Aimin Wu, Chunxiang Fu, Baichen Wang, Lijun Liu
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0188900

FGMD: A novel approach for functional gene module detection in cancer
Cited by: 6
Author(s): Dao‐Chao Jin, Hyunju Lee
Software Mentions: 3
Published: almost 9 years ago

10.1093/bib/bbw114

Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences
Cited by: 444
Author(s): Claudia Manzoni, Demis A. Kia, Jana Vandrovcová, John Hardy, Nicholas W. Wood, Patrick A. Lewis, Raffaele Ferrari
Software Mentions: 3
Published: almost 10 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

10.1093/bib/bbw139

Gene co-expression analysis for functional classification and gene–disease predictions
Cited by: 511
Author(s): Sipko van Dam, Urmo Võsa, Adriaan van der Graaf, Lude Franke, João Pedro de Magalhães
Software Mentions: 3
Published: almost 10 years ago

10.1038/tp.2016.229

Transcriptome sequencing of the choroid plexus in schizophrenia
Cited by: 42
Author(s): S Kim, Young Sun Hwang, Doheon Lee, Maree J. Webster
Software Mentions: 3
Published: almost 10 years ago

10.1186/s12870-017-1143-y

Co-expression network analysis of the transcriptomes of rice roots exposed to various cadmium stresses reveals universal cadmium-responsive genes
Cited by: 80
Author(s): Tan Ming, Dan Cheng, Yunhai Yang, Guoqiang Zhang, Mengjie Qin, Jun Chen, Yahua Chen, Mingyi Jiang
Software Mentions: 3
Published: almost 9 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

10.1016/j.ebiom.2020.102854

Facets of individual-specific health signatures determined from longitudinal plasma proteome profiling
Cited by: 17
Author(s): Tea Dodig‐Crnković, Mun‐Gwan Hong, Cecilia Engel Thomas, Ragna S. Häussler, Annika Bendes, Matilda Dale, Fredrik Edfors, Björn Forsström, Patrik K. E. Magnusson, Ina Schuppe-Koistinen, Jacob Odeberg, Linn Fagerberg, Anders Gummesson, Göran Bergström, Mathias Uhlén, Jochen M. Schwenk
Software Mentions: 3
Published: over 6 years ago

10.1186/s12967-019-2126-6

A novel epigenetic signature for overall survival prediction in patients with breast cancer
Cited by: 29
Author(s): Xuanwen Bao, Nataša Anastasov, Yanfang Wang, Michael Rosemann
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41398-017-0036-z

Psychiatric polygenic risk associates with cortical morphology and functional organization in aging
Cited by: 6
Author(s): Annie Lee, Mojun Shen, Anqi Qiu
Software Mentions: 3
Published: almost 9 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

10.1186/s12870-019-2196-x

Comparative transcriptome analysis indicates that a core transcriptional network mediates isonuclear alloplasmic male sterility in wheat (Triticum aestivum L.)
Cited by: 20
Author(s): Zihan Liu, Sha Li, Wei Li, Qi Liu, Lingli Zhang, Xiyue Song
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41398-018-0267-7

Global long non-coding RNA expression in the rostral anterior cingulate cortex of depressed suicides
Cited by: 43
Author(s): Yi Zhou, Pierre-Eric Lutz, Yu Chang Wang, Jiannis Ragoussis, Gustavo Turecki
Software Mentions: 3
Published: about 8 years ago

10.1038/s41398-019-0466-x

Antidepressants affect gut microbiota and Ruminococcus flavefaciens is able to abolish their effects on depressive-like behavior
Cited by: 137
Author(s): Iva Lukić, Dmitriy Getselter, Oren Ziv, Oded Oron, Eli Reuveni, Omry Koren, Evan Elliott
Software Mentions: 3
Published: over 7 years ago

10.1186/1471-2105-11-497

DiffCoEx: a simple and sensitive method to find differentially coexpressed gene modules
Cited by: 190
Author(s): Bruno Tesson, Rainer Breitling, Ritsert C. Jansen
Software Mentions: 3
Published: about 16 years ago

10.3389/fgene.2013.00291

Network statistics of genetically-driven gene co-expression modules in mouse crosses
Cited by: 4
Author(s): Marie Pier Scott-Boyer, Benjamin Haibe‐Kains, Christian F. Deschepper
Software Mentions: 3
Published: almost 14 years ago

10.1186/s12859-020-03921-8

MiBiOmics: an interactive web application for multi-omics data exploration and integration
Cited by: 39
Author(s): Johanna Zoppi, Jean-François Guillaume, Michel Neunlist, Samuel Chaffron
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41398-019-0539-x

Differential transcriptional response following glucocorticoid activation in cultured blood immune cells: a novel approach to PTSD biomarker development
Cited by: 24
Author(s): Michael S. Breen, Linda M. Bierer, Nikolaos P. Daskalakis, Heather N. Bader, Iouri Makotkine, Matangini Chattopadhyay, Changxin Xu, Ariela Buxbaum Grice, Anna S. Tocheva, Janine D. Flory, Joseph D. Buxbaum, Michael J. Meaney, Kristen J. Brennand, Rachel Yehuda
Software Mentions: 3
Published: about 7 years ago

10.1038/s41398-019-0550-2

Genome-wide profiling of DNA methylome and transcriptome in peripheral blood monocytes for major depression: A Monozygotic Discordant Twin Study
Cited by: 47
Author(s): Yun Zhu, Eric Strachan, Emily Fowler, Tamara J. Bacus, Peter Roy‐Byrne, Jinying Zhao
Software Mentions: 3
Published: about 7 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/s12935-021-01929-5

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/s12935-021-02033-4

Immune signature-based hepatocellular carcinoma subtypes may provide novel insights into therapy and prognosis predictions
Cited by: 13
Author(s): Qiuxian Zheng, Qin Yang, Jiaming Zhou, Xinyu Gu, Haibo Zhou, Xuejun Dong, Haihong Zhu, Zhi Chen
Software Mentions: 3
Published: over 5 years ago

10.1038/s41398-020-0730-0

Stress genomics revisited: gene co-expression analysis identifies molecular signatures associated with childhood adversity
Cited by: 19
Author(s): Linda Dieckmann, Steve W. Cole, Robert Kumsta
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41398-020-0772-3

Gene expression changes associated with trajectories of psychopathology in a longitudinal cohort of children and adolescents
Cited by: 3
Author(s): Vanessa Kiyomi Ota, Marcos Santoro, Letícia Spíndola, Pedro Mário Pan, Andressa Simabucuro, Gabriela Xavier, Tamiris Vieira-Fonseca, Évelin Aline Zanardo, Felipe R. C. dos Santos, Julia Schäfer, Leslie Domenici Kulikowski, Pedro A. F. Galante, Paula Fontes Asprino, Elisa Brietzke, Rodrigo Grassi‐Oliveira, Luís Augusto Rohde, Eurı́pedes Constantino Miguel, Ary Gadelha, Jair J. Mari, Rodrigo Affonseca Bressan, Giovanni Abrahão Salum, Sintia Belangero
Software Mentions: 3
Published: over 6 years ago

10.1186/s12870-019-2169-0

Differential gene expression among three sex types reveals a MALE STERILITY 1 (CpMS1) for sex differentiation in papaya
Cited by: 11
Author(s): Dessireé Zerpa‐Catanho, Jennifer Wai, Ming Li Wang, Liang Yu, Julie Nguyen, Ray Ming
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12935-021-01871-6

Identifying SLC27A5 as a potential prognostic marker of hepatocellular carcinoma by weighted gene co-expression network analysis and in vitro assays
Cited by: 9
Author(s): Fan Zhang, Mengzhou Xue, Xin Jiang, Huiyuan Yu, Yixuan Qiu, J. Yu, Fan Yang, Zhijun Bao
Software Mentions: 3
Published: over 5 years ago

10.7150/jca.54565

Systematic Analysis of 4-gene Prognostic Signature in Patients with Diffuse Gliomas Based on Gene Expression Profiles
Cited by: 1
Author(s): Chunhai Huang, Zujian Xiong, Qi Yang, Xuejun Li
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12870-014-0307-2

RNA-sequencing reveals early, dynamic transcriptome changes in the corollas of pollinated petunias
Cited by: 39
Author(s): Shaun R. Broderick, Saranga Wijeratne, Asela J Wijeratn, Laura J. Chapin, Tea Meulia, Michelle L. Jones
Software Mentions: 3
Published: almost 12 years ago

10.1186/s12935-021-01982-0

Identification of collagen genes related to immune infiltration and epithelial-mesenchymal transition in glioma
Cited by: 25
Author(s): Yin Wu, Hecheng Zhu, Jun Tan, Zhaoqi Xin, Quanwei Zhou, Yudong Cao, Zhaoping Wu, Lei Wang, Ming Zhao, Xingjun Jiang, Chao Ren, Guihua Tang
Software Mentions: 3
Published: over 5 years ago

10.1186/s12935-018-0513-3

Integrated TCGA analysis implicates lncRNA CTB-193M12.5 as a prognostic factor in lung adenocarcinoma
Cited by: 26
Author(s): Wang Xue-hai, Gang Li, Qingsong Luo, Jianyong Xie, Chongzhi Gan
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-021-07366-y

PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response
Cited by: 18
Author(s): Xiaojie Liu, Xiaoshuang Li, Xiangying Wen, Yan Zhang, Yu Ding, Yiheng Zhang, Bei Gao, Daoyuan Zhang
Software Mentions: 3
Published: almost 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

10.1186/s12935-019-0859-1

Eleven genes associated with progression and prognosis of endometrial cancer (EC) identified by comprehensive bioinformatics analysis
Cited by: 54
Author(s): Jinhui Liu, Shulin Zhou, Siyue Li, Yi Jiang, Yicong Wan, Xiaoling Ma, Wenjun Cheng
Software Mentions: 3
Published: over 7 years ago

10.18632/aging.202351

Four hub genes regulate tumor infiltration by immune cells, antitumor immunity in the tumor microenvironment, and survival outcomes in lung squamous cell carcinoma patients
Cited by: 6
Author(s): Tuo Zhang, Haitang Yang, Beibei Sun, Feng Yao
Software Mentions: 3
Published: almost 6 years ago

10.1186/s40478-020-01037-x

Network analysis of the progranulin-deficient mouse brain proteome reveals pathogenic mechanisms shared in human frontotemporal dementia caused by GRN mutations
Cited by: 38
Author(s): Meixiang Huang, Erica Modeste, Eric B. Dammer, Paola Merino, Georgia Taylor, Duc M. Duong, Qiudong Deng, Christopher J. Holler, Marla Gearing, Dennis W. Dickson, Nicholas T. Seyfried, Thomas Kukar
Software Mentions: 3
Published: about 6 years ago

10.1186/s12935-020-01672-3

Assessing immune infiltration and the tumor microenvironment for the diagnosis and prognosis of sarcoma
Cited by: 28
Author(s): Naiqiang Zhu, Jingyi Hou
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41398-021-01421-8

Transcriptomics identifies STAT3 as a key regulator of hippocampal gene expression and anhedonia during withdrawal from chronic alcohol exposure
Cited by: 13
Author(s): Wei-Yang Chen, Changwei Hu, Kana Hamada, Eleonora Gatta, Ying Chen, Huaibo Zhang, Jenny Drnevich, Harish R. Krishnan, Mark Maienschein‐Cline, Dennis R. Grayson, Subhash C. Pandey, Amy W. Lasek
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.583316

Key Modules and Hub Genes Identified by Coexpression Network Analysis for Revealing Novel Biomarkers for Spina Bifida
Cited by: 6
Author(s): Zijian Li, Juan Feng, Zhengwei Yuan
Software Mentions: 3
Published: almost 6 years ago

10.1186/s40478-021-01186-7

VISTA regulates microglia homeostasis and myelin phagocytosis, and is associated with MS lesion pathology
Cited by: 3
Author(s): Malte Borggrewe, Susanne M. Kooistra, Evelyn Wesseling, Fenja L. Gierschek, Maaike L. Brummer, Elizabeth C. Nowak, Tiago Medeiros-Furquim, Tegan Otto, Sam W. Lee, Randolph J. Noelle, Bart J. L. Eggen, Jon D. Laman
Software Mentions: 3
Published: over 5 years ago

10.1038/s41398-021-01435-2

Convergent and distributed effects of the 3q29 deletion on the human neural transcriptome
Cited by: 8
Author(s): Esra Sefik, Ryan H. Purcell, q Emory, Elaine F. Walker, Gary J. Bassell, Jennifer G. Mullé
Software Mentions: 3
Published: over 5 years ago

10.1186/s12870-021-02893-y

Composition and diversity of bacterial communities in the rhizosphere of the Chinese medicinal herb Dendrobium
Cited by: 32
Author(s): Jiajia Zuo, Mengting Zu, Lei Liu, Xiaomei Song, Yingdan Yuan
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-016-3198-9

Mergeomics: multidimensional data integration to identify pathogenic perturbations to biological systems
Cited by: 81
Author(s): Le Shu, Yuqi Zhao, Zeyneb Kurt, Sean G. Byars, Taru Tukiainen, Johannes Kettunen, Luz D. Orozco, Matteo Pellegrini, Aldons J. Lusis, Samuli Ripatti, Bin Zhang, Michael Inouye, Ville Mäkinen, Xia Yang
Software Mentions: 3
Published: almost 10 years ago

10.1002/cam4.3946

WGCNA identification of TLR7 as a novel diagnostic biomarker, progression and prognostic indicator, and immunotherapeutic target for stomach adenocarcinoma
Cited by: 16
Author(s): Qihang Yuan, Qi Zhou, Jie Ren, Guan Wang, Chunlai Yin, Dong Shang, Shilin Xia
Software Mentions: 3
Published: over 5 years ago

10.1101/2020.05.13.092536

Network Analysis and Transcriptome Profiling Identify Autophagic and Mitochondrial Dysfunctions in SARS-CoV-2 Infection
Cited by: 12
Author(s): Komudi Singh, Yunching Chen, Jennifer Judy, Fayaz Seifuddin, Ilker Tunc, Mehdi Pirooznia
Software Mentions: 3
Published: over 6 years ago

10.1534/g3.120.401290

Genetic Underpinnings of Host Manipulation by <i>Ophiocordyceps</i> as Revealed by Comparative Transcriptomics
Cited by: 27
Author(s): Ian Will, Biplabendu Das, Thienthanh Trinh, Andreas Brachmann, Robin A. Ohm, Charissa de Bekker
Software Mentions: 3
Published: over 6 years ago

10.1186/s12870-021-03051-0

Study on the differences of gene expression between pear and apple wild cultivation materials based on RNA-seq technique
Cited by: 3
Author(s): Huangwei Zhang, Meng Li, Min Jung Kong, Jim M. Dunwell, Yuyan Zhang, Chao Yue, Juyou Wu, Shaoling Zhang
Software Mentions: 3
Published: over 5 years ago

10.1186/s12870-014-0348-6

chromoWIZ: a web tool to query and visualize chromosome-anchored genes from cereal and model genomes
Cited by: 7
Author(s): Thomas Nußbaumer, Karl G. Kugler, Wolfgang Schweiger, Kai Christian Bader, Heidrun Gundlach, Manuel Spannagl, Naser Poursarebani, Matthias Pfeifer, Klaus Mayer
Software Mentions: 3
Published: almost 12 years ago

10.1002/cam4.2468

Comprehensive analysis of five long noncoding RNAs expression as competing endogenous RNAs in regulating hepatoma carcinoma
Cited by: 13
Author(s): Xin Lou, Jun Li, Yu Dong, Yaqing Wei, Feng Shan, Jinjin Sun
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0231285

Blood co-expression modules identify potential modifier genes of diabetes and lung function in cystic fibrosis
Cited by: 6
Author(s): Fanny Pineau, Davide Caimmi, Milena Magalhães, Enora Fremy, Abdillah Mohamed, Laurent Mély, Sylvie Leroy, Marlène Murris, Mireille Claustres, R. Chiron, Albertina De Sario
Software Mentions: 3
Published: over 6 years ago

10.1186/s12885-021-08331-4

Hsa_circ_0000301 facilitates the progression of cervical cancer by targeting miR-1228-3p/IRF4 Axis
Cited by: 9
Author(s): Zhanfeng Deng, Fangfang Dai, Quan Zhou, Yanxiang Cheng
Software Mentions: 3
Published: over 5 years ago

10.1186/1471-2202-15-11

Genes showing altered expression in the medial preoptic area in the highly social maternal phenotype are related to autism and other disorders with social deficits
Cited by: 33
Author(s): Terri M. Driessen, Brian E. Eisinger, Changjiu Zhao, Sharon A. Stevenson, Michael C. Saul, Stephen C. Gammie
Software Mentions: 3
Published: almost 13 years ago

10.1186/s12891-021-03958-7

HEMGN and SLC2A1 might be potential diagnostic biomarkers of steroid-induced osteonecrosis of femoral head: study based on WGCNA and DEGs screening
Cited by: 10
Author(s): Zhixin Wu, Yinxian Wen, Guanlan Fan, Hangyuan He, Siqi Zhou, Liaobin Chen
Software Mentions: 3
Published: almost 6 years ago

10.18632/oncotarget.27112

Drivers of topoisomerase II poisoning mimic and complement cytotoxicity in AML cells
Cited by: 2
Author(s): Piyush More, Ute Goedtel-Armbrust, Viral Shah, Marianne Mathaes, Thomas Kindler, Miguel A. Andrade‐Navarro, Leszek Wojnowski
Software Mentions: 3
Published: about 7 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

10.1093/conphys/coaa013

Combined stress of ocean acidification and warming influence survival and drives differential gene expression patterns in the Antarctic pteropod, Limacina helicina antarctica
Cited by: 12
Author(s): Kevin M. Johnson, Gretchen E. Hofmann
Software Mentions: 3
Published: almost 7 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

10.1038/s41598-020-67114-2

Identification of key genes in ruptured atherosclerotic plaques by weighted gene correlation network analysis
Cited by: 16
Author(s): Biao Xu, Rui Li, Chunxia Huang, Binsheng He, Guangyi Li, Hong‐Shuo Sun, Zhong‐Ping Feng, Meihua Bao
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-020-67894-7

Disease-related cellular protein networks differentially affected under different EGFR mutations in lung adenocarcinoma
Cited by: 10
Author(s): Toshihide Nishimura, Hiroki Nakamura, Ayako Yachie‐Kinoshita, Takeshi Hase, Kiyonaga Fujii, Hirotaka Koizumi, Saeko Naruki, Masayuki Takagi, Yoshikazu Matsuoka, Naoki Furuya, Harubumi Kato, Hisashi Saji
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

10.1038/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/s41598-019-48925-4

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

10.1038/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

10.1038/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

10.1038/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

10.1038/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

10.1038/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/s41598-019-51862-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

10.1038/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

10.1038/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

10.1371/journal.pone.0239061

In silico transcriptional analysis of mRNA and miRNA reveals unique biosignatures that characterizes different types of diabetes
Cited by: 4
Author(s): J Carlos Angulo, Caian L. Vinhaes, Eduardo R. Fukutani, Victor V. S. Albuquerque, Artur T. L. Queiroz, Bruno B. Andrade, Kiyoshi F. Fukutani
Software Mentions: 3
Published: about 6 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

10.1371/journal.pone.0147147

Systematic Identification and Characterization of Long Non-Coding RNAs in the Silkworm, Bombyx mori
Cited by: 94
Author(s): Yuqian Wu, Tingcai Cheng, Chun Li, Duolian Liu, Quan Zhang, Rodney Long, Ping Zhao, Qingyou Xia
Software Mentions: 3
Published: almost 11 years ago

10.1038/s41598-019-56656-9

Identification of a key gene module associated with glucocorticoid- induced derangement in bone mineral density in patients with asthma
Cited by: 5
Author(s): Suh Young Lee, Ha Kyeong Won, Byung-Keun Kim, Sae Hoon Kim, Yoon Seok Chang, Sang Heon Cho, H. William Kelly, Kelan G. Tantisira, Heung-Woo Park
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-020-60228-7

Integrated transcriptomic correlation network analysis identifies COPD molecular determinants
Cited by: 32
Author(s): Paola Paci, Giulia Fiscon, Federica Conte, Valerio Licursi, Jarrett Morrow, Craig P. Hersh, Michael H. Cho, Peter J. Castaldi, Kimberly Glass, Edwin K. Silverman, Lorenzo Farina
Software Mentions: 3
Published: over 6 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

10.1038/s41598-020-64170-6

Whole transcriptome analysis and validation of metabolic pathways in subcutaneous adipose tissues during FGF21-induced weight loss in non-human primates
Cited by: 7
Author(s): Scott O. Murray, Louise S. Dalbøge, Karalee Baquero, Christina A. Sanford, Ayesha Misquith, Aaron J. Mercer, Thomas H. Meek, Mette Guldbrandt, Birgitte Andersen, Paul Kievit, Kevin L. Grove, Burak Kutlu
Software Mentions: 3
Published: over 6 years ago

10.7150/ijbs.33735

Co-expression network analysis of lncRNAs and mRNAs in rat liver tissue reveals the complex interactions in response to pathogenic cytotoxicity
Cited by: 3
Author(s): Dongliang Leng, Chen Huang, Kuan Cheok Lei, Shixue Sun, Baoqing Sun, Xiaohua Douglas Zhang
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0212513

Lenvatinib plus anti-PD-1 antibody combination treatment activates CD8+ T cells through reduction of tumor-associated macrophage and activation of the interferon pathway
Cited by: 262
Author(s): Yu Kato, Kimiyo Tabata, Takayuki Kimura, Ayako Yachie‐Kinoshita, Yoichi Ozawa, Kazuhiko Yamada, Junichi Ito, Sho Tachino, Yusaku Hori, Masahiro Matsuki, Yoshikazu Matsuoka, Samik Ghosh, Hiroaki Kitano, Ken’ichi Nomoto, Junji Matsui, Yasuhiro Funahashi
Software Mentions: 3
Published: over 7 years ago

10.7150/ijbs.57802

Downregulation of ACE2 expression by SARS-CoV-2 worsens the prognosis of KIRC and KIRP patients via metabolism and immunoregulation
Cited by: 14
Author(s): Qian Tang, Yue Wang, Ling Ou, Jieling Li, Kai Zheng, Hui Zhan, Jiayu Gu, Guibao Zhou, Shouqi Xie, Jianping Zhang, Wei Huang, Shaoxiang Wang, Wang Xiao
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

10.1155/2019/9736968

The Potential Link between Gut Microbiota and Serum TRAb in Chinese Patients with Severe and Active Graves’ Orbitopathy
Cited by: 13
Author(s): Tingting Shi, Lin Hua, Hua Wang, Xin Zhong
Software Mentions: 3
Published: almost 7 years ago

10.1155/2017/2568706

Genomewide Expression and Functional Interactions of Genes under Drought Stress in Maize
Cited by: 34
Author(s): Nepolean Thirunavukkarasu, R.C. Sharma, Nidhi Singh, Kaliyugam Shiriga, Sweta Mohan, Swati Mittal, Mittal Shikha, Mallana Gowdra Mallikarjuna, Atmakuri Ramakrishna Rao, Prasanta K. Dash, Firoz Hossain, H. S. Gupta
Software Mentions: 3
Published: almost 10 years ago

10.1155/2020/7524057

Construction and Validation of Predictive Model to Identify Critical Genes Associated with Advanced Kidney Disease
Cited by: 4
Author(s): Guangda Xin, Guangyu Zhou, Wenlong Zhang, Xiaofei Zhang
Software Mentions: 3
Published: almost 6 years ago

10.7150/ijms.51145

Interactome analysis of gene expression profiles identifies CDC6 as a potential therapeutic target modified by miR-215-5p in hepatocellular carcinoma
Cited by: 7
Author(s): Hongfa Xu, Jianwen Huang, Shengni Hua, Linjun Liang, Xueling He, Meixiao Zhan, Ligong Lu, Jing Chu
Software Mentions: 3
Published: almost 7 years ago

10.7150/ijms.63541

Identification of Key Genes and Pathways associated with Endometriosis by Weighted Gene Co-expression Network Analysis
Cited by: 9
Author(s): Jingni Wu, Xiaoling Fang, Xiaomeng Xia
Software Mentions: 3
Published: almost 6 years ago

10.7150/ijms.47356

Potential mechanism of RRM2 for promoting Cervical Cancer based on weighted gene co-expression network analysis
Cited by: 11
Author(s): Jingtao Wang, Yuexiong Yi, Yurou Chen, Ye Xiong, Wei Zhang
Software Mentions: 3
Published: almost 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

Projects: cran: WGCNA

Science Score: 85/100

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Papers Mentioning WGCNA 3,479