Projects: cran: WGCNA
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/WGCNA
Weighted Correlation Network Analysis
52 versions
Latest release: over 3 years ago
20 dependent packages
9,120 downloads last month
Science Score: 85/100
Starting Score: 100 points
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Very Likely Science (85)
Papers Mentioning WGCNA 3,479
10.1186/s12864-021-07595-1
Dynamics of rumen gene expression, microbiome colonization, and their interplay in goatsCited by: 15
Author(s): Xiangyu Pan, Zongjun Li, Bibo Li, Chen Zhao, Yu Wang, Yulin Chen, Yu Jiang
Software Mentions: 7
Published: over 5 years ago
10.1053/j.gastro.2017.10.007
DNA Methylation and Transcription Patterns in Intestinal Epithelial Cells From Pediatric Patients With Inflammatory Bowel Diseases Differentiate Disease Subtypes and Associate With OutcomeCited by: 199
Author(s): Kate J. Howell, Judith Kraiczy, Komal Nayak, Marco Gasparetto, Alex Ross, Claire Lee, Tim N. Mak, Bon–Kyoung Koo, Nitin Kumar, Trevor D. Lawley, Anupam Sinha, Philip Rosenstiel, Robert Heuschkel, Oliver Stegle, Matthias Zilbauer
Software Mentions: 7
Published: over 8 years ago
10.3389/fgene.2021.639642
Immune-Related Genes Are Prognostic Markers for Prostate Cancer RecurrenceCited by: 10
Author(s): Min Fu, Qiang Wang, Hanbo Wang, Ying Dai, Jin Wang, Weiting Kang, Zilian Cui, Xunbo Jin
Software Mentions: 7
Published: about 5 years ago
10.3389/fgene.2020.00895
Identification of Hub Genes Associated With Hepatocellular Carcinoma Using Robust Rank Aggregation Combined With Weighted Gene Co-expression Network AnalysisCited by: 10
Author(s): Hongjiang Song, Na Ding, Shang Li, Jianlong Liao, Aimin Xie, Youtao Yu, Chunlong Zhang, Caifang Ni
Software Mentions: 7
Published: almost 6 years ago
10.1186/s13195-020-00733-z
Exploring the role of RALYL in Alzheimer’s disease reserve by network-based approachesCited by: 4
Author(s): Yixuan Zhang, Jiali Wang, Xiaoquan Liu, Haochen Liu
Software Mentions: 7
Published: almost 6 years ago
10.3389/fgene.2020.595757
Periostin Contributes to Immunoglobulin a Nephropathy by Promoting the Proliferation of Mesangial Cells: A Weighted Gene Correlation Network AnalysisCited by: 4
Author(s): Jinlong Wu, Qisheng Lin, Shu Li, Xinghua Shao, Xuying Zhu, Minfang Zhang, Wenyan Zhou, Zhaohui Ni
Software Mentions: 7
Published: over 5 years ago
10.3389/fpls.2017.00413
Identification of Circular RNAs in Kiwifruit and Their Species-Specific Response to Bacterial Canker Pathogen InvasionCited by: 54
Author(s): Zupeng Wang, Yifei Liu, Dawei Li, Li Li, Qiong Zhang, Shuaibin Wang, Hongwen Huang
Software Mentions: 7
Published: over 9 years ago
10.3389/fpls.2020.619404
Barley Anther and Meiocyte Transcriptome Dynamics in Meiotic Prophase ICited by: 18
Author(s): Abdellah Barakate, Jamie Orr, Miriam Schreiber, Isabelle Colas, Dominika Lewandowska, Nicola McCallum, Malcolm Macaulay, Jenny Morris, Mikel Arrieta, Pete E. Hedley, Luke Ramsay, Robbie Waugh
Software Mentions: 7
Published: over 5 years ago
10.1111/jcmm.15805
Identification of purity and prognosis‐related gene signature by network analysis and survival analysis in brain lower grade gliomaCited by: 15
Author(s): Zujian Xiong, Yi Xiong, Hongwei Liu, L. Chang, Xuejun Li
Software Mentions: 7
Published: about 6 years ago
10.1002/ece3.4756
Symbiont type and environmental factors affect transcriptome‐wide gene expression in the coral <i>Montipora capitata</i>Cited by: 9
Author(s): Martin Helmkampf, M. Renee Bellinger, Monika Frazier, Misaki Takabayashi
Software Mentions: 7
Published: over 7 years ago
10.3390/brainsci9120381
A Pathway-Based Genomic Approach to Identify Medications: Application to Alcohol Use DisorderCited by: 6
Author(s): Laura B. Ferguson, Shruti Patil, Bailey A. Moskowitz, Igor Ponomarev, R. Adron Harris, R. Dayne Mayfield, Robert O. Messing
Software Mentions: 6
Published: over 6 years ago
10.1371/journal.pone.0233372
Muscle transcriptome analysis identifies genes involved in ciliogenesis and the molecular cascade associated with intramuscular fat content in Large White heavy pigsCited by: 20
Author(s): Martina Zappaterra, Silvia Gioiosa, Giovanni Chillemi, Paolo Zambonelli, Roberta Davoli
Software Mentions: 6
Published: over 6 years ago
10.3389/fphys.2018.01778
Identification of Crucial Genes and Pathways in Human Arrhythmogenic Right Ventricular Cardiomyopathy by Coexpression AnalysisCited by: 11
Author(s): Peipei Chen, Bo Long, Yuanfu Xu, Wei Wu, Shuyang Zhang
Software Mentions: 6
Published: over 7 years ago
10.3389/fphys.2019.01370
A Dynamic Transcriptional Analysis Reveals IL-6 Axis as a Prominent Mediator of Surgical Acute Response in Non-ischemic Mouse HeartCited by: 1
Author(s): Sally Badawi, Alexandre Paccalet, Zeina Harhous, Bruno Pillot, Lionel Augeul, Fabien Van Coppenolle, Joël Lachuer, Mazen Kurdi, Claire Crola Da Silva, Michel Ovize, Gabriel Bidaux
Software Mentions: 6
Published: almost 7 years ago
10.3389/fphar.2016.00142
Comparative Transcriptome Analysis Identifies CCDC80 as a Novel Gene Associated with Pulmonary Arterial HypertensionCited by: 22
Author(s): Shota Sasagawa, Yuhei Nishimura, Hirofumi Sawada, Eric Erquan Zhang, Shiko Okabe, Soichiro Murakami, Yoshifumi Ashikawa, Mizuki Yuge, Koki Kawaguchi, Reiko Kawase, Yoshihide Mitani, Kazuo Maruyama, Toshio Tanaka
Software Mentions: 6
Published: about 10 years ago
10.3389/fphar.2020.593247
Identification of FPR3 as a Unique Biomarker for Targeted Therapy in the Immune Microenvironment of Breast CancerCited by: 7
Author(s): Jian Qi, Yu Liu, Jiliang Hu, Li Lu, Zhen Dou, Haiming Dai, Hongzhi Wang, Wulin Yang
Software Mentions: 6
Published: over 5 years ago
10.3389/fonc.2021.614531
Identification and Validation of Hub Genes Associated With Hepatocellular Carcinoma Via Integrated Bioinformatics AnalysisCited by: 8
Author(s): Sumei Wang, Zuoli Song, Bing Teng, Jinjuan Zhang, Jiandong Zhang, Shuye Liu
Software Mentions: 6
Published: about 5 years ago
10.1186/s12864-021-07443-2
Investigating mechanisms underlying genetic resistance to Salmon Rickettsial Syndrome in Atlantic salmon using RNA sequencingCited by: 12
Author(s): Carolina P. Moraleda, Diego Robledo, Alejandro P. Gutiérrez, Jorge Del‐Pozo, José M. Yáñez, Ross D. Houston
Software Mentions: 6
Published: over 5 years ago
10.1186/s12885-017-3832-1
Comparative gene co-expression network analysis of epithelial to mesenchymal transition reveals lung cancer progression stagesCited by: 9
Author(s): Daifeng Wang, John D. Haley, Patricia Thompson
Software Mentions: 6
Published: almost 9 years ago
10.1186/s12885-018-4848-x
Genomic analysis of DNA repair genes and androgen signaling in prostate cancerCited by: 53
Author(s): Kasey Jividen, Katarzyna Kedzierska, Chunsong Yang, Karol Szlachta, Aakrosh Ratan, Bryce M. Paschal
Software Mentions: 6
Published: almost 8 years ago
10.1186/s12885-021-08052-8
Comprehensive analysis of immune-related prognostic genes in the tumour microenvironment of hepatocellular carcinomaCited by: 2
Author(s): Weike Gao, Luan Li, Xinyin Han, Siyao Liu, Chengzhen Li, Guanying Yu, Lei Zhang, Dongsheng Zhang, Caiyun Liu, Erhong Meng, Shuai Hong, Dongliang Wang, Peiming Guo, Guangjun Shi
Software Mentions: 6
Published: over 5 years ago
10.1371/journal.pone.0109760
Copy Number Loss of the Interferon Gene Cluster in Melanomas Is Linked to Reduced T Cell Infiltrate and Poor Patient PrognosisCited by: 164
Author(s): Peter S. Linsley, Cate Speake, Elizabeth Whalen, Damien Chaussabel
Software Mentions: 6
Published: almost 12 years ago
10.18632/aging.103743
Identification of subtype-specific genes signature by WGCNA for prognostic prediction in diffuse type gastric cancerCited by: 6
Author(s): Qi Zhou, Liqun Zhou, Shihao Li, Yi‐Wu Yuan, Li Liu, Jinliang Wang, Deng-Zhong Wu, You Wu, Lin Xin
Software Mentions: 6
Published: almost 6 years ago
10.18632/aging.203166
Identification and validation of inferior prognostic genes associated with immune signatures and chemotherapy outcome in acute myeloid leukemiaCited by: 7
Author(s): Jie Wang, Hao Jian-ping, Nazim Uddin, Yun Wu, Rong Chen, Dongfeng Li, Dai-qin Xiong, Nan Ding, Jianhua Yang, Xiaowen Ding
Software Mentions: 6
Published: about 5 years ago
10.18632/aging.202638
Identification of key genes in coronary artery disease: an integrative approach based on weighted gene co-expression network analysis and their correlation with immune infiltrationCited by: 10
Author(s): Yang Yang, Xiangshan Xu
Software Mentions: 6
Published: over 5 years ago
10.1186/s12885-021-08711-w
Construction of a ceRNA network of hub genes affecting immune infiltration in ovarian cancer identified by WGCNACited by: 12
Author(s): Rongjia Su, Chengjuan Jin, Lina Zhou, Yannan Cao, Menghua Kuang, Linxia Li, Jianbin Xiang
Software Mentions: 6
Published: about 5 years ago
10.1186/s12864-021-07720-0
Comparative neurotranscriptomics reveal widespread species differences associated with bondingCited by: 5
Author(s): Joel A. Tripp, Alejandro Berrío, Lisa A. McGraw, Mikhail V. Matz, Jamie K. Davis, Kiyoshi Inoue, James W. Thomas, Larry J. Young, Steve Phelps
Software Mentions: 6
Published: over 5 years ago
10.3390/biom9010012
Integrated Transcriptome Analysis Reveals Plant Hormones Jasmonic Acid and Salicylic Acid Coordinate Growth and Defense Responses upon Fungal Infection in PoplarCited by: 63
Author(s): Jie Luo, Wenxiu Xia, Pei Cao, Zheng’ang Xiao, Yan Zhang, Meifeng Liu, Chengjun Zhan, Nian Wang
Software Mentions: 6
Published: over 7 years ago
10.3390/biomedicines9091120
Neural Precursor Cells Expanded Inside the 3D Micro-Scaffold Nichoid Present Different Non-Coding RNAs Profiles and Transcript Isoforms Expression: Possible Epigenetic Modulation by 3D GrowthCited by: 3
Author(s): Letizia Messa, Bianca Barzaghini, Federica Rey, Cecilia Pandini, Gian Vincenzo Zuccotti, Cristina Cereda, Stephana Carelli, Manuela Teresa Raimondi
Software Mentions: 6
Published: about 5 years ago
10.1371/journal.pone.0205406
Examining the contribution of smoking and HPV towards the etiology of oral cavity squamous cell carcinoma using high-throughput sequencing: A prospective observational studyCited by: 10
Author(s): Andrew P Zammit, Rohit Anthony Sinha, Caroline Cooper, Christopher Perry, Ian H. Frazer, Zewen Kelvin Tuong
Software Mentions: 6
Published: almost 8 years ago
10.3389/fonc.2021.636479
An Immune Cell-Based Signature Associating With EMT Phenotype Predicts Postoperative Overall Survival of ESCCCited by: 4
Author(s): Hongliang Yu, Dayong Gu, Chao Yang, Jianhua Xu, Feng Yan, Xu He
Software Mentions: 6
Published: over 5 years ago
10.1371/journal.pone.0183517
Integrated analysis of long non-coding RNAs in human gastric cancer: An in silico studyCited by: 7
Author(s): Han Wang, Zhenyu Zhang, Bangshun He, Yu Xu, Jun Zhang, Weijun Cao
Software Mentions: 6
Published: about 9 years ago
10.1371/journal.pone.0254829
Tumor infiltrating lymphocytes associated competitive endogenous RNA networks as predictors of outcome in hepatic carcinoma based on WGCNA analysisCited by: 1
Author(s): Ying He, Xu Rui, Li Peng, Xiaoyu Hu
Software Mentions: 6
Published: about 5 years ago
10.3389/fonc.2021.629633
GMFG Has Potential to Be a Novel Prognostic Marker and Related to Immune Infiltrates in Breast CancerCited by: 5
Author(s): Yan Yang, Xin He, Qianqian Tang, You-Cheng Shao, Wenjing Song, Peng Gong, Yifan Zeng, Shu‐Chun Huang, Jiang-Yao Zhou, Huifang Wan, Lei Wei, Jingwei Zhang
Software Mentions: 6
Published: about 5 years ago
10.1186/s12859-019-2840-3
m6Acomet: large-scale functional prediction of individual m6A RNA methylation sites from an RNA co-methylation networkCited by: 30
Author(s): Xiangyu Wu, Zhen Wei, Kunqi Chen, Qing Zhang, Jionglong Su, Hui Liu, Lin Zhang, Jia Meng
Software Mentions: 6
Published: over 7 years ago
10.18632/aging.202474
Clinical and genomic characteristics of metabolic syndrome in colorectal cancerCited by: 2
Author(s): Yanyan Li, Jungang Zhao, Xiaoli Wu, Yini Zhang, Jia Yin, Weiyang Cai
Software Mentions: 6
Published: over 5 years ago
10.3389/fonc.2021.639600
Identification of VWF as a Novel Biomarker in Lung Adenocarcinoma by Comprehensive AnalysisCited by: 8
Author(s): Yi He, Ruijie Liu, Minghui Yang, Wu Bi, Liuyin Zhou, Sai Zhang, Jin Jin, Xujun Liang, Pengfei Zhang
Software Mentions: 6
Published: over 5 years ago
10.3389/fmicb.2021.666558
The Transcriptional Response of Soil Bacteria to Long-Term Warming and Short-Term Seasonal Fluctuations in a Terrestrial ForestCited by: 6
Author(s): Priyanka Chowdhury, Stefan Golas, Lauren Alteio, Joshua T. E. Stevens, Andrew F. Billings, Jeffrey L. Blanchard, Jerry M. Melillo, Kristen M. DeAngelis
Software Mentions: 6
Published: about 5 years ago
10.18632/aging.103832
Prognostic model of patients with liver cancer based on tumor stem cell content and immune processCited by: 7
Author(s): Jie Zhu, Miaomiao Gao, Yuchen Jin, Weiran Huang, Zhuo Huang, Zhengwei Xie
Software Mentions: 6
Published: about 6 years ago
10.1371/journal.pone.0236186
Gene co-expression network analysis to identify critical modules and candidate genes of drought-resistance in wheatCited by: 16
Author(s): Liangjie Lv, Wenying Zhang, Lijing Sun, Aiju Zhao, Yingjun Zhang, Limei Wang, Yuping Liu, Ziqian Li, Xiyong Chen
Software Mentions: 6
Published: about 6 years ago
10.3389/fimmu.2021.632798
Comprehensive Transcriptomic Analysis Identifies Novel Antiviral Factors Against Influenza A Virus InfectionCited by: 11
Author(s): Ao Zhou, Dong Xia, Mengyun Liu, Bin Tang
Software Mentions: 6
Published: about 5 years ago
10.3389/fonc.2021.670218
KIF11 Serves as an Independent Prognostic Factor and Therapeutic Target for Patients With Lung AdenocarcinomaCited by: 13
Author(s): Zhaodong Li, Bin Yu, Fanghua Qi, Fan Li
Software Mentions: 6
Published: over 5 years ago
10.1371/journal.pone.0208132
Identification of alterations in macrophage activation associated with disease activity in systemic lupus erythematosusCited by: 67
Author(s): Adam C. Labonte, Brian Kegerreis, Nicholas S. Geraci, Prathyusha Bachali, Sushma Madamanchi, Robert Robl, Michelle D. Catalina, Peter E. Lipsky, Amrie C. Grammer
Software Mentions: 6
Published: over 7 years ago
10.18632/aging.103994
Molecular identification of protein kinase C beta in Alzheimer's diseaseCited by: 6
Author(s): Zhike Zhou, Fenqin Chen, Shanshan Zhong, Yi Zhou, Rongwei Zhang, Kexin Kang, Xiaoqian Zhang, Ying Xu, Mei Zhao, Chuansheng Zhao
Software Mentions: 6
Published: almost 6 years ago
10.1186/s12967-020-02616-1
Immune landscape of periodontitis unveils alterations of infiltrating immunocytes and molecular networks-aggregating into an interactive web-tool for periodontitis related immune analysis and visualizationCited by: 7
Author(s): Xiaoqi Zhang, Qingxuan Wang, Xinyu Yan, Yue Shan, Xing Lü, Minqi Li, Hu Long, Wenli Lai
Software Mentions: 6
Published: almost 6 years ago
10.1371/journal.pone.0227258
Accelerated brain aging towards transcriptional inversion in a zebrafish model of the K115fs mutation of human PSEN2Cited by: 29
Author(s): Nhi Hin, Morgan Newman, Jan Kaslin, Alon M. Douek, Amanda L. Lumsden, Seyyed Hani Moussavi Nik, Yang Dong, Xin Zhou, Noralyn B. Mañucat-Tan, Alastair J. Ludington, David L. Adelson, Stephen Pederson, Michael Lardelli
Software Mentions: 6
Published: over 6 years ago
10.3390/ijms20020263
Molecular Network-Based Drug Prediction in Thyroid CancerCited by: 14
Author(s): Xingyu Xu, Hang Long, Baohang Xi, Binbin Ji, Zejun Li, Yunyue Dang, Cheng Jiang, Yao Yao, Jialiang Yang
Software Mentions: 6
Published: over 7 years ago
10.3389/fimmu.2021.645839
Multi-Omics Profiling Identifies Risk Hypoxia-Related Signatures for Ovarian Cancer PrognosisCited by: 11
Author(s): Xingyu Chen, Hua Lan, Dong He, Runshi Xu, Yao Zhang, Ying Cheng, Haotian Chen, Songshu Xiao, Ke Cao
Software Mentions: 6
Published: about 5 years ago
10.18632/aging.202603
Functional analysis of brain derived neurotrophic factor (BDNF) in Huntington’s diseaseCited by: 6
Author(s): Zhike Zhou, Shanshan Zhong, Rongwei Zhang, Kexin Kang, Xiaoqian Zhang, Ying Xu, Chuansheng Zhao, Mei Zhao
Software Mentions: 6
Published: over 5 years ago
10.1186/s12967-020-02260-9
Identification of key genes controlling breast cancer stem cell characteristics via stemness indices analysisCited by: 42
Author(s): Jianying Pei, Yanxia Wang, Yan Li
Software Mentions: 6
Published: over 6 years ago
10.1155/2021/5552623
Integrative Functional Genomic Analysis of Molecular Signatures and Mechanistic Pathways in the Cell Cycle Underlying Alzheimer’s DiseaseCited by: 5
Author(s): Zhike Zhou, Jun Bai, Shanshan Zhong, Rongwei Zhang, Kexin Kang, Xiaoqian Zhang, Ying Xu, Chuansheng Zhao, Mei Zhao
Software Mentions: 6
Published: about 5 years ago
10.1155/2018/4246703
Candidate Biomarkers and Molecular Mechanism Investigation for Glioblastoma Multiforme Utilizing WGCNACited by: 64
Author(s): Qi Yang, Rui Wang, Bo Wei, Chuangang Peng, Le Wang, Guozhang Hu, Daliang Kong, Chao Du
Software Mentions: 6
Published: almost 8 years ago
10.3389/fgene.2020.634634
A Novel Prognostic Model of Early-Stage Lung Adenocarcinoma Integrating Methylation and Immune BiomarkersCited by: 17
Author(s): Jin Ren, Yun Yang, Chuanyin Li, Lu Xie, Ronggui Hu, Qin Xiong, Menghuan Zhang
Software Mentions: 6
Published: over 5 years ago
10.1371/journal.pone.0241128
Kin recognition: Neurogenomic response to mate choice and sib mating avoidance in a parasitic waspCited by: 0
Author(s): Aurore Gallot, Sandrine Sauzet, Emmanuel Desouhant
Software Mentions: 6
Published: almost 6 years ago
10.3389/fgene.2020.00011
Novel Combined Tissue Transcriptome Analysis After Lentogenic Newcastle Disease Virus Challenge in Inbred Chicken Lines of Differential ResistanceCited by: 6
Author(s): Melissa S. Deist, Rodrigo A. Gallardo, Jack C. M. Dekkers, Huaijun Zhou, Susan J. Lamont
Software Mentions: 6
Published: over 6 years ago
10.1186/s12864-019-6375-9
Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristicsCited by: 27
Author(s): Yanchao Xu, Richard Odongo Magwanga, Xiaomin Yang, Dingsha Jin, Xiaoyan Cai, Yuqing Hou, Yangyang Wei, Kunbo Wang, Fang Liu
Software Mentions: 6
Published: over 6 years ago
10.7717/peerj.10633
Gene signatures with predictive and prognostic survival values in human osteosarcomaCited by: 4
Author(s): Zhongpeng Qiu, Xuehui Du, Kai Chen, Yi Dai, Sibo Wang, Jun Xiao, Gang Li
Software Mentions: 6
Published: over 5 years ago
10.1038/ismej.2017.165
Recurrent patterns of microdiversity in a temperate coastal marine environmentCited by: 110
Author(s): Meghan Chafee, Antonio Fernández-Guerra, Pier Luigi Buttigieg, Gunnar Gerdts, A. Murat Eren, Hanno Teeling, Rudolf Amann
Software Mentions: 6
Published: almost 9 years ago
10.7554/eLife.35368
Epigenetic drift of H3K27me3 in aging links glycolysis to healthy longevity in DrosophilaCited by: 92
Author(s): Zaijun Ma, Hui Wang, Yuping Cai, Han Wang, Kongyan Niu, Xiaofen Wu, Huanhuan Ma, Yun Yang, Wenhua Tong, Feng Liu, Zhandong Liu, Yaoyang Zhang, Rui Li, Zheng‐Jiang Zhu, Nan Liu
Software Mentions: 6
Published: over 8 years ago
10.3389/fgene.2020.00311
Weighted Gene Coexpression Network Analysis of Features That Control Cancer Stem Cells Reveals Prognostic Biomarkers in Lung AdenocarcinomaCited by: 57
Author(s): Yi Liao, Yulei Wang, Mengqing Cheng, Chengliang Huang, Xiaoxuan Fan
Software Mentions: 6
Published: over 6 years ago
10.3389/fgene.2019.01056
Meta-Analysis of HTLV-1-Infected Patients Identifies CD40LG and GBP2 as Markers of ATLL and HAM/TSP Clinical Status: Two Genes Beat as OneCited by: 5
Author(s): Eduardo R. Fukutani, Pablo Ivan Pereira Ramos, José Irahe Kasprzykowski, Lucas Gentil Azevedo, Moreno Magalhães de Souza Rodrigues, João Victor Lima, Helton Fábio Santos de Araújo, Kiyoshi F. Fukutani, Artur T. L. Queiroz
Software Mentions: 6
Published: almost 7 years ago
10.1038/s41398-021-01447-y
Essential genes from genome-wide screenings as a resource for neuropsychiatric disorders gene discoveryCited by: 2
Author(s): Wei Zhang, Joao L De Quevedo, Gabriel R. Fries
Software Mentions: 6
Published: over 5 years ago
10.7717/peerj.8505
Identification and validation of key modules and hub genes associated with the pathological stage of oral squamous cell carcinoma by weighted gene co-expression network analysisCited by: 10
Author(s): Xuegang Hu, Genban Sun, Zhiqiang Shi, Hui Ni, Shan Jiang
Software Mentions: 6
Published: over 6 years ago
10.1038/s41398-021-01531-3
Gut microbial biomarkers for the treatment response in first-episode, drug-naïve schizophrenia: a 24-week follow-up studyCited by: 22
Author(s): Xiuxia Yuan, Yunpeng Wang, Xue Li, Jiajun Jiang, Yulin Kang, Lijuan Pang, Peifen Zhang, Ang Li, Luxian Lv, Ole A. Andreassen, Xiaoduo Fan, Shaohua Hu, Xueqin Song
Software Mentions: 6
Published: about 5 years ago
10.3389/fgene.2019.00209
Identifying Hub Genes for Heat Tolerance in Water Buffalo (Bubalus bubalis) Using Transcriptome DataCited by: 23
Author(s): Shenhe Liu, Tingzhu Ye, Zipeng Li, Jun Li, Muhammad Jamil Ahmad, Yang Zhou, Guohua Hua, Aixin Liang, Tingxian Deng, Liguo Yang
Software Mentions: 6
Published: over 7 years ago
10.3389/fgene.2019.01120
Leveraging User-Friendly Network Approaches to Extract Knowledge From High-Throughput Omics DatasetsCited by: 12
Author(s): Pablo Ivan Pereira Ramos, Luis Willian Pacheco Arge, Nicholas Costa Barroso Lima, Kiyoshi F. Fukutani, Artur T. L. Queiroz
Software Mentions: 6
Published: almost 7 years ago
10.3389/fgene.2021.723519
Time Course Transcriptomic Study Reveals the Gene Regulation During Liver Development and the Correlation With Abdominal Fat Weight in ChickenCited by: 8
Author(s): Siyuan Xing, Ranran Liu, Guiping Zhao, M.A.M. Groenen, Ole Madsen, Lu Liu, Maiqing Zheng, Qiao Wang, Zhou Wu, R.P.M.A. Crooijmans, Jie Wen
Software Mentions: 6
Published: almost 5 years ago
10.1186/s12864-016-3020-8
RNA-Seq analysis of seasonal and individual variation in blood transcriptomes of healthy managed bottlenose dolphinsCited by: 27
Author(s): Jeanine S. Morey, Marion G. Neely, Denise Lunardi, Paul E. Anderson, Lori H. Schwacke, Michelle R. Campbell, Frances M. Van Dolah
Software Mentions: 6
Published: almost 10 years ago
10.1186/s12864-020-6767-x
Multipathway synergy promotes testicular transition from growth to spermatogenesis in early-puberty goatsCited by: 11
Author(s): Dongdong Bo, Xunping Jiang, Guiqiong Liu, Feng Xu, Ronggui Hu, Teketay Wassie, Yuqing Chong, S. Sohail Ahmed, Chenhui Liu, Shishay Girmay
Software Mentions: 6
Published: over 6 years ago
10.3389/fgene.2019.00823
Weighted Gene Co-Expression Analyses Point to Long Non-Coding RNA Hub Genes at Different Schistosoma mansoni Life-Cycle StagesCited by: 19
Author(s): Lucas F. Maciel, David A. Morales-Vicente, Gilbert O. Silveira, Raphael O. Ribeiro, Giovanna G. O. Olberg, David S. Pires, Murilo Sena Amaral, Sérgio Verjovski-Almeida
Software Mentions: 6
Published: almost 7 years ago
10.3389/fgene.2020.566159
Identifying 8-mRNAsi Based Signature for Predicting Survival in Patients With Head and Neck Squamous Cell Carcinoma via Machine LearningCited by: 10
Author(s): Yanhua Tian, Juncheng Wang, Chao Qin, Guanghao Zhu, Xuan Chen, Zhixiang Chen, Yuexiang Qin, Ming Wei, Zhexuan Li, Xin Zhang, Yunxia Lv, Gengming Cai
Software Mentions: 6
Published: almost 6 years ago
10.1038/s41598-021-86048-x
A ceRNA-associated risk model predicts the poor prognosis for head and neck squamous cell carcinoma patientsCited by: 9
Author(s): Yuzi Xu, Fengqin Xu, Yiming Lv, Siyuan Wang, Jia Li, Chuan Zhou, Jimin Jiang, Binbin Xie, Fuming He
Software Mentions: 6
Published: over 5 years ago
10.12688/wellcomeopenres.15115.1
Single-cell transcriptome analysis of CD8+ T-cell memory inflationCited by: 7
Author(s): Andrew J. Highton, Madeleine E Zinser, Lian Ni Lee, Claire Hutchings, Catherine de Lara, Chansavath Phetsouphanh, Christian Willberg, Claire L. Gordon, Paul Klenerman, Emanuele Marchi
Software Mentions: 6
Published: over 7 years ago
10.1038/s41598-021-85848-5
Abnormal upregulation of cardiovascular disease biomarker PLA2G7 induced by proinflammatory macrophages in COVID-19 patientsCited by: 18
Author(s): Yang Li, Yongzhong Jiang, Yi Zhang, Naizhe Li, Qiangling Yin, Linlin Liu, Xin Lv, Yan Liu, Aqian Li, Bin Fang, Jiajia Li, Hengping Ye, Gang Ye, Xiaoxian Cui, Yang Liu, Yuanyuan Qu, Chuan Li, Jiandong Li, Dexin Li, Zhongtao Gai, Shiwen Wang, Faxian Zhan, Mifang Liang
Software Mentions: 6
Published: over 5 years ago
10.1038/s41598-021-91214-2
Chamber-enriched gene expression profiles in failing human hearts with reduced ejection fractionCited by: 12
Author(s): Xin Luo, Jun Yin, Denise Dwyer, Tracy M. Yamawaki, Hong Zhou, Hongfei Ge, Chun-Ya Han, Artem Shkumatov, K. F. Snyder, Brandon Ason, Chi-Ming Li, Oliver Homann, Marina Stolina
Software Mentions: 6
Published: about 5 years ago
10.1186/s12918-018-0620-8
Module-detection approaches for the integration of multilevel omics data highlight the comprehensive response of Aspergillus fumigatus to caspofunginCited by: 11
Author(s): Theresia Conrad, Olaf Kniemeyer, Sebastian Henkel, Thomas Krüger, Derek J. Mattern, Vito Valiante, Reinhard Guthke, Ilse D. Jacobsen, Axel A. Brakhage, Sebastian Vlaic, Jörg Linde
Software Mentions: 6
Published: almost 8 years ago
10.3389/fimmu.2018.00056
The Immune and Non-Immune Pathways That Drive Chronic Gastrointestinal Helminth Burdens in the WildCited by: 20
Author(s): Simon A. Babayan, Wei Liu, Graham Hamilton, Elizabeth Kilbride, Evelyn C. Rynkiewicz, Melanie Clerc, Amy B. Pedersen
Software Mentions: 6
Published: over 8 years ago
10.15252/msb.20209684
Genetic regulation of liver lipids in a mouse model of insulin resistance and hepatic steatosisCited by: 14
Author(s): Frode Norheim, Karthickeyan Chella Krishnan, Thomas Bjellaas, Laurent Vergnes, Calvin Pan, Brian W. Parks, Yan Meng, Jennifer M. Lang, James A. Ward, Karen Reue, Margarete Mehrabian, Thomas E. Gundersen, Miklós Péterfy, Knut Tomas Dalen, Christian A. Drevon, Simon T. Hui, Aldons J. Lusis, Marcus M. Seldin
Software Mentions: 6
Published: over 5 years ago
10.1080/21623945.2019.1595269
Transcriptome profiling reveals association of peripheral adipose tissue pathology with type-2 diabetes in Asian IndiansCited by: 17
Author(s): Aditya Saxena, Prabhat Tiwari, Nitin Wahi, Arpana Soni, Ram Chandra Bansiwal, Anshul Kumar, Balram Sharma, Prakash P Punjabi, Nidhi Gupta, Babita Malik, Krishna Mohan Medicherla, Prashanth Suravajhala, Sandeep Kumar Mathur
Software Mentions: 6
Published: over 7 years ago
10.1080/22221751.2021.1942228
Single-cell immune checkpoint landscape of PBMCs stimulated with <i>Candida albicans</i>Cited by: 8
Author(s): Wei‐Wei Deng, Zhen Su, Panpan Liang, Yubo Ma, Yufang Liu, Kai Zhang, Yi Zhang, Ting Liang, Jinyan Shao, X. Liu, Wenling Han, Ruoyu Li
Software Mentions: 6
Published: over 5 years ago
10.1186/s13024-017-0219-3
Multiscale network modeling of oligodendrocytes reveals molecular components of myelin dysregulation in Alzheimer’s diseaseCited by: 92
Author(s): Andrew McKenzie, Sarah Moyon, Minghui Wang, Igor Katsyv, Won Min Song, Xianxiao Zhou, Eric B. Dammer, Duc M. Duong, Joshua D. Aaker, Yang Zhao, Noam D. Beckmann, Pei Wang, Jun Zhu, James J. Lah, Nicholas T. Seyfried, Aĺlan I. Levey, Pavel Katsel, Vahram Haroutunian, Eric E. Schadt, Brian Popko, Patrizia Casaccia, Bin Zhang
Software Mentions: 6
Published: almost 9 years ago
10.1002/ece3.7861
Effects of ecological environment and host genotype on the phyllosphere bacterial communities of cigar tobacco (<i>Nicotiana tabacum</i> L.)Cited by: 9
Author(s): Lei Xing, Jianlei Yang, Yuping Jia, Xiaobing Hu, Yi Liu, Heng Xu, Huaqun Yin, Juan Li, Zhenxie Yi
Software Mentions: 6
Published: about 5 years ago
10.1038/sdata.2018.185
The Mount Sinai cohort of large-scale genomic, transcriptomic and proteomic data in Alzheimer's diseaseCited by: 284
Author(s): Minghui Wang, Noam D. Beckmann, Panos Roussos, Erming Wang, Xianxiao Zhou, Qian Wang, Chi Ming, Ryan Neff, Wanli Ma, John F. Fullard, Mads E. Hauberg, Jaroslav Bendl, Mette A. Peters, Ben Logsdon, Pei Wang, Milind Mahajan, Lara M. Mangravite, Eric B. Dammer, Duc M. Duong, James J. Lah, Nicholas T. Seyfried, Aĺlan I. Levey, Joseph D. Buxbaum, Michelle E. Ehrlich, Sam Gandy, Pavel Katsel, Vahram Haroutunian, Eric E. Schadt, Bin Zhang
Software Mentions: 6
Published: almost 8 years ago
10.1126/sciadv.abj1132
Plasma lipids and growth faltering: A longitudinal cohort study in rural Gambian childrenCited by: 2
Author(s): Gerard Bryan Gonzales, Daniëlla Brals, Bakary Sonko, Fatou Sosseh, Andrew M. Prentice, Sophie E. Moore, Albert Koulman
Software Mentions: 6
Published: almost 5 years ago
10.1111/mec.15743
The strength and form of natural selection on transcript abundance in the wildCited by: 9
Author(s): Freed Ahmad, Paul V. Debes, Ilkka Nousiainen, Siim Kahar, Lilian Pukk, Riho Gross, Mikhail Ozerov, Anti Vasemägi
Software Mentions: 6
Published: over 5 years ago
10.1073/pnas.2008890118
OCT4 induces embryonic pluripotency via STAT3 signaling and metabolic mechanismsCited by: 23
Author(s): Giuliano Giuseppe Stirparo, Agata Kurowski, Akira Yanagida, Lawrence E. Bates, Stanley E. Strawbridge, Siarhei Hladkou, Hannah Stuart, Thorsten Boroviak, José C.R. Silva, Jennifer Nichols
Software Mentions: 6
Published: over 5 years ago
10.1186/s13229-019-0287-z
A meta-analysis of two high-risk prospective cohort studies reveals autism-specific transcriptional changes to chromatin, autoimmune, and environmental response genes in umbilical cord bloodCited by: 12
Author(s): Charles E. Mordaunt, Bo Y. Park, Kelly M. Bakulski, Jason I. Feinberg, Lisa Croen, Christine Ladd‐Acosta, Craig J. Newschaffer, Heather E. Volk, Sally J Ozonoff, Irva Hertz‐Picciotto, Janine M. LaSalle, Rebecca Jean Schmidt, M. Daniele Fallin
Software Mentions: 6
Published: almost 7 years ago
10.1186/s10020-021-00322-2
High expression of LAMA3/AC245041.2 gene pair associated with KRAS mutation and poor survival in pancreatic adenocarcinoma: a comprehensive TCGA analysisCited by: 11
Author(s): Chengming Tian, Xiyao Li, Chunlin Ge
Software Mentions: 6
Published: about 5 years ago
10.1186/s12931-016-0459-8
Differential DNA methylation marks and gene comethylation of COPD in African-Americans with COPD exacerbationsCited by: 47
Author(s): Robert S. Busch, Weiliang Qiu, Jessica Lasky‐Su, Jarrett Morrow, Gerard J. Criner, Dawn L. DeMeo
Software Mentions: 6
Published: almost 10 years ago
10.1038/s41598-020-65320-6
IRE1α and IGF signaling predict resistance to an endoplasmic reticulum stress-inducing drug in glioblastoma cellsCited by: 10
Author(s): Jeffrey J. Rodvold, Xian Su, Julia K. Nussbacher, Brian Tsui, Thomas Waller, Stephen Searles, Alyssa Lew, Pengfei Jiang, Ivan Babić, Natsuko Nomura, Jonathan H. Lin, Santosh Kesari, Hannah Carter, Maurizio Zanetti
Software Mentions: 6
Published: over 6 years ago
10.1242/dmm.047225
Hearing impairment due to <i>Mir183/96/182</i> mutations suggests both loss-of-function and gain-of-function effectsCited by: 10
Author(s): Morag A. Lewis, Francesca Di Domenico, Neil J. Ingham, Haydn M. Prosser, Karen P. Steel
Software Mentions: 6
Published: over 5 years ago
10.18632/aging.102714
ISG20 serves as a potential biomarker and drives tumor progression in clear cell renal cell carcinomaCited by: 22
Author(s): Tianbo Xu, Hailong Ruan, Su Gao, Jingchong Liu, Yuenan Liu, Zhengshuai Song, Qi Cao, Keshan Wang, Lin Bao, Di Liu, Junwei Tong, Jian Shi, Huageng Liang, Hongmei Yang, Ke Chen, Xiaoping Zhang
Software Mentions: 6
Published: over 6 years ago
10.1186/s13100-019-0180-5
Transcriptome analyses of tumor-adjacent somatic tissues reveal genes co-expressed with transposable elementsCited by: 20
Author(s): Nicky Chung, G. M. Jonaid, Sophia Quinton, Austin Ross, Corinne E. Sexton, Adrian Alberto, Cody Clymer, Daphnie Churchill, Omar Navarro Leija, Mira V. Han
Software Mentions: 6
Published: almost 7 years ago
10.1111/jcmm.16414
Identification of hub genes associated with neutrophils infiltration in colorectal cancerCited by: 12
Author(s): Hao Su, Tianyi Cai, Sen Zhang, Xialin Yan, Leqi Zhou, Zengyou He, Peng Xue, Jianwen Li, Min Zheng, Xiao Yang, Bo Feng
Software Mentions: 6
Published: over 5 years ago
10.15252/embj.2019101695
Phospho‐RNA‐seq: a modified small RNA‐seq method that reveals circulating mRNA and lncRNA fragments as potential biomarkers in human plasmaCited by: 61
Author(s): María D. Giraldez, Ryan M Spengler, Alton Etheridge, Annika Jane Goicochea, Missy Tuck, Sung Won Choi, David J. Galas, Muneesh Tewari
Software Mentions: 6
Published: over 7 years ago
10.1186/s40168-021-01150-6
Gammaproteobacteria, a core taxon in the guts of soil fauna, are potential responders to environmental concentrations of soil pollutantsCited by: 40
Author(s): Qi Zhang, Zhenyan Zhang, Tao Lu, Yitian Yu, Josep Peñuelas, Yan Zhu, Haifeng Qian
Software Mentions: 6
Published: almost 5 years ago
10.1186/s12864-019-6061-y
Mitochondrial genomic variation drives differential nuclear gene expression in discrete regions of Drosophila gene and protein interaction networksCited by: 12
Author(s): Jim A. Mossman, Leann M. Biancani, David M. Rand
Software Mentions: 6
Published: about 7 years ago
10.12688/wellcomeopenres.14073.3
ANIMA: Association network integration for multiscale analysisCited by: 4
Author(s): Armin Deffur, Robert J. Wilkinson, Bongani M. Mayosi, Nicola Mulder
Software Mentions: 6
Published: almost 8 years ago
10.18632/aging.202718
TMBIM6, a potential virus target protein identified by integrated multiomics data analysis in SARS-CoV-2-infected host cellsCited by: 4
Author(s): Qizheng Han, Junhao Wang, Haihua Luo, Lei Li, Xinya Lu, Aihua Liu, Yongqiang Deng, Yong Jiang
Software Mentions: 6
Published: over 5 years ago
10.3390/metabo11060361
Opposing Effects of Ceanothus velutinus Phytochemistry on Herbivore Communities at Multiple ScalesCited by: 2
Author(s): Casey S. Philbin, M. J. Paulsen, Lora A. Richards
Software Mentions: 6
Published: about 5 years ago