Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: WGCNA

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/WGCNA

Weighted Correlation Network Analysis
52 versions
Latest release: over 1 year ago
20 dependent packages
9,120 downloads last month

Papers Mentioning WGCNA 3,479

10.1038/s41598-021-95068-6
CENPL, ISG20L2, LSM4, MRPL3 are four novel hub genes and may serve as diagnostic and prognostic markers in breast cancer
Cited by: 17
Author(s): Jun Yin, Chen Lin, Meng Jiang, Xuhai Tang, Danlin Xie, Jingwen Chen, Rongqin Ke
Software Mentions: 8
Published: almost 3 years ago
10.1186/s12967-021-02914-2
The landscape of gene co-expression modules correlating with prognostic genetic abnormalities in AML
Cited by: 14
Author(s): Chao Guo, Ya-yue Gao, Qianqian Ju, Chunxia Zhang, Ming Gong, Zhenling Li
Software Mentions: 8
Published: almost 3 years ago
10.3390/diagnostics11061079
Identification of Diagnostic Biomarkers and Their Correlation with Immune Infiltration in Age-Related Macular Degeneration
Cited by: 3
Author(s): Yuyang Zeng, Xiujuan Yin, Changzheng Chen, Yiqiao Xing
Software Mentions: 8
Published: almost 3 years ago
10.1002/ece3.4894
Contrasting patterns of divergence at the regulatory and sequence level in European <i>Daphnia galeata</i> natural populations
Cited by: 8
Author(s): Suda Parimala Ravindran, Maike Herrmann, Mathilde Cordellier
Software Mentions: 8
Published: over 5 years ago
10.7717/peerj.9056
Transcriptional profiling to identify the key genes and pathways of pterygium
Cited by: 11
Author(s): Yihui Chen, Haoyu Wang, Yaping Jiang, Xiaoyan Zhang, Qingzhong Wang
Software Mentions: 8
Published: about 4 years ago
10.1093/database/baz046
PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data
Cited by: 621
Author(s): Oscar Franzén, Li‐Ming Gan, Johan Björkegren
Software Mentions: 8
Published: over 5 years ago
10.1186/s40169-020-0259-0
Whole‐transcriptome sequencing uncovers core regulatory modules and gene signatures of human fetal growth restriction
Cited by: 13
Author(s): Xing Wang, Jun Yu, Yiwei Yang, Xiaoqin Liu, Xiaobo Zhao, Xudong Guo, Tao Duan, Chenqi Lu
Software Mentions: 8
Published: over 4 years ago
10.3389/fphys.2021.662132
Liver Transcriptome Dynamics During Hibernation Are Shaped by a Shifting Balance Between Transcription and RNA Stability
Cited by: 10
Author(s): Austin E. Gillen, Rui Fu, Kent Riemondy, Jennifer Jager, Bin Fang, Mitchell A. Lazar, Sandra L. Martin
Software Mentions: 8
Published: almost 3 years ago
10.3389/fimmu.2021.666355
Revealing the Immune Infiltration Landscape and Identifying Diagnostic Biomarkers for Lumbar Disc Herniation
Cited by: 32
Author(s): Linbang Wang, Tao He, Jingkun Liu, Jiaojiao Tai, Bing Wang, Lanyue Zhang, Zhengxue Quan
Software Mentions: 8
Published: almost 3 years ago
10.3389/fpls.2018.00796
An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus
Cited by: 23
Author(s): Hongge Li, Xi Cheng, Liping Zhang, Jihong Hu, Fugui Zhang, Biyun Chen, Kun Xu, Guizhen Gao, Hao Li, Lixia Li, Qian Huang, Zaiyun Li, Guiqin Yan, Xiaoming Wu
Software Mentions: 8
Published: almost 6 years ago
10.1038/srep38411
Distinct epigenomes in CD4+ T cells of newborns, middle-ages and centenarians
Cited by: 34
Author(s): Ming Zhao, Jian Qin, Hang Yin, Yixin Tan, Wei Liao, Qian Liu, Shuangyan Luo, Min He, Gongping Liang, Yajing Shi, Qing Zhang, Wenjun Cai, Guangliang Yin, Yin Zhou, Jing Wang, Mengying Li, Yi Huang, Aiyun Liu, Haijian Wu, Zhiyong Zhang, Qianjin Lu
Software Mentions: 8
Published: over 7 years ago
10.3389/fimmu.2021.749459
A Machine Learning Model to Predict the Triple Negative Breast Cancer Immune Subtype
Cited by: 24
Author(s): Zihao Chen, Maoli Wang, Rudy Leon De Wilde, Ruifa Feng, Mingqiang Su, Wenjie Shi
Software Mentions: 8
Published: over 2 years ago
10.1126/sciimmunol.abd1554
Immunophenotyping of COVID-19 and influenza highlights the role of type I interferons in development of severe COVID-19
Cited by: 627
Author(s): Jeong Seok Lee, Seong-Wan Park, Hye Won Jeong, Jin Young Ahn, Seong Jin Choi, Hoyoung Lee, Baekgyu Choi, Su Kyung Nam, Moa Sa, Ji Soo Kwon, Su Jin Jeong, Kyung-Mi Lee, Sung Ho Park, Su–Hyung Park, Jun Yong Choi, Sung-Han Kim, Inkyung Jung, Eui Cheol Shin
Software Mentions: 7
Published: almost 4 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 Outcome
Cited 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 6 years ago
10.3389/fnagi.2021.605970
Immune Profiling of Parkinson’s Disease Revealed Its Association With a Subset of Infiltrating Cells and Signature Genes
Cited by: 12
Author(s): Xi Zhang, Zhihua Shao, Sutong Xu, Qiulu Liu, Chenming Liu, Yuan Luo, Lingjing Jin, Siguang Li
Software Mentions: 7
Published: over 3 years ago
10.1186/s13000-021-01118-y
Identification of immune-infiltrating cell-related biomarkers in hepatocellular carcinoma based on gene co-expression network analysis
Cited by: 6
Author(s): Yinghui Hou, Guizhi Zhang
Software Mentions: 7
Published: almost 3 years ago
10.1155/2021/5555634
Downregulation of ATP6V1A Involved in Alzheimer’s Disease via Synaptic Vesicle Cycle, Phagosome, and Oxidative Phosphorylation
Cited by: 15
Author(s): Zhike Zhou, Jun Bai, Shanshan Zhong, Rongwei Zhang, Kexin Kang, Xiaoqian Zhang, Ying Xu, Chuansheng Zhao, Mei Zhao
Software Mentions: 7
Published: about 3 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 5 years ago
10.3389/fimmu.2021.617163
The Changes of Leukocytes in Brain and Blood After Intracerebral Hemorrhage
Cited by: 14
Author(s): Shuhao Mei, Yijie Shao, Yuanjian Fang, Jianing Lu, Jingwei Zheng, Shenbin Xu, Haijian Wu, Zeyu Sun, Jun Yu, Sheng Chen, Zhen Wang, Jianmin Zhang
Software Mentions: 7
Published: over 3 years ago
10.1371/journal.ppat.1007870
Antigenic cartography of immune responses to Plasmodium falciparum erythrocyte membrane protein 1 (PfEMP1)
Cited by: 6
Author(s): James Tuju, Margaret J. Mackinnon, Abdirahman Abdi, Henry Karanja, Jennifer Musyoki, George M. Warimwe, Evelyn Gitau, Kevin Marsh, Peter C. Bull, Britta C. Urban
Software Mentions: 7
Published: almost 5 years ago
10.15252/emmm.201910606
Novel Alzheimer risk genes determine the microglia response to amyloid‐β but not to TAU pathology
Cited by: 149
Author(s): Annerieke Sierksma, Ashley Lu, Renzo Mancuso, Nicola Fattorelli, Nicola Thrupp, Evgenia Salta, Jesus Zoco, David Blum, Luc Buée, Bart De Strooper, Mark Fiers
Software Mentions: 7
Published: over 4 years ago
10.1128/mSystems.00066-18
Microbial Community Cohesion Mediates Community Turnover in Unperturbed Aquifers
Cited by: 53
Author(s): Robert Danczak, Michael D. Johnston, Chris Kenah, Michael T. Slattery, Michael J. Wilkins
Software Mentions: 7
Published: over 5 years ago
10.1128/mBio.03701-20
Inter- and Intra-Annual Bacterioplankton Community Patterns in a Deepwater Sub-Arctic Region: Persistent High Background Abundance of Putative Oil Degraders
Cited by: 8
Author(s): Angelina Angelova, Barbara Berx, Eileen Bresnan, Samantha B. Joye, Andrew Free, Tony Gutiérrez
Software Mentions: 7
Published: about 3 years ago
10.3389/fpls.2017.00413
Identification of Circular RNAs in Kiwifruit and Their Species-Specific Response to Bacterial Canker Pathogen Invasion
Cited by: 54
Author(s): Zupeng Wang, Yifei Liu, Dawei Li, Li Li, Qiong Zhang, Shuaibin Wang, Hongwen Huang
Software Mentions: 7
Published: about 7 years ago
10.1038/s41598-021-94343-w
Gene expression analysis method integration and co-expression module detection applied to rare glucide metabolism disorders using ExpHunterSuite
Cited by: 7
Author(s): Fernando M. Jabato, José Córdoba-Caballero, Elena Rojano, Carlos Romá‐Mateo, Pascual Sanz, Belén Pérez, Diana Gallego, Pedro Seoane, Juan A. G. Ranea, James R. Perkins
Software Mentions: 7
Published: almost 3 years ago
10.1242/dev.199561
Global proteomic analyses of human cytotrophoblast differentiation/invasion
Cited by: 4
Author(s): Hao Chen, Katherine E. Williams, Elaine Kwan, Mirhan Kapidzic, Kenisha A. Puckett, Rayyan Aburajab, Joshua F. Robinson, Susan J. Fisher
Software Mentions: 7
Published: almost 3 years ago
10.1111/eva.12935
The power and limitations of gene expression pathway analyses toward predicting population response to environmental stressors
Cited by: 9
Author(s): Brenna Callista Moreau Stanford, Danielle Jessica Clake, Matthew R. J. Morris, Sean M. Rogers
Software Mentions: 7
Published: about 4 years ago
10.1038/s42003-020-01318-0
Lung gene expression signatures suggest pathogenic links and molecular markers for pulmonary tuberculosis, adenocarcinoma and sarcoidosis
Cited by: 15
Author(s): Qiyao Chai, Zhe Lü, Zhidong Liu, Yanzhao Zhong, Fuzhen Zhang, Changgen Qiu, Bingxi Li, Jing Wang, Lingqiang Zhang, Yu Pang, Cui Hua Liu
Software Mentions: 7
Published: over 3 years ago
10.3389/pore.2021.604730
Identification of Key Genes Involved in Pancreatic Ductal Adenocarcinoma with Diabetes Mellitus Based on Gene Expression Profiling Analysis
Cited by: 4
Author(s): Wenbai Zhou, Yujing Wang, Hongmei Gao, Ying Jia, Yuanxin Xu, Xiaojing Wan, Zhiying Zhang, Haiqiao Yu, Shuang Yan
Software Mentions: 7
Published: about 3 years ago
10.1038/s41598-017-05377-y
Whole transcriptome sequencing of Pseudomonas syringae pv. actinidiae-infected kiwifruit plants reveals species-specific interaction between long non-coding RNA and coding genes
Cited by: 33
Author(s): Zupeng Wang, Yifei Liu, Li Li, Dawei Li, Qiong Zhang, Yangtao Guo, Shuaibin Wang, Caihong Zhong, Hongwen Huang
Software Mentions: 7
Published: almost 7 years ago
10.3389/fpls.2020.619404
Barley Anther and Meiocyte Transcriptome Dynamics in Meiotic Prophase I
Cited 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 3 years ago
10.1038/s41598-021-88662-1
A network analysis of crab metamorphosis and the hypothesis of development as a process of unfolding of an intensive complexity
Cited by: 2
Author(s): Agustín Ostachuk
Software Mentions: 7
Published: about 3 years ago
10.3389/fphys.2020.612598
Physiological Network From Anthropometric and Blood Test Biomarkers
Cited by: 7
Author(s): Antonio Barajas-Martínez, Elizabeth Ibarra-Coronado, Martha Patricia Sierra-Vargas, Ivette Cruz-Bautista, Paloma Almeda‐Valdés, Carlos A. Aguilar-Salinas, Rubén Fossión, Christopher R. Stephens, Claudia Vargas-Domínguez, Octavio Gamaliel Atzatzi-Aguilar, Yazmín Debray-García, Rogelio García-Torrentera, Karen Bobadilla, María Augusta Naranjo Meneses, Dulce Abril Mena Orozco, Cesar Lam, Vania Jocelyn Martínez-Garcés, Octavio A. Lecona, Arlex Marín-García, A. Frank, Ana Leonor Rivera
Software Mentions: 7
Published: over 3 years ago
10.3389/fimmu.2021.656541
The Predictive Value of Monocytes in Immune Microenvironment and Prognosis of Glioma Patients Based on Machine Learning
Cited by: 32
Author(s): Nan Zhang, Ziyu Dai, Wantao Wu, Zeyu Wang, Hui Cao, Yakun Zhang, Zhanchao Wang, Hao Zhang, Quan Cheng
Software Mentions: 7
Published: about 3 years ago
10.1097/j.pain.0000000000001416
Comprehensive analysis of long noncoding RNA expression in dorsal root ganglion reveals cell-type specificity and dysregulation after nerve injury
Cited by: 41
Author(s): Georgios Baskozos, J. D. K. Dawes, Jean-Sébastien Austin, Ana Antunes-Martins, Lucy A. McDermott, Alex Clark, Teodora Trendafilova, Jon Lees, Stephen B. McMahon, Jeffrey S. Mogil, Christine Orengo, David L.H. Bennett
Software Mentions: 7
Published: over 5 years ago
10.3389/fgene.2021.604714
Coupling of Co-expression Network Analysis and Machine Learning Validation Unearthed Potential Key Genes Involved in Rheumatoid Arthritis
Cited by: 8
Author(s): Jianwei Xiao, Rongsheng Wang, Xu Cai, Zhizhong Ye
Software Mentions: 7
Published: over 3 years ago
10.1038/s41597-020-00659-z
lncRNAKB, a knowledgebase of tissue-specific functional annotation and trait association of long noncoding RNA
Cited by: 35
Author(s): Fayaz Seifuddin, Komudi Singh, Abhilash Suresh, Jennifer Judy, Yun Ching Chen, Vijender Chaitankar, Ilker Tunc, Xiangbo Ruan, Ping Li, Yi Chen, Haiming Cao, Richard S. Lee, Fernando S. Goes, Peter P. Zandi, M. Saleet Jafri, Mehdi Pirooznia
Software Mentions: 7
Published: over 3 years ago
10.1186/s40813-021-00219-w
Using nontargeted LC-MS metabolomics to identify the Association of Biomarkers in pig feces with feed efficiency
Cited by: 10
Author(s): Jie Wu, Yong Ye, Jianping Quan, Rongrong Ding, Xingwang Wang, Zhanwei Zhuang, Shenping Zhou, Qian Geng, Cineng Xu, Linjun Hong, Zheng Xu, Enqin Zheng, Guangyan Cai, Zhenfang Wu, Jie Yang
Software Mentions: 7
Published: almost 3 years ago
10.1155/2021/9918498
Integrated Analysis of Weighted Gene Coexpression Network Analysis Identifying Six Genes as Novel Biomarkers for Alzheimer’s Disease
Cited by: 15
Author(s): Tingting Zhang, Nanyang Liu, Wei Wei, Zhen Zhang, Hao Li
Software Mentions: 7
Published: almost 3 years ago
10.3389/fimmu.2019.02903
Co-expression Networks Identify DHX15 RNA Helicase as a B Cell Regulatory Factor
Cited by: 6
Author(s): Thiago Detanico, Richard Virgen-Slane, Seth Steen-Fuentes, Wai Wai Lin, Antje Rhode-Kurnow, Elizabeth Chappell, Ricardo G. Correa, Michael J Dicandido, Moustapha Mbow, Jun Li, Carl F. Ware
Software Mentions: 7
Published: over 4 years ago
10.3389/fgene.2021.737656
Integrated Analysis of the Expression Characteristics, Prognostic Value, and Immune Characteristics of PPARG in Breast Cancer
Cited by: 5
Author(s): Jianbin Wu, Mingmin Luo, Zhuangwei Chen, Lei Li, Xiaoxi Huang
Software Mentions: 7
Published: over 2 years ago
10.18632/aging.102844
Development of a four-gene prognostic model for pancreatic cancer based on transcriptome dysregulation
Cited by: 19
Author(s): Jie Yan, Liangcai Wu, Congwei Jia, Shuangni Yu, Zhaohui Lü, Yueping Sun, Jie Chen
Software Mentions: 7
Published: about 4 years ago
10.1111/acel.13344
Senescence‐associated β‐galactosidase reveals the abundance of senescent CD8+ T cells in aging humans
Cited by: 62
Author(s): Ricardo Iván Martínez-Zamudio, Hannah K Dewald, Themistoklis Vasilopoulos, Lisa Gittens-Williams, Patricia Fitzgerald-Bocarsly, Utz Herbig
Software Mentions: 7
Published: about 3 years ago
10.1111/pbi.13205
Genome assembly provides insights into the genome evolution and flowering regulation of orchardgrass
Cited by: 45
Author(s): Linkai Huang, Guangyan Feng, Haidong Yan, Zhongren Zhang, B. Shaun Bushman, Jianping Wang, Aureliano Bombarely, Mingzhou Li, Zhongfu Yang, Gang Nie, Wengang Xie, Lei Xu, Peilin Chen, Xinxin Zhao, Wenkai Jiang, Xinquan Zhang
Software Mentions: 7
Published: almost 5 years ago
10.3389/fgene.2021.678780
Identification of a Four-Gene Signature With Prognostic Significance in Endometrial Cancer Using Weighted-Gene Correlation Network Analysis
Cited by: 7
Author(s): Shijin Huang, Lihong Pang, Changqiang Wei
Software Mentions: 7
Published: over 2 years ago
10.1111/jcmm.16275
Identification of key candidate biomarkers for severe influenza infection by integrated bioinformatical analysis and initial clinical validation
Cited by: 7
Author(s): Shuai Liu, Zhisheng Huang, Xiaoyan Deng, Xiaohui Zou, Hui Li, Shengrui Mu, Bin Cao
Software Mentions: 7
Published: over 3 years ago
10.1186/s13073-020-00806-6
Whole blood co-expression modules associate with metabolic traits and type 2 diabetes: an IMI-DIRECT study
Cited by: 8
Author(s): Valborg Guðmundsdóttir, Helle Pedersen, Gianluca Mazzoni, Kristine H. Allin, Anna Artati, Joline W.J. Beulens, Karina Banasik, Caroline Brorsson, Henna Cederberg, Elizaveta Chabanova, Federico De Masi, Petra Elders, Ian Forgie, G Giordano, Harald Grallert, Ramneek Gupta, Mark Haid, Torben Hansen, Tue H. Hansen, Andrew T. Hattersley, Alison Heggie, Mun‐Gwan Hong, Angus G. Jones, Robert W. Koivula, Tarja Kokkola, Markku Laakso, Peter Løngreen, Anubha Mahajan, Andrea Mari, Colin N.A. Palmer, Donna McEvoy, Petra B. Musholt, Imre Pávó, Cornelia Prehn, Hartmut Ruetten, Martin Ridderstråle, Femke Rutters, Sapna Sharma, Roderick C. Slieker, Ali Syed, Juan Fernández Tajes, Cecilia Engel Thomas, Henrik S. Thomsen, Jagadish Vangipurapu, Henrik Vestergaard, Ana Viñuela, Agata Wesolowska-Andersen, Mark Walker, Jerzy Adamski, Jochen M. Schwenk, Mark McCarthy, Ewan R. Pearson, Emmanouil T. Dermitzakis, Paul W. Franks, Oluf Pedersen, Søren Brunak
Software Mentions: 7
Published: over 3 years ago
10.3390/microorganisms9050996
Unrelated Fungal Rust Candidate Effectors Act on Overlapping Plant Functions
Cited by: 1
Author(s): Karen Cristine Gonçalves dos Santos, G. Pelletier, Armand Séguin, François Guillemette, Jeffrey A. Hawkes, Isabel Desgagné‐Penix, Hugo Germain
Software Mentions: 7
Published: about 3 years ago
10.18632/aging.203017
Identification of key transcriptome biomarkers based on a vital gene module associated with pathological changes in Alzheimer’s disease
Cited by: 11
Author(s): Tong Zhang, Yang Shen, Yiqing Guo, Junyan Yao
Software Mentions: 7
Published: almost 3 years ago
10.3389/fgene.2019.00292
Identification of Long Non-coding and Messenger RNAs Differentially Expressed Between Primary and Metastatic Melanoma
Cited by: 16
Author(s): Lichang Sun, Zhiguang Guan, Shanshan Wei, Rui Tan, Pengfei Li, Yan Liu
Software Mentions: 7
Published: about 5 years ago
10.3389/fgene.2020.00396
Single-Cell Transcriptomic Analysis Reveals Mitochondrial Dynamics in Oocytes of Patients With Polycystic Ovary Syndrome
Cited by: 34
Author(s): Lingbin Qi, Boxuan Liu, Xian Chen, Qiwei Liu, Wanqiong Li, Bo Lv, Xiaoyu Xu, Lu Wang, Qiao Zeng, Jinfeng Xue, Zhigang Xue
Software Mentions: 7
Published: about 4 years ago
10.1111/jcmm.15805
Identification of purity and prognosis‐related gene signature by network analysis and survival analysis in brain lower grade glioma
Cited by: 15
Author(s): Zujian Xiong, Yi Xiong, Hongwei Liu, L. Chang, Xuejun Li
Software Mentions: 7
Published: over 3 years ago
10.1111/jcmm.15252
CA9 transcriptional expression determines prognosis and tumour grade in tongue squamous cell carcinoma patients
Cited by: 9
Author(s): Chenyu Guan, Dai-qiao Ouyang, Yongjie Qiao, Kan Li, Guanghui Zheng, Xiaomei Lao, Sien Zhang, Guiqing Liao, Yujie Liang
Software Mentions: 7
Published: about 4 years ago
10.3389/fncel.2020.612560
Proteomic Characterization of Human Neural Stem Cells and Their Secretome During in vitro Differentiation
Cited by: 19
Author(s): Jakub Červenka, Jiřina Tylečková, Helena Kupcová Skalníková, Kateřina Vodičková Kepková, Ievgeniia Poliakh, Ivona Valeková, Lucie Pfeiferová, Michal Kolář, Michaela Vaškovičová, Tereza Pánková, Petr Vodička
Software Mentions: 7
Published: over 3 years ago
10.18632/aging.104116
Integrated analysis of a competing endogenous RNA network reveals an 11-lncRNA prognostic signature in ovarian cancer
Cited by: 3
Author(s): Yongjian Zhang, Hu Zhou, Mei‐Yin Zhang, Linan Xing, Chang Yang, Bairong Xia, Ge Lou
Software Mentions: 7
Published: over 3 years ago
10.1186/s12915-021-01062-9
Exposure to ethanol leads to midfacial hypoplasia in a zebrafish model of FASD via indirect interactions with the Shh pathway
Cited by: 12
Author(s): Alfire Sidik, Groves Dixon, Desirè M. Buckley, Hannah G. Kirby, Suwan Sun, Johann K. Eberhart
Software Mentions: 7
Published: almost 3 years ago
10.3390/genes11101165
OneStopRNAseq: A Web Application for Comprehensive and Efficient Analyses of RNA-Seq Data
Cited by: 21
Author(s): Rui Li, Kai Hu, Haibo Liu, Michael R. Green, Lihua Julie Zhu
Software Mentions: 7
Published: over 3 years ago
10.1371/journal.pcbi.1006792
IRIS-EDA: An integrated RNA-Seq interpretation system for gene expression data analysis
Cited by: 25
Author(s): Brandon Monier, Adam McDermaid, Cankun Wang, Jing Zhao, Allison J. Miller, Anne Fennell, Qin Ma
Software Mentions: 7
Published: over 5 years ago
10.3389/fendo.2021.712513
Construction of a Prognostic Risk Prediction Model for Obesity Combined With Breast Cancer
Cited by: 1
Author(s): Na Sun, Dandan Ma, Peng Gao, Yanling Li, Zexuan Yan, Zaihui Peng, Fei Han, Yi Zhang, Xiaowei Qi
Software Mentions: 7
Published: over 2 years ago
10.1186/1471-2105-12-492
Structural Measures for Network Biology Using QuACN
Cited by: 18
Author(s): Laurin A. J. Mueller, Karl G. Kugler, Armin Graber, Frank Emmert‐Streib, Matthias Dehmer
Software Mentions: 7
Published: over 12 years ago
10.3389/fcell.2021.665364
Hypoxia Constructing the Prognostic Model of Colorectal Adenocarcinoma and Related to the Immune Microenvironment
Cited by: 11
Author(s): Yuanyuan Zhang, Feng Yang, Xiaohong Peng, Xiaoyü Li, Na Luo, Wenjun Zhu, Min Fu, Qianxia Li, Guangyuan Hu
Software Mentions: 7
Published: about 3 years ago
10.18632/aging.102571
Identification of molecular correlations of RBM8A with autophagy in Alzheimer's disease
Cited by: 40
Author(s): Donghua Zou, Rongjie Li, Xiaohua Huang, Guoying Chen, Ying Liu, Youshi Meng, Yimei Wang, Yuan Wu, Ying Mao
Software Mentions: 7
Published: over 4 years ago
10.1186/1471-2164-15-452
Gene co-expression network analysis identifies porcine genes associated with variation in Salmonella shedding
Cited by: 52
Author(s): Arun Kommadath, Hua Bao, Adriano S. Arantes, Graham Plastow, Christopher K. Tuggle, Shawn M. D. Bearson, Le Luo Guan, Paul Stothard
Software Mentions: 7
Published: almost 10 years ago
10.18632/aging.102518
A twenty gene-based gene set variation score reflects the pathological progression from cirrhosis to hepatocellular carcinoma
Cited by: 21
Author(s): Yan Lin, Rong Liang, Jiazhou Ye, Qian Li, Ziyu Liu, Xing Gao, Xuemin Piao, Rongyun Mai, Donghua Zou, Lianying Ge
Software Mentions: 7
Published: over 4 years ago
10.3389/fonc.2021.657094
LINC01977 Promotes Breast Cancer Progression and Chemoresistance to Doxorubicin by Targeting miR-212-3p/GOLM1 Axis
Cited by: 12
Author(s): Zheng Li, Yaming Li, Xiaolong Wang, Yiran Liang, Dan Luo, Dianwen Han, Chen Li, Tong Chen, Hanwen Zhang, Ying Liu, Zekun Wang, Bing Chen, Limin Wang, Wenjing Zhao, Qifeng Yang
Software Mentions: 7
Published: about 3 years ago
10.3389/fonc.2021.674394
Comprehensive Analysis of Cyclin Family Gene Expression in Colon Cancer
Cited by: 12
Author(s): Jieling Li, Liyuan Zhou, Ying Liu, Lingzhi Yang, Dayi Jiang, Kuan Li, Shouqi Xie, Wang Xiao, Shaoxiang Wang
Software Mentions: 7
Published: about 3 years ago
10.3389/fmolb.2021.656204
Understanding the Holobiont: Crosstalk Between Gut Microbiota and Mitochondria During Long Exercise in Horse
Cited by: 12
Author(s): Núria Mach, Marco Moroldo, Andrea Rau, Jérôme Lecardonnel, Laurence Le Moyec, Céline Robert, Éric Barrey
Software Mentions: 7
Published: about 3 years ago
10.3389/fonc.2020.00061
The Prognostic Significance of Metabolic Syndrome and a Related Six-lncRNA Signature in Esophageal Squamous Cell Carcinoma
Cited by: 18
Author(s): Yu Liu, Li-Yu Wang, Hengchang Liu, Chunxiang Li, Jie He
Software Mentions: 7
Published: over 4 years ago
10.3389/fonc.2020.614487
Distinguishable Prognostic miRNA Signatures of Head and Neck Squamous Cell Cancer With or Without HPV Infection
Cited by: 10
Author(s): Xinmei Luo, Min Zheng, Mingxin Cao, Weilong Zhang, Mengyuan Huang, Li Dai, Yaling Tang, Xin‐hua Liang
Software Mentions: 7
Published: over 3 years ago
10.3389/fonc.2021.632459
Construction and Validation of a Novel Eight-Gene Risk Signature to Predict the Progression and Prognosis of Bladder Cancer
Cited by: 3
Author(s): Ruiliang Wang, Zongtai Zheng, Shun Mao, Wentao Zhang, Ji Liu, Cheng Li, Shenghua Liu, Xudong Yao
Software Mentions: 7
Published: almost 3 years ago
10.3389/fnins.2021.682247
Decreased MEF2A Expression Regulated by Its Enhancer Methylation Inhibits Autophagy and May Play an Important Role in the Progression of Alzheimer’s Disease
Cited by: 8
Author(s): Hui Li, Rui Wang, Xuqi Guo, Yugang Jiang
Software Mentions: 7
Published: almost 3 years ago
10.3390/brainsci10020109
Chronic Chemogenetic Stimulation of the Nucleus Accumbens Produces Lasting Reductions in Binge Drinking and Ameliorates Alcohol-Related Morphological and Transcriptional Changes
Cited by: 27
Author(s): Dar'ya Pozhidayeva, Sean P. Farris, Calla M Goeke, Evan Firsick, Kayla G. Townsley, Marina Guizzetti, Angela R. Ozburn
Software Mentions: 7
Published: over 4 years ago
10.1186/1471-2105-14-S16-S14
RMaNI: Regulatory Module Network Inference framework
Cited by: 6
Author(s): Piyush B. Madhamshettiwar, Stefan Maetschke, Melissa J. Davis, Mark A. Ragan
Software Mentions: 7
Published: over 10 years ago
10.1042/BSR20203496
Screening of immunosuppressive cells from colorectal adenocarcinoma and identification of prognostic markers
Cited by: 5
Author(s): Fazhan Li, Jun Zhou, Zedong Li, Leiyi Zhang
Software Mentions: 7
Published: about 3 years ago
10.3389/fonc.2021.626961
Identification of Stemness Characteristics Associated With the Immune Microenvironment and Prognosis in Gastric Cancer
Cited by: 15
Author(s): Deli Mao, Zhijun Zhou, Shenglei Song, Dongsheng Li, Yulong He, Zhewei Wei, Changhua Zhang
Software Mentions: 7
Published: about 3 years ago
10.3389/fonc.2021.654185
Overexpression of GINS4 Is Associated With Tumor Progression and Poor Survival in Hepatocellular Carcinoma
Cited by: 6
Author(s): Ziying Zhang, Peng Chen, Hui Xie, Peiguo Cao
Software Mentions: 7
Published: about 3 years ago
10.3390/cancers12082310
Systematic Analysis of Aberrant Biochemical Networks and Potential Drug Vulnerabilities Induced by Tumor Suppressor Loss in Malignant Pleural Mesothelioma
Cited by: 15
Author(s): Haitang Yang, Duo Xu, Yang Zhang, Feng Yao, Heng Zhao, Ralph A. Schmid, Ren‐Wang Peng
Software Mentions: 7
Published: almost 4 years ago
10.1042/BSR20200935
WGCNA reveals key gene modules regulated by the combined treatment of colon cancer with PHY906 and CPT11
Cited by: 21
Author(s): Shuqin Xing, Yafei Wang, Kaiwen Hu, Fen Wang, Tao Sun, Quanwang Li
Software Mentions: 7
Published: over 3 years ago
10.18632/aging.202417
Overexpression of TICRR and PPIF confer poor prognosis in endometrial cancer identified by gene co-expression network analysis
Cited by: 13
Author(s): Linlin Yang, Yunxia Cui, Xiao Sun, Yudong Wang
Software Mentions: 7
Published: over 3 years ago
10.3389/fonc.2020.622251
Screening and Identification of Four Prognostic Genes Related to Immune Infiltration and G-Protein Coupled Receptors Pathway in Lung Adenocarcinoma
Cited by: 3
Author(s): Yan Wang, Longqing Qiu, Yu Chen, Xia Zhang, Yang Peng, Feng Xu
Software Mentions: 7
Published: over 3 years ago
10.1186/s12864-021-07509-1
Transcriptome analyses of 7-day-old zebrafish larvae possessing a familial Alzheimer’s disease-like mutation in psen1 indicate effects on oxidative phosphorylation, ECM and MCM functions, and iron homeostasis
Cited by: 7
Author(s): Yang Dong, Morgan Newman, Stephen Pederson, Karissa Barthelson, Nhi Hin, Michael Lardelli
Software Mentions: 7
Published: about 3 years ago
10.3389/fonc.2020.553399
CD8+ T Cell Co-Expressed Genes Correlate With Clinical Phenotype and Microenvironments of Urothelial Cancer
Cited by: 20
Author(s): Yutao Wang, Kexin Yan, Jiaxing Lin, Yang Liu, Jianfeng Wang, Xuejie Li, Xinxin Li, Zhixiong Hua, Zhenhua Zheng, Jianxiu Shi, Siqing Sun, Jianbin Bi
Software Mentions: 7
Published: over 3 years ago
10.1016/j.isci.2020.101354
Network Approaches for Dissecting the Immune System
Cited by: 25
Author(s): Hao Shi, Koon-Kiu Yan, Liang Ding, Chenxi Qian, Hongbo Chi, Jiyang Yu
Software Mentions: 7
Published: almost 4 years ago
10.1371/journal.pone.0089815
Stability Indicators in Network Reconstruction
Cited by: 19
Author(s): Michele Filosi, Roberto Visintainer, Samantha Riccadonna, Giuseppe Jurman, Cesare Furlanello
Software Mentions: 7
Published: about 10 years ago
10.3390/ijms19061808
Co-Expression Network Analysis of AMPK and Autophagy Gene Products during Adipocyte Differentiation
Cited by: 8
Author(s): Mahmoud Ahmed, Jin Seok Hwang, Trang Huyen Lai, Sahib Zada, Huynh Quoc Nguyen, Trang Min Pham, Miyong Yun, Deok Ryong Kim
Software Mentions: 7
Published: almost 6 years ago
10.1371/journal.pone.0230218
Identification of a master transcription factor and a regulatory mechanism for desiccation tolerance in the anhydrobiotic cell line Pv11
Cited by: 10
Author(s): Takahiro Yamada, Yusuke Hiki, Noriko Hiroi, Elena Shagimardanova, Oleg Gusev, Richard Cornette, Takahiro Kikawada, Akira Funahashi
Software Mentions: 7
Published: about 4 years ago
10.3390/ijms21165923
Oxidant-Induced Alterations in the Adipocyte Transcriptome: Role of the Na,K-ATPase Oxidant Amplification Loop
Cited by: 7
Author(s): Komal Sodhi, James Denvir, Jiang Liu, Juan Sanabria, Yiliang Chen, Roy L. Silverstein, Zijian Xie, Nader G. Abraham, Joseph I. Shapiro
Software Mentions: 7
Published: almost 4 years ago
10.1186/s12864-021-07595-1
Dynamics of rumen gene expression, microbiome colonization, and their interplay in goats
Cited by: 15
Author(s): Xiangyu Pan, Zongjun Li, Bibo Li, Chen Zhao, Yu Wang, Yulin Chen, Yu Jiang
Software Mentions: 7
Published: about 3 years ago
10.3389/fnins.2021.621121
Analysis of the Neuroproteome Associated With Cell Therapy After Intranigral Grafting in a Mouse Model of Parkinson Disease
Cited by: 1
Author(s): Hassan Dakik, Sarah Mantash, Ali Nehme, Firas Kobeissy, Masoud Zabet-Moghaddam, Parvin Mirzaei, Yehia Mechref, Afsaneh Gaillard, Laetitia Prestoz, Kazem Zibara
Software Mentions: 7
Published: about 3 years ago
10.3389/fonc.2019.00523
Comprehensive Gene Expression Analysis in NMIBC Using RNA-seq Reveals New Therapy Strategies
Cited by: 11
Author(s): Xiaoliang Chen, Fuquan Jiang, Jia Chen, Ming Liu, Yong-Hao Nan, Licheng Qu, Qingkuo Kong, Fangfang Hou, Wenshan Luo, Wanli Na, Xin Jin, Jiufeng Tan
Software Mentions: 7
Published: almost 5 years ago
10.3389/fmolb.2021.656145
Identification and Exploration of Novel Macrophage M2-Related Biomarkers and Potential Therapeutic Agents in Endometriosis
Cited by: 10
Author(s): Zhongqi Cui, Ramesh Singh Bhandari, Lei Qin, Mingzhi Lu, Lei Zhang, Mengmei Zhang, Fenyong Sun, Lijin Feng, Shasha Zhao
Software Mentions: 7
Published: almost 3 years ago
10.7554/eLife.57843
Increased longevity due to sexual activity in mole-rats is associated with transcriptional changes in the HPA stress axis
Cited by: 17
Author(s): Arne Sahm, Matthias Platzer, Philipp Koch, Yoshiyuki Henning, Martin Bens, Marco Groth, Hynek Burda, Sabine Begall, Saskia Ting, Moritz Goetz, Paul Van Daele, Magdalena Staniszewska, Jasmin Klose, Pedro Fragoso Costa, Steve Hoffmann, Karol Szafranski, Philip Dammann
Software Mentions: 7
Published: about 3 years ago
10.1371/journal.pone.0250344
One dog’s waste is another dog’s wealth: A pilot study of fecal microbiota transplantation in dogs with acute hemorrhagic diarrhea syndrome
Cited by: 13
Author(s): Arnon Gal, Patrick C. Barko, Patrick J. Biggs, Kristene Gedye, Anne C. Midwinter, David A. Williams, Richard K. Burchell, P. Pazzi
Software Mentions: 7
Published: about 3 years ago
10.1371/journal.pone.0137222
Discovery of Intermediary Genes between Pathways Using Sparse Regression
Cited by: 1
Author(s): Kuo-ching Liang, Ashwini Patil, Kenta Nakai
Software Mentions: 7
Published: over 8 years ago
10.1155/2021/1801873
Identification of Key Functional Modules and Immunomodulatory Regulators of Hepatocellular Carcinoma
Cited by: 2
Author(s): Dan Luo, Xiang Zhang, Xiaokai Li, Gang Chen
Software Mentions: 7
Published: almost 3 years ago
10.1136/jitc-2020-000778
M1<sup>hot</sup>tumor-associated macrophages boost tissue-resident memory T cells infiltration and survival in human lung cancer
Cited by: 75
Author(s): Eva M. Garrido-Martín, Toby Mellows, James Clarke, Anusha-Preethi Ganesan, Oliver Wood, Angelica Cazaly, Grégory Seumois, Serena Chee, Aiman Alzetani, Emma V. King, Catherine C. Hedrick, Gareth J. Thomas, Peter S. Friedmann, Christian Ottensmeier, Pandurangan Vijayanand, Tilman Sánchez-Elsner
Software Mentions: 7
Published: almost 4 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 Analysis
Cited 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 3 years ago
10.1038/s41598-021-81952-8
Gene co-expression network analysis reveals immune cell infiltration as a favorable prognostic marker in non-uterine leiomyosarcoma
Cited by: 12
Author(s): Mohammad Darzi, Saeid Gorgin, Keivan Majidzadeh‐A, Rezvan Esmaeili
Software Mentions: 7
Published: over 3 years ago
10.7554/eLife.60223
Analysis of the immune response to sciatic nerve injury identifies efferocytosis as a key mechanism of nerve debridement
Cited by: 64
Author(s): Ashley L. Kalinski, Choya Yoon, Lucas D. Huffman, Patrick C. Duncker, Rafi Kohen, Ryan Passino, Hannah Hafner, Craig Johnson, Riki Kawaguchi, Kevin S. Carbajal, Juan Sebastián Jara, Edmund R. Hollis, Daniel H. Geschwind, Benjamin M. Segal, Roman J. Giger
Software Mentions: 7
Published: over 3 years ago
10.1186/s13195-020-00733-z
Exploring the role of RALYL in Alzheimer’s disease reserve by network-based approaches
Cited by: 4
Author(s): Yixuan Zhang, Jiali Wang, Xiaoquan Liu, Haochen Liu
Software Mentions: 7
Published: over 3 years ago