cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1111/pbi.13132

Genome sequencing and <scp>CRISPR</scp>/Cas9 gene editing of an early flowering Mini‐Citrus (Fortunella hindsii)
Cited by: 76
Author(s): Chenqiao Zhu, Xiongjie Zheng, Yue Huang, Junli Ye, Peng Chen, Chenglei Zhang, Fei Zhao, Zongzhou Xie, Siqi Zhang, Nan Wang, Hang Li, Lun Wang, Xiaomei Tang, Lijun Chai, Qiang Xu, Xiuxin Deng
Software Mentions: 3
Published: over 7 years ago

10.1111/pbi.13249

Genome sequencing of the Australian wild diploid species Gossypium australe highlights disease resistance and delayed gland morphogenesis
Cited by: 54
Author(s): Yingfan Cai, Xiaoyan Cai, Qinglian Wang, Wang Ping, Yu Zhang, Chaowei Cai, Yanchao Xu, Kunbo Wang, Zhongli Zhou, Chenxiao Wang, Shuaipeng Geng, Bo Li, Qi Dong, Yuqing Hou, Heng Wang, Peng Ai, Zhen Liu, Feifei Yi, Minshan Sun, Gary An, Jieru Cheng, Yuanyuan Zhang, Qian Shi, Yuanhui Xie, Xiaojian Shi, Ying Chang, Feifei Huang, Yun Chen, Shimiao Hong, Lingyu Mi, Quan Sun, Lin Zhang, Baoliang Zhou, Renhai Peng, Xiao Zhang, Fang Liu
Software Mentions: 3
Published: about 7 years ago

10.1002/pld3.154

Network‐based feature selection reveals substructures of gene modules responding to salt stress in rice
Cited by: 13
Author(s): Qian Du, Malachy T. Campbell, Huihui Yu, Kan Liu, Harkamal Walia, Chi Zhang, Chi Zhang
Software Mentions: 3
Published: over 7 years ago

10.3390/plants10040646

New Cross-Talks between Pathways Involved in Grapevine Infection with ‘Candidatus Phytoplasma solani’ Revealed by Temporal Network Modelling
Cited by: 3
Author(s): Blaž Škrlj, Maruša Pompe-Novak, Günter Brader, Barbara Anžič, Živa Ramšak, Kristina Gruden, Jan Kralj, Aleš Kladnik, Nada Lavrač, Thomas Roitsch, Marina Dermastia
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pbio.3000830

Strigolactone signaling regulates specialized metabolism in tobacco stems and interactions with stem-feeding herbivores
Cited by: 16
Author(s): Suhua Li, Youngsung Joo, Dechang Cao, Ran Li, Gisuk Lee, Rayko Halitschke, Gundega Baldwin, Ian T. Baldwin, Ming Wang
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pcbi.1005244

Utility and Limitations of Using Gene Expression Data to Identify Functional Associations
Cited by: 47
Author(s): Sahra Uygun, Cheng Peng, Melissa D. Lehti-Shiu
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.pcbi.1005680

Interactions between the tumor and the blood systemic response of breast cancer patients
Cited by: 21
Author(s): Vanessa Dumeaux, Bjørn Fjukstad, Hans E. Fjøsne, Jan Ole Frantzen, Marit Muri Holmen, Enno Rodegerdts, Ellen Schlichting, Anne Lise Børresen-Dale, Lars Ailo Bongo, Eiliv Lund, Michael Hallett
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pgen.1009270

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

10.1371/journal.pgen.1005963

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

10.1371/journal.pgen.1008768

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

10.1371/journal.pgen.1008513

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

10.1371/journal.pgen.1006745

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

10.1371/journal.pgen.1003053

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

10.1371/journal.pgen.1009461

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

10.1371/journal.pntd.0007764

Identification of a systemic interferon-γ inducible antimicrobial gene signature in leprosy patients undergoing reversal reaction
Cited by: 20
Author(s): Rosane M. B. Teles, Jing Lü, Maria Tió-Coma, Isabela M. B. Goulart, Sayera Banu, Deanna A. Hagge, Kidist Bobosha, Tom H. M. Ottenhoff, Matteo Pellegrini, Annemieke Geluk, Robert L. Modlin
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pntd.0007589

The cell fate regulator NUPR1 is induced by Mycobacterium leprae via type I interferon in human leprosy
Cited by: 5
Author(s): Priscila Ribeiro Andrade, Manali Mehta, Jing Lü, Rosane M. B. Teles, Dennis Montoya, Phillip Scumpia, Euzenir Nunes Sarno, Marîa Teresa Ochoa, Feiyang Ma, Matteo Pellegrini, Robert L. Modlin
Software Mentions: 3
Published: over 7 years ago

10.1038/s42003-021-01946-0

Diapause vs. reproductive programs: transcriptional phenotypes in a keystone copepod
Cited by: 14
Author(s): Petra H. Lenz, Vittoria Roncalli, Matthew Cieslak, Ann M. Tarrant, Ann M. Castelfranco, Daniel K. Hartline
Software Mentions: 3
Published: over 5 years ago

10.1038/s42003-019-0574-4

Hibernation induces widespread transcriptional remodeling in metabolic tissues of the grizzly bear
Cited by: 57
Author(s): Heiko T. Jansen, Shawn Trojahn, Michael W. Saxton, Corey R. Quackenbush, Brandon D. Evans Hutzenbiler, O. Lynne Nelson, Omar E. Cornejo, Charles T. Robbins, Joanna L. Kelley
Software Mentions: 3
Published: about 7 years ago

10.1038/s42003-020-01172-0

Comparative genomics of muskmelon reveals a potential role for retrotransposons in the modification of gene expression
Cited by: 23
Author(s): Ryoichi Yano, Tohru Ariizumi, Satoko Nonaka, Yoichi Kawazu, Silin Zhong, Lukas A. Mueller, James Giovannoni, Jocelyn K. C. Rose, Hiroshi Ezura
Software Mentions: 3
Published: about 6 years ago

10.1038/s42003-020-01235-2

Floral transcriptomes reveal gene networks in pineapple floral growth and fruit development
Cited by: 30
Author(s): Lulu Wang, Yang Li, Xingyue Jin, Liping Liu, Xiaozhuan Dai, Qing Liu, Lihua Zhao, Ping Zheng, Xiaomei Wang, Yeqiang Liu, Deshu Lin, Yuan Qin
Software Mentions: 3
Published: about 6 years ago

10.1155/2020/8183420

Weighed Gene Coexpression Network Analysis Screens the Potential Long Noncoding RNAs and Genes Associated with Progression of Coronary Artery Disease
Cited by: 6
Author(s): Lang Wang, Jun Hu, Jiali Zhou, Fan Guo, Yong Tan, Liang Zhang
Software Mentions: 3
Published: over 6 years ago

10.1155/2020/4574792

Functional Modular Network Identifies the Key Genes of Preoperative Inhalation Anesthesia and Intravenous Anesthesia in Off-Pump Coronary Artery Bypass Grafting
Cited by: 3
Author(s): Hongfei Zhao, Weitian Wang, Liping Liu, Junlong Wang, Quanzhang Yan
Software Mentions: 3
Published: about 6 years ago

10.1155/2021/6653295

Comprehensive Analysis of the Control of Cancer Stem Cell Characteristics in Endometrial Cancer by Network Analysis
Cited by: 5
Author(s): Yun Liu, Peigen Chen, Mengxiong Li, Hui Fei, Jinfeng Huang, Tingting Zhao, Li Tian
Software Mentions: 3
Published: over 5 years ago

10.1155/2021/6697848

Identification of Molecular Regulatory Features and Markers for Acute Type A Aortic Dissection
Cited by: 5
Author(s): Rui Li, Guochao Zhang, Shaomin Yan, Lichao Sun, Guoqiang Zhang
Software Mentions: 3
Published: over 5 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

10.1016/j.dib.2019.104893

Dataset on the formation of Thioredoxin interacting protein (Txnip) containing redox sensitive high molecular weight nucleoprotein complexes
Cited by: 1
Author(s): Cristiane Lumi Hirata, Shinji Ito, Hiroshi Masutani
Software Mentions: 3
Published: almost 7 years ago

10.1016/j.dib.2020.106096

A collection of transcriptomic and proteomic datasets from sesame in response to salt stress
Cited by: 5
Author(s): Yujuan Zhang, Donghua Li, Rong Zhou, Aili Liu, Linhai Wang, Yanxin Zhang, Huihui Gong, Xiurong Zhang, Jun You
Software Mentions: 3
Published: about 6 years ago

10.1155/2020/9369341

Nine Genes Mediate the Therapeutic Effects of Iodine-131 Radiotherapy in Thyroid Carcinoma Patients
Cited by: 6
Author(s): Shuwen Han, Yang Xi, Miao Da, Jingying Xu, Zhuang Jing, Gao Wei-li
Software Mentions: 3
Published: over 6 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

10.15252/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

10.1155/2021/2252832

Immune Mechanism, Gene Module, and Molecular Subtype Identification of Astragalus Membranaceus in the Treatment of Dilated Cardiomyopathy: An Integrated Bioinformatics Study
Cited by: 1
Author(s): Xiaoyang Chen, Hong-Fei Han, Zhenyan He, Xuegong Xu
Software Mentions: 3
Published: about 5 years ago

10.1002/evl3.22

Fire ant social chromosomes: Differences in number, sequence and expression of odorant binding proteins
Cited by: 29
Author(s): Rodrigo Pracana, Levantis Ilya, Carlos Martínez-Ruiz, Eckart Stolle, Anurag Priyam, Yannick Wurm
Software Mentions: 3
Published: about 9 years ago

10.12688/f1000research.17207.1

Recent advances in gene function prediction using context-specific coexpression networks in plants
Cited by: 16
Author(s): Chirag Gupta, Andy Pereira
Software Mentions: 3
Published: over 7 years ago

10.1002/2211-5463.12433

An integrated analysis of genome‐wide <scp>DNA</scp> methylation and gene expression data in hepatocellular carcinoma
Cited by: 32
Author(s): Xiaojiang Sun, Mingchun Wang, Fenghua Zhang, Xiao Kong
Software Mentions: 3
Published: over 8 years ago

10.1002/2211-5463.12759

Delivery of platelet TPM3 mRNA into breast cancer cells via microvesicles enhances metastasis
Cited by: 29
Author(s): Bing Yao, Shuang Qu, Ruifeng Hu, Wen Gao, Shidai Jin, Junyi Ju, Quan Zhao
Software Mentions: 3
Published: almost 7 years ago

10.1002/2211-5463.13078

Identification of key modules and hub genes in glioblastoma multiforme based on co‐expression network analysis
Cited by: 5
Author(s): Chun Li, Bangming Pu, Lianzhi Gu, Mingwei Zhang, Hongping Shen, Yuan Yuan, Lishang Liao
Software Mentions: 3
Published: over 5 years ago

10.1093/femsec/fiz033

Microbial community structure and microbial networks correspond to nutrient gradients within coastal wetlands of the Laurentian Great Lakes
Cited by: 44
Author(s): Dean J. Horton, Kevin R. Theis, Donald G Uzarski, Deric R. Learman
Software Mentions: 3
Published: over 7 years ago

10.3389/fnagi.2019.00101

Transcriptional Dysregulation Study Reveals a Core Network Involving the Progression of Alzheimer's Disease
Cited by: 22
Author(s): Guofeng Meng, Hongkang Mei
Software Mentions: 3
Published: over 7 years ago

10.3389/fnbeh.2013.00037

Microarray analyses reveal novel targets of exercise-induced stress resistance in the dorsal raphe nucleus
Cited by: 13
Author(s): Alice B. Loughridge, Benjamin N. Greenwood, Heidi E.W. Day, Matthew B. McQueen, Monika Fleshner
Software Mentions: 3
Published: almost 14 years ago

10.3389/fnbeh.2014.00388

Addiction and reward-related genes show altered expression in the postpartum nucleus accumbens
Cited by: 31
Author(s): Changjiu Zhao, Brian E. Eisinger, Terri M. Driessen, Stephen C. Gammie
Software Mentions: 3
Published: almost 12 years ago

10.3389/fnbeh.2014.00110

Medial prefrontal cortex: genes linked to bipolar disorder and schizophrenia have altered expression in the highly social maternal phenotype
Cited by: 21
Author(s): Brian E. Eisinger, Terri M. Driessen, Changjiu Zhao, Stephen C. Gammie
Software Mentions: 3
Published: over 12 years ago

10.3389/fgene.2021.730821

Genome-Wide Investigation of SBT Family Genes in Pineapple and Functional Analysis of AcoSBT1.12 in Floral Transition
Cited by: 5
Author(s): Xingyue Jin, Qing Liu, Zongliu Hou, Yunfei Zhang, Yunying Fang, Youmei Huang, Hanyang Cai, Yuan Qin, Yan Cheng
Software Mentions: 3
Published: about 5 years ago

10.3389/fgene.2020.00816

Identification and Validation of Key Genes Associated With Systemic Sclerosis-Related Pulmonary Hypertension
Cited by: 21
Author(s): Ji-Na Zheng, Yang Li, Yue-Mei Yan, Hui Shi, Tiantian Zou, Wenqi Shao, Qiang Wang
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2020.633455

Dissecting the Invasion-Associated Long Non-coding RNAs Using Single-Cell RNA-Seq Data of Glioblastoma
Cited by: 4
Author(s): Bo Pang, Fei Quan, Yanyan Ping, Jing Hu, Yujia Lan, Lin Pang
Software Mentions: 3
Published: almost 6 years ago

10.3389/fgene.2020.589326

Temporospatial Flavonoids Metabolism Variation in Ginkgo biloba Leaves
Cited by: 17
Author(s): Ying Guo, Tongli Wang, Fangfang Fu, Guibin Wang
Software Mentions: 3
Published: almost 6 years ago

10.3389/fgene.2020.622659

Identification of a Five-Gene Prognostic Model and Its Potential Drug Repurposing in Colorectal Cancer Based on TCGA, GTEx and GEO Databases
Cited by: 9
Author(s): Feng Yang, Shaoyi Cai, Ling Li, Haiji Zhang, Liang Tao, Qin Wang
Software Mentions: 3
Published: almost 6 years ago

10.3389/fgene.2019.00419

Expression Profile Analysis Identifies a Novel Five-Gene Signature to Improve Prognosis Prediction of Glioblastoma
Cited by: 42
Author(s): Yin Wu, Guihua Tang, Quanwei Zhou, Yudong Cao, Haixia Li, Xianyong Fu, Zhaoping Wu, Xingjun Jiang
Software Mentions: 3
Published: over 7 years ago

10.3389/fgene.2021.690264

Comparative Transcriptome and Weighted Gene Co-expression Network Analysis Identify Key Transcription Factors of Rosa chinensis ‘Old Blush’ After Exposure to a Gradual Drought Stress Followed by Recovery
Cited by: 7
Author(s): Xin Jia, Hui Feng, Yingjie Bu, Naizhe Ji, Yingmin Lyu, Shiwei Zhao
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2015.00174

Cosplicing network analysis of mammalian brain RNA-Seq data utilizing WGCNA and Mantel correlations
Cited by: 44
Author(s): Ovidiu D. Iancu, Alexandre M. Colville, Denesa Oberbeck, Priscila Darakjian, Shannon K. McWeeney, Robert Hitzemann
Software Mentions: 3
Published: over 11 years ago

10.3389/fgene.2021.646436

Gene Expression Signature of Traumatic Brain Injury
Cited by: 6
Author(s): Yuhang Ma, Yunhui Liu, Xuelei Ruan, Xiaobai Liu, Jian Zheng, Hao Wei Teng, Lianqi Shao, Chunqing Yang, Di Wang, Yixue Xue
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.00542

Identification of Four Potential Biomarkers Associated With Coronary Artery Disease in Non-diabetic Patients by Gene Co-expression Network Analysis
Cited by: 12
Author(s): Min Jiao, Jingtian Li, Quan Zhang, Xiufeng Xu, Ruidong Li, Peikang Dong, Chun Meng, Yang Li, Lijuan Wang, Wanpeng Qi, Kang Kai, Hongjie Wang, Tao Wang
Software Mentions: 3
Published: over 6 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

10.3389/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

10.3389/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

10.3389/fgene.2018.00608

Identification of Candidate Genes and Regulatory Factors Underlying Intramuscular Fat Content Through Longissimus Dorsi Transcriptome Analyses in Heavy Iberian Pigs
Cited by: 41
Author(s): María Muñoz, Juan García‐Casco, Carmen Caraballo, Miguel Ángel Fernández‐Barroso, Fernando Sánchez‐Esquiliche, Fernando Gómez, Marı́a del Carmen Rodrı́guez, L. Silió
Software Mentions: 3
Published: almost 8 years ago

10.3389/fgene.2021.687979

Identification of Potential Prognostic Biomarkers Associated With Cancerometastasis in Skin Cutaneous Melanoma
Cited by: 3
Author(s): Yang Li, Shanshan Lyu, Zhe Gao, Weifeng Zha, Ping Wang, Yuxi Shan, Jianzhong He, Suyang Huang
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.566024

Novel Gene Signature Reveals Prognostic Model in Acute Myeloid Leukemia
Cited by: 8
Author(s): Ying Qu, Shuying Zhang, Yanzhang Qu, Heng Guo, Suling Wang, Xuemei Wang, Tianjiao Huang, Hong Zhou
Software Mentions: 3
Published: about 6 years ago

10.3389/fgene.2016.00137

Gene Coexpression Analyses Differentiate Networks Associated with Diverse Cancers Harboring TP53 Missense or Null Mutations
Cited by: 19
Author(s): Kathleen Klein, Karim Oualkacha, Marie-Hélène Lafond, Sahir Bhatnagar, Patricia N. Tonin, Celia M.T. Greenwood
Software Mentions: 3
Published: over 10 years ago

10.3389/fgene.2019.00786

Specific Glioma Prognostic Subtype Distinctions Based on DNA Methylation Patterns
Cited by: 15
Author(s): Xueran Chen, Chenggang Zhao, Zhiyang Zhao, Hongzhi Wang, Zhiyou Fang
Software Mentions: 3
Published: about 7 years ago

10.3389/fgene.2018.00453

Weighted Gene Co-expression Network Analysis of Endometriosis and Identification of Functional Modules Associated With Its Main Hallmarks
Cited by: 58
Author(s): Mohammad Reza Bakhtiarizadeh, Batool Hosseinpour, Maryam Shahhoseini, Arthur Korte, Peyman Gifani
Software Mentions: 3
Published: about 8 years ago

10.3389/fgene.2021.737598

Editorial: Predicting High-Risk Individuals for Common Diseases Using Multi-Omics and Epidemiological Data
Cited by: 1
Author(s): Debajyoti Chowdhury, Xin Zhou, Bailiang Li, Yuanwei Zhang, William K. Cheung, Aiping Lü, Lu Zhang
Software Mentions: 3
Published: about 5 years ago

10.3389/fgene.2021.696591

Identification of Atrial Fibrillation-Associated Genes ERBB2 and MYPN Using Genome-Wide Association and Transcriptome Expression Profile Data on Left–Right Atrial Appendages
Cited by: 3
Author(s): Xiangkun Meng, Yali Nie, Keke Wang, Chongxi Fan, Juntao Zhao, Yuan Yang
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.00716

m6A RNA Methylation Regulators Contribute to Eutopic Endometrium and Myometrium Dysfunction in Adenomyosis
Cited by: 21
Author(s): Junyu Zhai, Shang Li, Sushmita Sen, Jessica Opoku‐Anane, Yanzhi Du, Zi‐Jiang Chen, Linda C. Giudice
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2021.648111

Identification and Functional Prediction of Long Non-Coding RNAs in Dilated Cardiomyopathy by Bioinformatics Analysis
Cited by: 15
Author(s): Yuxiao Chen, Jie Ding, Wei-Er Zhou, Xuan Zhang, Xiaotong Sun, Xiying Wang, Chi Zhang, Li Ni, Guofeng Shao, Shen‐Jiang Hu, Jian Yang
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2016.00169

Genetic Networks in Mouse Retinal Ganglion Cells
Cited by: 15
Author(s): Felix L Struebing, Richard K. Lee, Robert W. Williams, Eldon E. Geisert
Software Mentions: 3
Published: about 10 years ago

10.3389/fonc.2018.00374

Prognostic Genes of Breast Cancer Identified by Gene Co-expression Network Analysis
Cited by: 178
Author(s): Jianing Tang, Deguang Kong, Qiuxia Cui, Kun Wang, Dan Zhang, Yan Gong
Software Mentions: 3
Published: about 8 years ago

10.3389/fonc.2021.542063

Construction of Gene Modules and Analysis of Prognostic Biomarkers for Cervical Cancer by Weighted Gene Co-Expression Network Analysis
Cited by: 7
Author(s): Jiamei Liu, Shengye Liu, Xianghong Yang
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2021.642159

RNA Modification of N6-Methyladenosine Predicts Immune Phenotypes and Therapeutic Opportunities in Kidney Renal Clear Cell Carcinoma
Cited by: 29
Author(s): Huihuang Li, Jiao Hu, Anze Yu, Belaydi Othmane, Tao Guo, Jinhui Liu, Chunliang Cheng, Jinbo Chen, Xiongbing Zu
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2021.699594

Identification of Gender-Specific Molecular Differences in Glioblastoma (GBM) and Low-Grade Glioma (LGG) by the Analysis of Large Transcriptomic and Epigenomic Datasets
Cited by: 12
Author(s): Tipu Khan, Bharat Prajapati, Simran Lakhina, Mridula B Sharma, Suneel Prajapati, Kunzang Chosdol, Subrata Sinha
Software Mentions: 3
Published: about 5 years ago

10.3389/fonc.2020.01494

Mutant Proteomics of Lung Adenocarcinomas Harboring Different EGFR Mutations
Cited by: 6
Author(s): Toshihide Nishimura, Ákos Végvári, Hiroki Nakamura, Harubumi Kato, Hisashi Saji
Software Mentions: 3
Published: about 6 years ago

10.3389/fonc.2020.01765

Identification of TYROBP and C1QB as Two Novel Key Genes With Prognostic Value in Gastric Cancer by Network Analysis
Cited by: 26
Author(s): Junjie Jiang, Yongfeng Ding, Mengjie Wu, Xiadong Lyu, Haifeng Wang, Yanyan Chen, Haiyong Wang, Lisong Teng
Software Mentions: 3
Published: about 6 years ago

10.3389/fonc.2021.707066

Cystatin-B Negatively Regulates the Malignant Characteristics of Oral Squamous Cell Carcinoma Possibly Via the Epithelium Proliferation/Differentiation Program
Cited by: 3
Author(s): Tiantian Xu, Xiao‐Wen Zeng, Xinhong Wang, Luxi Yang, Gang Luo, Ting Yu
Software Mentions: 3
Published: about 5 years ago

10.3389/fonc.2019.00957

ACAT1 and Metabolism-Related Pathways Are Essential for the Progression of Clear Cell Renal Cell Carcinoma (ccRCC), as Determined by Co-expression Network Analysis
Cited by: 32
Author(s): Liang Chen, Tianchen Peng, Yongwen Luo, Fenfang Zhou, Gang Wang, Kaiyu Qian, Yu Xiao, Xinghuan Wang
Software Mentions: 3
Published: about 7 years ago

10.3389/fonc.2020.00931

Novel Potential Biomarkers Associated With Epithelial to Mesenchymal Transition and Bladder Cancer Prognosis Identified by Integrated Bioinformatic Analysis
Cited by: 10
Author(s): Chengyuan Wang, Yujing Yang, Lei Yin, Ningde Wei, Tao Hong, Zuyu Sun, Jiaxi Yao, Zhi Li, Tao Liu
Software Mentions: 3
Published: over 6 years ago

10.3389/fonc.2021.693353

Identification of Key Genes Related to CD8+ T-Cell Infiltration as Prognostic Biomarkers for Lung Adenocarcinoma
Cited by: 6
Author(s): Minjun Du, Yicheng Liang, Zixu Liu, Xingkai Li, Mei Liang, Boxuan Zhou, Yushun Gao
Software Mentions: 3
Published: about 5 years ago

10.3389/fonc.2021.640196

Prognostic Immune-Related Analysis Based on Differentially Expressed Genes in Left- and Right-Sided Colon Adenocarcinoma
Cited by: 10
Author(s): Jun Guo, Mingqi Li, Shen-Hui Deng, Chen Chen, Ning Yin, Binbin Cui, Yanlong Liu
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2020.580276

Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy
Cited by: 2
Author(s): You Lu, Jingqi Shi, Zixin Zhang, Jiayi Zhou, Haikun Zhou, Yuancai Feng, Zhenhua Lu, Shuya Yang, Xi-Yang Zhang, Yang Liu, Zichao Li, Yuanjie Sun, Lianhe Zheng, Duyin Jiang, Kun Yang
Software Mentions: 3
Published: almost 6 years ago

10.3389/fonc.2020.01397

Exploring Specific miRNA-mRNA Axes With Relationship to Taxanes-Resistance in Breast Cancer
Cited by: 12
Author(s): Danni Chen, Chang Bao, Feng Zhao, Haogang Yu, Guansheng Zhong, Liang Xu, Senxiang Yan
Software Mentions: 3
Published: about 6 years ago

10.3389/fonc.2020.01109

Identification of Immune-Related Prognostic Genes and LncRNAs Biomarkers Associated With Osteosarcoma Microenvironment
Cited by: 12
Author(s): Tao Zhang, Yingli Nie, Haifa Xia, Yanbin Zhang, Kailin Cai, Xiangdong Chen, Huili Li, Jiliang Wang
Software Mentions: 3
Published: over 6 years ago

10.3389/fonc.2021.615963

Identification of Genes Related to Immune Infiltration in the Tumor Microenvironment of Cutaneous Melanoma
Cited by: 10
Author(s): Rujia Qin, Wen Peng, Xuemin Wang, Chunyan Li, Yan Xi, Zhaoming Zhong, Chuanzheng Sun
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2020.577072

Immune Microenvironment Related Competitive Endogenous RNA Network as Powerful Predictors for Melanoma Prognosis Based on WGCNA Analysis
Cited by: 20
Author(s): Yuanrong Cheng, Chengxiu Liu, Yurun Liu, Yangfeng Su, Shoubi Wang, Lin Jin, Qi Wan, Ying Liu, Chaoyang Li, Xuan Sang, Yang Liu, Chang Liu, Xiaoran Wang, Zhichong Wang
Software Mentions: 3
Published: about 6 years ago

10.3389/fonc.2019.00613

Identification of Biomarkers for Controlling Cancer Stem Cell Characteristics in Bladder Cancer by Network Analysis of Transcriptome Data Stemness Indices
Cited by: 92
Author(s): Shen Pan, Yunhong Zhan, Xiaonan Chen, Bin Wu, Bitian Liu
Software Mentions: 3
Published: over 7 years ago

10.3389/fonc.2020.576565

Detailed Molecular Mechanism and Potential Drugs for COL1A1 in Carboplatin-Resistant Ovarian Cancer
Cited by: 7
Author(s): Feng Yang, Ziyu Zhao, Shaoyi Cai, Ling Li, Leying Hong, Liang Tao, Qin Wang
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2021.704531

Transcriptomic Analyses of the Adenoma-Carcinoma Sequence Identify Hallmarks Associated With the Onset of Colorectal Cancer
Cited by: 10
Author(s): Hong Qin, Bing Li, Xiumei Cai, Zheng‐tao Lv, Shi‐Lun Cai, Yun‐Shi Zhong, Bo Wen
Software Mentions: 3
Published: about 5 years ago

10.3389/fonc.2020.00223

Oncogenic Network and Hub Genes for Natural Killer/T-Cell Lymphoma Utilizing WGCNA
Cited by: 15
Author(s): Huijiao Liu, Mei Liu, Hua You, Xiru Li, Xiangdong Li
Software Mentions: 3
Published: over 6 years ago

10.3389/fonc.2021.644612

The Diagnostic and Immunotherapeutic Value of CD248 in Renal Cell Carcinoma
Cited by: 10
Author(s): Keying Zhang, Chao Xu, Shaojie Li, Yao Jiang, Xiaolong Zhao, Shanjin Ma, Yu Liu, Yang Fa, Yan Wang, Ping Meng, Changhong Shi, Donghui Han, Weihong Wen, Weijun Qin
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2020.571167

Identification of CHRNB4 as a Diagnostic/Prognostic Indicator and Therapeutic Target in Human Esophageal Squamous Cell Carcinoma
Cited by: 3
Author(s): Nan Li, Kaisheng Liu, Shaowei Dong, Ling Ou, Jieling Li, Minshan Lai, Yue Wang, Yifan Bao, Huidong Shi, Wang Xiao, Shaoxiang Wang
Software Mentions: 3
Published: almost 6 years ago

10.3389/fonc.2020.577530

GPR115 Contributes to Lung Adenocarcinoma Metastasis Associated With LAMC2 and Predicts a Poor Prognosis
Cited by: 13
Author(s): Yingjing Wang, Muqi Shi, Nan Yang, Xiaoyu Zhou, Liqin Xu
Software Mentions: 3
Published: almost 6 years ago

10.3389/fonc.2021.679262

RNA Sequence Profiling Reveals Unique Immune and Metabolic Features of Breast Cancer Brain Metastases
Cited by: 4
Author(s): Liuling Xiao, Jie Zhou, Hongyi Liu, Yuanyuan Zhou, Weibin Chen, Wugeng Cui, Yilin Zhao
Software Mentions: 3
Published: about 5 years ago

10.3389/fphar.2019.00574

LncRNA Profile Study Reveals a Three-LncRNA Signature Associated With the Pathological Complete Response Following Neoadjuvant Chemotherapy in Breast Cancer
Cited by: 20
Author(s): Ying Zeng, Wei Guo, Chengfang Zhou, Hai Bo Zhang, Hong Sun, Wei Zhang, Hong‐Hao Zhou, Rong Liu, Yuan‐Shan Zhu
Software Mentions: 3
Published: over 7 years ago

10.3389/fphys.2020.00542

Critical Roles of ELVOL4 and IL-33 in the Progression of Obesity-Related Cardiomyopathy via Integrated Bioinformatics Analysis
Cited by: 6
Author(s): Jun Tao, Yajing Wang, Ling Li, Junmeng Zheng, Shi Liang
Software Mentions: 3
Published: over 6 years ago

10.1038/s41438-021-00597-w

Transcriptional profiling reveals multiple defense responses in downy mildew-resistant transgenic grapevine expressing a TIR-NBS-LRR gene located at the MrRUN1/MrRPV1 locus
Cited by: 3
Author(s): Junjie Qu, Ian B. Dry, Lulu Liu, Zhanbao Guo, Ling Yin
Software Mentions: 3
Published: over 5 years ago

10.1038/s41438-021-00612-0

A chromosome-scale genome sequence of pitaya (Hylocereus undatus) provides novel insights into the genome evolution and regulation of betalain biosynthesis
Cited by: 37
Author(s): Jianye Chen, Fangfang Xie, Yanze Cui, Canbin Chen, Wang-jin Lu, Xiaodi Hu, Qian Hua, Jing Zhao, Zhengkai Wu, Gao Da, Zhi-ke Zhang, Wenkai Jiang, Sun Qi-zhong, Guibing Hu, Yonghua Qin
Software Mentions: 3
Published: over 5 years ago

10.1038/s41438-020-0238-z

MdMYB8 is associated with flavonol biosynthesis via the activation of the MdFLS promoter in the fruits of Malus crabapple
Cited by: 32
Author(s): Hua Li, Li Yu, Jiaxuan Yu, Ting Wu, Jie Zhang, Ji Tian
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41438-019-0120-z

Differential gene regulatory pathways and co-expression networks associated with fire blight infection in apple (Malus × domestica)
Cited by: 17
Author(s): Katchen Julliany Pereira Silva, Jugpreet Singh, Ryland Bednarek, Zhangjun Fei, Awais Khan
Software Mentions: 3
Published: over 7 years ago

10.1038/s41438-020-0249-9

Application of an antibody chip for screening differentially expressed proteins during peach ripening and identification of a metabolon in the SAM cycle to generate a peach ethylene biosynthesis model
Cited by: 10
Author(s): Wenfang Zeng, Liang Niu, Zhaohui Wang, Xiaobei Wang, Yan Wang, Lei Pan, Zhenhua Lü, Guochao Cui, Weining Weng, Mingqiao Wang, Xianghong Meng, Zhiqiang Wang
Software Mentions: 3
Published: over 6 years ago

10.1038/s41438-020-0287-3

Transcriptome analysis and metabolic profiling reveal the key role of carotenoids in the petal coloration of Liriodendron tulipifera
Cited by: 39
Author(s): Zhaodong Hao, Siqin Liu, Lingfeng Hu, Jisen Shi, Jinhui Chen
Software Mentions: 3
Published: over 6 years ago

10.1186/s13027-021-00357-4

Identification of key genes in hepatitis B associated hepatocellular carcinoma based on WGCNA
Cited by: 6
Author(s): Chang Liu, Qinghai Dai, Qian Ding, Min Wei, Xiaohong Kong
Software Mentions: 3
Published: over 5 years ago

10.3390/insects11090634

Diversity and Regulation of S-Adenosylmethionine Dependent Methyltransferases in the Anhydrobiotic Midge
Cited by: 4
Author(s): Ruslan Deviatiiarov, R. T. Ayupov, Alexander Laikov, Elena Shagimardanova, Takahiro Kikawada, Oleg Gusev
Software Mentions: 3
Published: about 6 years ago

10.1172/jci.insight.97011

Peripheral tissues reprogram CD8+ T cells for pathogenicity during graft-versus-host disease
Cited by: 19
Author(s): Pedro M. Sousa, Séverine Cire, Thomas Conlan, Laura Jardine, Claire Tkacz, Ivana R. Ferrer, C Lomas, Sophie Ward, Heather C. West, Simone Dertschnig, Sven Blobner, Terry K. Means, Stephen Henderson, Daniel H. Kaplan, Matthew Collin, Vincent Plagnol, Clare Bennett, Ronjon Chakraverty
Software Mentions: 3
Published: over 8 years ago

Projects: cran: WGCNA

Science Score: 85/100

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Penalties:

Papers Mentioning WGCNA 3,479