cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1038/s41598-020-74391-4

Analysis of gene expression from systemic lupus erythematosus synovium reveals myeloid cell-driven pathogenesis of lupus arthritis
Cited by: 9
Author(s): Erika L. Hubbard, Michelle D. Catalina, Sarah Heuer, Prathyusha Bachali, Robert Robl, Nicholas S. Geraci, Amrie C. Grammer, Peter E. Lipsky
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-020-71905-y

Whole transcriptome approach to evaluate the effect of aluminium hydroxide in ovine encephalon
Cited by: 9
Author(s): Endika Varela-Martínez, Martin Bilbao‐Arribas, Naiara Abendaño, Javier Asín, Marta Pérez, Damián F. de Andrés, Lluís Luján, Begoña M. Jugo
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-020-70540-x

Identification of C3 as a therapeutic target for diabetic nephropathy by bioinformatics analysis
Cited by: 16
Author(s): Shumei Tang, Xiufen Wang, Tianci Deng, Huipeng Ge, Xiangcheng Xiao
Software Mentions: 4
Published: about 6 years ago

10.3389/fmed.2018.00034

Beyond Enumeration: Functional and Computational Analysis of Circulating Tumor Cells to Investigate Cancer Metastasis
Cited by: 10
Author(s): Francesc Castro-Giner, Manuel C. Scheidmann, Nicola Aceto
Software Mentions: 4
Published: over 8 years ago

10.3389/fmicb.2020.01259

Interactive Gene Expression Patterns of Susceptible and Resistant Lens ervoides Recombinant Inbred Lines and the Necrotroph Ascochyta lentis
Cited by: 1
Author(s): Zhe Cao, Karan Kapoor, Li Li, Sabine Banniza
Software Mentions: 4
Published: over 6 years ago

10.3389/fmicb.2020.618287

Niche Differentiation of Comammox Nitrospira in the Mudflat and Reclaimed Agricultural Soils Along the North Branch of Yangtze River Estuary
Cited by: 22
Author(s): Xinxin Wang, Lu Lu, Xue Zhou, Xiufeng Tang, Lu Kuang, Junhui Chen, Jun Shan, Huijie Lü, Hua Qin, Jonathan M. Adams, Baozhan Wang
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2017.00138

Feeding a High Concentration Diet Induces Unhealthy Alterations in the Composition and Metabolism of Ruminal Microbiota and Host Response in a Goat Model
Cited by: 71
Author(s): Chenlei Hua, Jing Tian, Ping Tian, Rihua Cong, Yanwen Luo, Geng Yang, Shiyu Tao, Yingdong Ni, Ruqian Zhao
Software Mentions: 4
Published: over 9 years ago

10.3389/fmicb.2020.01707

Synergic Effects of Temperature and Irradiance on the Physiology of the Marine Synechococcus Strain WH7803
Cited by: 16
Author(s): Ulysse Guyet, Ngoc-An Nguyen, Hugo Doré, Julie Haguait, Justine Pittera, Maël Conan, Morgane Ratin, Erwan Corre, Gildas Le Corguillé, Loraine Brillet-Guéguen, Mark Hoebeke, Christophe Six, Claudia Steglich, Anne Siegel, Damien Eveillard, Frédéric Partensky, Laurence Garczarek
Software Mentions: 4
Published: over 6 years ago

10.3389/fmicb.2019.01359

Host Gender and Androgen Levels Regulate Gut Bacterial Taxa in Pigs Leading to Sex-Biased Serum Metabolite Profiles
Cited by: 26
Author(s): Maozhang He, Jun Gao, Jinyuan Wu, Yunyan Zhou, Hao Fu, Shanlin Ke, Hui Yang, Congying Chen, Lusheng Huang
Software Mentions: 4
Published: over 7 years ago

10.3389/fmicb.2021.647921

Higher Abundance of Sediment Methanogens and Methanotrophs Do Not Predict the Atmospheric Methane and Carbon Dioxide Flows in Eutrophic Tropical Freshwater Reservoirs
Cited by: 11
Author(s): Gabrielle Maria Fonseca Pierangeli, Mércia Regina Domingues, Tatiane Araújo de Jesus, Lúcia Helena Gomes Coelho, Werner Siegfried Hanisch, Marcelo Luiz Martins Pompêo, Flávia Talarico Saia, Gustavo Bueno Gregoracci, Roseli Frederigi Benassi
Software Mentions: 4
Published: over 5 years ago

10.3389/fmicb.2017.01561

Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing
Cited by: 211
Author(s): Luisa W. Hugerth, Anders F. Andersson
Software Mentions: 4
Published: about 9 years ago

10.3389/fmicb.2020.579290

Spatiotemporal Patterns in Diversity and Assembly Process of Marine Protist Communities of the Changjiang (Yangtze River) Plume and Its Adjacent Waters
Cited by: 8
Author(s): Xin Guo, Lianghuan Wu, Lingfeng Huang
Software Mentions: 4
Published: about 6 years ago

10.3389/fmicb.2016.01688

Systems Biomedicine of Rabies Delineates the Affected Signaling Pathways
Cited by: 19
Author(s): Sadegh Azimzadeh Jamalkandi, Sayed‐Hamidreza Mozhgani, Hamid Gholami Pourbadie, Mehdi Mirzaie, Farshid Noorbakhsh, Behrouz Vaziri, Alireza Gholami, Naser Ansari-Pour, Mohieddin Jafari
Software Mentions: 4
Published: almost 10 years ago

10.3389/fmicb.2020.573829

Evolution and Plasticity of the Transcriptome Under Temperature Fluctuations in the Fungal Plant Pathogen Zymoseptoria tritici
Cited by: 2
Author(s): Arthur J. Jallet, Arnaud Le Rouzic, Anne Génissel
Software Mentions: 4
Published: about 6 years ago

10.3389/fmolb.2021.719982

Identification of Mast Cell-Based Molecular Subtypes and a Predictive Signature in Clear Cell Renal Cell Carcinoma
Cited by: 5
Author(s): Hanxiang Liu, Yi Yang
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-020-65638-1

Genomic analyses of early responses to radiation in glioblastoma reveal new alterations at transcription, splicing, and translation levels
Cited by: 11
Author(s): Saket Choudhary, Suzanne Perea Burns, Hoda Mirsafian, Wenzheng Li, Dat T. Vo, Mu Qiao, Xiufen Lei, Andrew D. Smith, Luiz O. F. Penalva
Software Mentions: 4
Published: over 6 years ago

10.3389/fmolb.2021.622643

Immune-Inhibitory Gene Expression is Positively Correlated with Overall Immune Activity and Predicts Increased Survival Probability of Cervical and Head and Neck Cancer Patients
Cited by: 10
Author(s): Megha Budhwani, Gavin Turrell, Meihua Yu, Ian H. Frazer, Ahmed M. Mehdi, Janin Chandra
Software Mentions: 4
Published: over 5 years ago

10.3389/fmolb.2021.708127

Glucotoxicity Activation of IL6 and IL11 and Subsequent Induction of Fibrosis May Be Involved in the Pathogenesis of Islet Dysfunction
Cited by: 6
Author(s): Laiwei Lu, Lili Zhuang, Xiaodong Shen, Liyong Yang
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-020-65916-y

Alterations of transcriptome signatures in head trauma-related neurodegenerative disorders
Cited by: 13
Author(s): Hyesun Cho, Seung Jae Hyeon, Jong-Yeon Shin, Victor E. Alvarez, Thor D. Stein, Jung‐Hee Lee, Neil W. Kowall, Ann C. McKee, Hoon Ryu, Jeong-Sun Seo
Software Mentions: 4
Published: over 6 years ago

10.3389/fmolb.2021.632950

Comprehensive Metabolomics Identified the Prominent Role of Glycerophospholipid Metabolism in Coronary Artery Disease Progression
Cited by: 10
Author(s): Hui Chen, Zixian Wang, Min Qin, Bin Zhang, Li Jen Lin, Qin Ma, Chen Liu, Xiaoping Chen, Hanping Li, Wen‐Ter Lai, Shilong Zhong
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0228514

Innate immune gene expression in Acropora palmata is consistent despite variance in yearly disease events
Cited by: 12
Author(s): Benjamin Young, Xaymara M. Serrano, Stephanie M. Rosales, Margaret W. Miller, Dana E. Williams, Nikki Traylor-Knowles
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-017-05724-z

Comprehensive transcriptomics and proteomics analyses of pollinated and parthenocarpic litchi (Litchi chinensis Sonn.) fruits during early development
Cited by: 14
Author(s): Wei Liu, Maoshan Chen, Lijun Bai, Zhenhua Zhuang, Chao Fan, Jiang Nong-hui, Junsheng Zhao, Shuaipeng Ma, Xiang Xu
Software Mentions: 4
Published: over 9 years ago

10.3389/fnmol.2021.639145

Post-stroke Delivery of Valproic Acid Promotes Functional Recovery and Differentially Modifies Responses of Peri-Infarct Microglia
Cited by: 6
Author(s): Tung‐Tai Kuo, Vicki Wang, Jui-Sheng Wu, Yuan-Hao Chen, Kuan-Yin Tseng
Software Mentions: 4
Published: over 5 years ago

10.3389/fnins.2017.00112

Antidyskinetic Effects of MEK Inhibitor Are Associated with Multiple Neurochemical Alterations in the Striatum of Hemiparkinsonian Rats
Cited by: 21
Author(s): Guiqin Chen, Shuke Nie, Chao Han, Kai Ma, Xu Yan, Zhentao Zhang, Stella M. Papa, Xin Cao
Software Mentions: 4
Published: over 9 years ago

10.3389/fnins.2021.657465

Novel Insight Into the Role of Immune Dysregulation in Amyotrophic Lateral Sclerosis Based on Bioinformatic Analysis
Cited by: 7
Author(s): Yuanyang Xie, Ximei Luo, Hongping He, Min Tang
Software Mentions: 4
Published: over 5 years ago

10.3389/fnins.2020.00774

Lasting and Sex-Dependent Impact of Maternal Immune Activation on Molecular Pathways of the Amygdala
Cited by: 19
Author(s): Marissa R Keever, Pan Zhang, Courtni R. Bolt, Adrienne M. Antonson, Haley E Rymut, Megan P. Caputo, Alexandra K Houser, Álvaro Gonzalez Hernández, Bruce R. Southey, Laurie A. Rund, Rodney W. Johnson, Sandra L. Rodriguez-Zas
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0140049

Transcriptome Analysis of CD4+ T Cells in Coeliac Disease Reveals Imprint of BACH2 and IFNγ Regulation
Cited by: 29
Author(s): Emma M. Quinn, Ciara Coleman, Ben Molloy, Patricia Domínguez Castro, Paul Cormican, Valerie Trimble, Nasir Mahmud, Ross McManus
Software Mentions: 4
Published: about 11 years ago

10.3389/fnins.2021.639527

Cell-Type-Specific Gene Modules Related to the Regional Homogeneity of Spontaneous Brain Activity and Their Associations With Common Brain Disorders
Cited by: 5
Author(s): Junlin Shen, Bing‐Bing Yang, Zhonghua Xie, Heng Wu, Zhanye Zheng, Jianhua Wang, Ping Wang, Peng Zhang, Wei Li, Zhaoxiang Ye, Chunshui Yu
Software Mentions: 4
Published: over 5 years ago

10.3389/fnins.2020.562292

Human iPSC-Derived Neuronal Cells From CTBP1-Mutated Patients Reveal Altered Expression of Neurodevelopmental Gene Networks
Cited by: 5
Author(s): S. Vijayalingam, Uthayashanker R. Ezekiel, Fenglian Xu, T. Subramanian, Elizabeth Geerling, Brittany Hoelscher, KayKay San, Aravinda Ganapathy, Kyle Pemberton, Eric Tycksen, Amelia K. Pinto, James D. Brien, David B. Beck, Wendy K. Chung, Christina A. Gurnett, G. Chinnadurai
Software Mentions: 4
Published: about 6 years ago

10.3389/fonc.2020.560229

A Molecular Subtype Model for Liver HBV-Related Hepatocellular Carcinoma Patients Based on Immune-Related Genes
Cited by: 5
Author(s): Qiyao Zhang, Xiao Yu, Qingyuan Zheng, Yuting He, Wenzhi Guo
Software Mentions: 4
Published: about 6 years ago

10.3389/fonc.2020.541479

Identification and Validation of Novel Biomarkers for Diagnosis and Prognosis of Hepatocellular Carcinoma
Cited by: 26
Author(s): Xiaoyi Hu, Mingyang Bao, Jiacheng Huang, Lin Zhou, Shusen Zheng
Software Mentions: 4
Published: about 6 years ago

10.3389/fonc.2020.526009

Prediction of Postoperative Ileus in Patients With Colorectal Cancer by Preoperative Gut Microbiota
Cited by: 14
Author(s): Ye Jin, Rui Geng, Yang Liu, Lujia Liu, Xiangren Jin, Fuya Zhao, Jing Feng, Yunwei Wei
Software Mentions: 4
Published: almost 6 years ago

10.1038/srep33956

A systems biology approach to defining regulatory mechanisms for cartilage and tendon cell phenotypes
Cited by: 19
Author(s): Alan Mueller, Simon R. Tew, Olga Vasieva, Peter Clegg, Elizabeth G. Canty‐Laird
Software Mentions: 4
Published: about 10 years ago

10.3389/fonc.2020.01579

A Novel Immune-Related Competing Endogenous RNA Network Predicts Prognosis of Acute Myeloid Leukemia
Cited by: 8
Author(s): Shujuan Wang, Lu Yang, Yajun Liu, Yan Xu, Danfeng Zhang, Zhongxing Jiang, Chong Wang, Yanfang Liu
Software Mentions: 4
Published: about 6 years ago

10.3389/fonc.2021.620154

Bioinformatics-Based Identification of HDAC Inhibitors as Potential Drugs to Target EGFR Wild-Type Non-Small-Cell Lung Cancer
Cited by: 0
Author(s): Yizhe Wang, Chunlei Zheng, Wenqing Lü, Duo Wang, Cheng Yang, Yang Chen, Kezuo Hou, Jianfei Qi, Yunpeng Liu, Xiaofang Che, Xuejun Hu
Software Mentions: 4
Published: over 5 years ago

10.3389/fonc.2021.634569

Sharp Downregulation of Hub Genes Associated With the Pathogenesis of Breast Cancer From Ductal Carcinoma In Situ to Invasive Ductal Carcinoma
Cited by: 4
Author(s): Yao Wang, Faqing Liang, Yuting Zhou, Juanjuan Qiu, Qing Lv, Zhenggui Du
Software Mentions: 4
Published: over 5 years ago

10.3389/fonc.2021.674897

Analysis of Immune-Related Signatures Related to CD4+ T Cell Infiltration With Gene Co-Expression Network in Pancreatic Adenocarcinoma
Cited by: 3
Author(s): Zhen Tan, Yubin Lei, Bo Zhang, Si Shi, Jiang Liu, Xianjun Yu, Jin Xu, Chen Liang
Software Mentions: 4
Published: over 5 years ago

10.1038/srep12615

Decrease of mRNA Editing after Spinal Cord Injury is Caused by Down-regulation of ADAR2 that is Triggered by Inflammatory Response
Cited by: 27
Author(s): Antonio Fabio Di Narzo, Alexey Kozlenkov, Yongchao Ge, Bin Zhang, Leo Sanelli, Zacnicte May, Yanqing Li, Karim Fouad, Christopher P. Cardozo, Eugene V. Koonin, David J. Bennett, Stella Dracheva
Software Mentions: 4
Published: over 11 years ago

10.1371/journal.pone.0171046

Metabox: A Toolbox for Metabolomic Data Analysis, Interpretation and Integrative Exploration
Cited by: 79
Author(s): Kwanjeera Wanichthanarak, Sili Fan, Dmitry Grapov, Dinesh Kumar Barupal, Oliver Fiehn
Software Mentions: 4
Published: almost 10 years ago

10.3389/fonc.2020.01374

Immunogenomic Profiling and Classification of Prostate Cancer Based on HIF-1 Signaling Pathway
Cited by: 8
Author(s): Jukun Song, Wei-Ming Chen, Guohua Zhu, Wei Wang, Fa Sun, Jianguo Zhu
Software Mentions: 4
Published: about 6 years ago

10.3389/fonc.2019.01030

Novel Biomarkers Associated With Progression and Prognosis of Bladder Cancer Identified by Co-expression Analysis
Cited by: 42
Author(s): Yejinpeng Wang, Changhong Liang, Lingao Ju, Kaiyu Qian, Xuefeng Li, Xinghuan Wang, Yu Xiao
Software Mentions: 4
Published: about 7 years ago

10.3389/fonc.2020.624752

Down-Regulation of Long Non-Coding RNA TINCR Induces Cell Dedifferentiation and Predicts Progression in Oral Squamous Cell Carcinoma
Cited by: 6
Author(s): Zerui Zhuang, Jing Huang, Weiwang Wang, Cheng Wang, Pei Yu, Jing Hu, Haichao Liu, Hanqi Yin, Jinsong Hou, Xiqiang Liu
Software Mentions: 4
Published: over 5 years ago

10.3389/fonc.2020.613333

Construction of Bone Metastasis-Specific Regulation Network Based on Prognostic Stemness-Related Signatures in Breast Invasive Carcinoma
Cited by: 2
Author(s): Runzhi Huang, Zhenyu Li, Jiayao Zhang, Zhiwei Zeng, Jiaqi Zhang, Mingxiao Li, Siqao Wang, Shuyuan Xian, Yuna Xue, Xi Chen, Jie Li, Wing Yan Elizabeth Cheng, Bin Wang, Penghui Yan, Daoke Yang, Zongqiang Huang
Software Mentions: 4
Published: almost 6 years ago

10.1126/sciadv.abf9808

Mechanisms underlying divergent responses of genetically distinct macrophages to IL-4
Cited by: 23
Author(s): Marten A. Hoeksema, Zeyang Shen, Inge R. Holtman, An Zheng, Nathan Spann, Isidoro Cobo, Melissa Gymrek, Christopher K. Glass
Software Mentions: 4
Published: over 5 years ago

10.1128/mSystems.00596-19

Drug Repurposing of Bromodomain Inhibitors as Potential Novel Therapeutic Leads for Lymphatic Filariasis Guided by Multispecies Transcriptomics
Cited by: 7
Author(s): Matthew Chung, Laura Teigen, Silvia Libro, Robin E. Bromley, Dustin Olley, Nikhil Kumar, Lisa Sadzewicz, Luke J. Tallon, Anup Mahurkar, Jeremy M. Foster, Michelle L. Michalski, Julie C. Dunning Hotopp
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0203266

Comparative transcriptome meta-analysis of Arabidopsis thaliana under drought and cold stress
Cited by: 54
Author(s): R.C. Sharma, Garima Singh, Sitangshu Bhattacharya, Ashutosh Singh
Software Mentions: 4
Published: about 8 years ago

10.3389/fonc.2021.633899

High BLM Expression Predicts Poor Clinical Outcome and Contributes to Malignant Progression in Human Cholangiocarcinoma
Cited by: 7
Author(s): Xiaoqiang Du, Chen Zhang, Chuanzheng Yin, Wenjie Wang, Xueke Yan, Dawei Xie, Xichuan Zheng, Qi Zheng, Min Li, Zifang Song
Software Mentions: 4
Published: over 5 years ago

10.1186/s12931-020-01368-2

IRF4 and STAT3 activities are associated with the imbalanced differentiation of T-cells in responses to inhalable particulate matters
Cited by: 2
Author(s): Jinzhun Wu, Dongyu Ge, Taoling Zhong, Zuojia Chen, Ying Zhou, Lingyun Hou, Xinhua Lin, Jiaxu Hong, Kuai Liu, Hui Qi, Chaoying Wang, Yulin Zhou, Cheng Li, Chuan Wu, Shi Wu, Zuguo Liu, Qiyuan Li
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0149171

RNA-Seq Reveals the Angiogenesis Diversity between the Fetal and Adults Bone Mesenchyme Stem Cell
Cited by: 2
Author(s): Xin Zhao, Yingmin Han, Yu Liang, Chao Nie, Jian Wang
Software Mentions: 4
Published: over 10 years ago

10.1128/mSphere.01044-20

Gut Bacteria Shared by Children and Their Mothers Associate with Developmental Level and Social Deficits in Autism Spectrum Disorder
Cited by: 5
Author(s): Yu Chen, Hui Fang, Chunyan Li, Guojun Wu, Ting Xu, Xin Yang, Liping Zhao, Xiaoyan Ke, Chenhong Zhang
Software Mentions: 4
Published: almost 6 years ago

10.3389/fonc.2020.541401

Prognosis Analysis and Validation of m6A Signature and Tumor Immune Microenvironment in Glioma
Cited by: 46
Author(s): Sheng Lin, Houshi Xu, Anke Zhang, Yunjia Ni, Yuanzhi Xu, Tong Meng, Mingjie Wang, Meiqing Lou
Software Mentions: 4
Published: about 6 years ago

10.3389/fonc.2020.00681

Identification of Hub Genes Associated With Development of Head and Neck Squamous Cell Carcinoma by Integrated Bioinformatics Analysis
Cited by: 50
Author(s): Chia‐Ying Li, Jia-Hua Cai, Jeffrey J. P. Tsai, Charles C.N. Wang
Software Mentions: 4
Published: over 6 years ago

10.3389/fonc.2021.636451

Integrative Analysis of Histopathological Images and Genomic Data in Colon Adenocarcinoma
Cited by: 7
Author(s): Hui Li, Linyan Chen, Hao Zeng, Qimeng Liao, Jianrui Ji, Xuelei Ma
Software Mentions: 4
Published: about 5 years ago

10.3389/fonc.2021.685515

Regulatory Network Analysis of Mutated Genes Based on Multi-Omics Data Reveals the Exclusive Features in Tumor Immune Microenvironment Between Left-Sided and Right-Sided Colon Cancer
Cited by: 10
Author(s): Tianfei Yi, Yuwei Zhang, Derry Minyao Ng, Yang Xi, Meng Ye, Lvjun Cen, Jianjiong Li, Xiaoxiang Fan, Yanguo Li, Shiyun Hu, Hao Rong, Yangyang Xie, Guofang Zhao, Leyi Chen, Chen Chen, Shujing Ni, Jiaying Mi, Xiaoyu Dai, Qi Liao
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.ppat.1004959

Fungal Morphology, Iron Homeostasis, and Lipid Metabolism Regulated by a GATA Transcription Factor in Blastomyces dermatitidis
Cited by: 16
Author(s): Amber J. Marty, Aimee Teo Broman, Robert Żarnowski, Teigan G. Dwyer, Laura M. Bond, Anissa Lounès-Hadj Sahraoui, Joël Fontaine, James M. Ntambi, Sündüz Keleş, Christina Kendziorski, Gregory M. Gauthier
Software Mentions: 4
Published: over 11 years ago

10.1371/journal.pone.0210431

Assessment of complementarity of WGCNA and NERI results for identification of modules associated to schizophrenia spectrum disorders
Cited by: 20
Author(s): Arthur Sant’Anna Feltrin, Ana Carolina Tahira, Sérgio Nery Simões, Helena Brentani, David Martins
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0170025

Underexpression of Specific Interferon Genes Is Associated with Poor Prognosis of Melanoma
Cited by: 12
Author(s): Aamir Zainulabadeen, Philip Yao, Habil Zare
Software Mentions: 4
Published: almost 10 years ago

10.3389/fphar.2021.618773

Combination of Ginsenosides Rb2 and Rg3 Promotes Angiogenic Phenotype of Human Endothelial Cells via PI3K/Akt and MAPK/ERK Pathways
Cited by: 12
Author(s): Ran Joo Choi, Siti Zuraidah Mohamad Zobir, Benjamin Alexander-Dann, Naomi L. Sharma, Kenneth L. Marcella, Brian Lam, Giles S.H. Yeo, Guoqing Zhang, Tai-Ping Fan, Andreas Bender
Software Mentions: 4
Published: over 5 years ago

10.3389/fphar.2021.678256

Dysregulated lncRNAs are Involved in the Progress of Sepsis by Constructing Regulatory Networks in Whole Blood Cells
Cited by: 5
Author(s): Yanwei Cheng, Xue Cao, Jiange Zhang, Dong Chen, Juan Zhu, Lijun Xu, Lijie Qin
Software Mentions: 4
Published: about 5 years ago

10.3389/fphys.2021.651690

Identification of VCAN as Hub Gene for Diabetic Kidney Disease Immune Injury Using Integrated Bioinformatics Analysis
Cited by: 5
Author(s): Qiannan Xu, Binjue Li, Yucheng Wang, Cuili Wang, Shi Feng, Xue Lü, Jianghua Chen, Hong Jiang
Software Mentions: 4
Published: about 5 years ago

10.3389/fphys.2021.601952

Weighted Gene Co-expression Network Analysis Identifies Crucial Genes Mediating Progression of Carotid Plaque
Cited by: 9
Author(s): Mengyin Chen, Siliang Chen, Dan Yang, Jiawei Zhou, Bao Liu, Yuexin Chen, Wei Ye, Hui Zhang, Lei Ji, Yuehong Zheng
Software Mentions: 4
Published: over 5 years ago

10.3389/fphys.2018.00399

Identification of Biomarkers Associated With Pathological Stage and Prognosis of Clear Cell Renal Cell Carcinoma by Co-expression Network Analysis
Cited by: 55
Author(s): Chen Liang, Lushun Yuan, Kaiyu Qian, Guofeng Qian, Yuan Zhu, Chin‐Lee Wu, Dong Han, Yu Xiao, Xinghuan Wang
Software Mentions: 4
Published: over 8 years ago

10.1186/s12935-020-01352-2

Co-expression network analysis identifies a gene signature as a predictive biomarker for energy metabolism in osteosarcoma
Cited by: 19
Author(s): Naiqiang Zhu, Jingyi Hou, Guiyun Ma, Shuai Guo, Chengliang Zhao, Bin Chen
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0122309

Module-Based Association Analysis for Omics Data with Network Structure
Cited by: 5
Author(s): Zhi Wang, Arnab Maity, Chuhsing Kate Hsiao, Deepak Voora, Rima Kaddurah‐Daouk, Jung Ying Tzeng
Software Mentions: 4
Published: over 11 years ago

10.1128/mBio.00586-21

Intraspecies Transcriptional Profiling Reveals Key Regulators of Candida albicans Pathogenic Traits
Cited by: 13
Author(s): Joshua M. Wang, Andrew L. Woodruff, Matthew J. Dunn, Robert J. Fillinger, Richard J. Bennett, Matthew Anderson
Software Mentions: 4
Published: over 5 years ago

10.1093/jxb/erx224

Root transcriptomic responses of grafted grapevines to heterogeneous nitrogen availability depend on rootstock genotype
Cited by: 38
Author(s): Noé Cochetel, Frédéric Escudié, Sarah Jane Cookson, Zhanwu Dai, Philippe Vivin, Pierre‐François Bert, Mindy Muñoz, Serge Delrot, Christophe Klopp, Nathalie Ollat, Virginie Lauvergeat
Software Mentions: 4
Published: over 9 years ago

10.3389/fpls.2016.01431

Quantitative Resistance to Verticillium Wilt in Medicago truncatula Involves Eradication of the Fungus from Roots and Is Associated with Transcriptional Responses Related to Innate Immunity
Cited by: 13
Author(s): Maoulida Toueni, Cécile Ben, Aurélie Le Ru, Laurent Gentzbittel, Martina Rickauer
Software Mentions: 4
Published: about 10 years ago

10.1093/jxb/erw006

Evidence for maternal control of seed size in maize from phenotypic and transcriptional analysis
Cited by: 32
Author(s): Xia Zhang, Candice N. Hirsch, Rajandeep S. Sekhon, Natalia de León, Shawn M. Kaeppler
Software Mentions: 4
Published: almost 11 years ago

10.3389/fgene.2020.00722

Identification of Gene Modules and Hub Genes Involved in Mastitis Development Using a Systems Biology Approach
Cited by: 36
Author(s): Mohammad Reza Bakhtiarizadeh, Shabnam Mirzaei, Milad Norouzi, Negin Sheybani, Mohammad Sadegh Vafaei Sadi
Software Mentions: 3
Published: over 6 years ago

10.1186/s13229-020-00355-0

Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism
Cited by: 23
Author(s): Michael S. Breen, Andrew Browne, Gabriel E. Hoffman, Sofia Stathopoulos, Kristen J. Brennand, Joseph D. Buxbaum, Elodie Drapeau
Software Mentions: 3
Published: over 6 years ago

10.3389/fmicb.2021.625857

Fermented Soybean Meal Replacement in the Diet of Lactating Holstein Dairy Cows: Modulated Rumen Fermentation and Ruminal Microflora
Cited by: 11
Author(s): Wang Zuo, Yuannian Yu, Xinyao Li, Hongyan Xiao, Peihua Zhang, Weijun Shen, Fachun Wan, Jianhua He, Shaoxun Tang, Zhiliang Tan, Duanqin Wu, Hui Yao
Software Mentions: 3
Published: almost 6 years ago

10.3389/fpls.2020.00972

Responses of Soybean Genes in the Substituted Segments of Segment Substitution Lines Following a Xanthomonas Infection
Cited by: 5
Author(s): Jianan Zou, Zhanguo Zhang, Siyang Yu, Qinglin Kang, Yan Shi, Jinhui Wang, Rong Zhu, Chao Ma, Lin Chen, Jieqi Wang, Jianyi Li, Qingying Li, Xueying Liu, Junjie Zhu, Xiaoxia Wu, Zhenbang Hu, Zhaoming Qi, Chunyan Liu, Qingshan Chen, Dawei Xin
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2020.586376

A Novel Apoptosis-Related Gene Signature Predicts Biochemical Recurrence of Localized Prostate Cancer After Radical Prostatectomy
Cited by: 5
Author(s): Qijie Zhang, Kai Zhao, Lebin Song, Chengjian Ji, Rong Cong, Jiaochen Luan, Xiang Zhou, Jun Xia, Ninghong Song
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41396-020-00883-w

Zooplankton carcasses stimulate microbial turnover of allochthonous particulate organic matter
Cited by: 5
Author(s): Darshan Neubauer, О. В. Колмакова, Jason N. Woodhouse, Robert Taube, Kai Mangelsdorf, Michail I. Gladyshev, Katrin Premke, Hans‐Peter Grossart
Software Mentions: 3
Published: almost 6 years ago

10.1186/s13229-020-00354-1

Transcriptional consequences of MBD5 disruption in mouse brain and CRISPR-derived neurons
Cited by: 11
Author(s): Catarina M. Seabra, Tatsiana Aneichyk, Serkan Erdin, Derek J.C. Tai, Celine de Esch, Parisa Razaz, Yu An, Poornima Manavalan, Ashok Ragavendran, Alexei Stortchevoi, Clemer Abad, Juan I. Young, Patrı́cia Maciel, Michael E. Talkowski, James F. Gusella
Software Mentions: 3
Published: over 6 years ago

10.3389/fpls.2021.690095

Transcriptomic and Weighted Gene Co-expression Correlation Network Analysis Reveal Resveratrol Biosynthesis Mechanisms Caused by Bud Sport in Grape Berry
Cited by: 3
Author(s): Lu Feng, Yunling Ye, Jialing Zhou, Huijuan Jia, Xiaoli Zhu, Jiayu Shi, Ziyue Zhang, Nan Shen, Li Wang
Software Mentions: 3
Published: over 5 years ago

10.1093/bib/bbw139

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

10.3389/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

10.1186/s12967-021-02708-6

HELQ and EGR3 expression correlate with IGHV mutation status and prognosis in chronic lymphocytic leukemia
Cited by: 1
Author(s): Chao Guo, Ya-yue Gao, Qianqian Ju, Chunxia Zhang, Ming Gong, Zhenling Li
Software Mentions: 3
Published: almost 6 years ago

10.1093/molbev/msaa002

Disrupted Gene Networks in Subfertile Hybrid House Mice
Cited by: 20
Author(s): Katy Morgan, Bettina Harr, Michael A. White, Bret A. Payseur, Leslie M. Turner
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41396-021-00913-1

Erosion reduces soil microbial diversity, network complexity and multifunctionality
Cited by: 201
Author(s): Liping Qiu, Qian Zhang, Hansong Zhu, Peter B. Reich, Samiran Banerjee, Marcel G. A. van der Heijden, Michael J. Sadowsky, Satoshi Ishii, Xiaoxu Jia, Mingan Shao, Baoyuan Liu, Huan Jiang, Haiqiang Li, Xiaorong Wei
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-86742-w

Transcriptional circuitry atlas of genetic diverse unstimulated murine and human macrophages define disparity in population-wide innate immunity
Cited by: 5
Author(s): Bharat Mishra, Mohammad Athar, M. Shahid Mukhtar
Software Mentions: 3
Published: over 5 years ago

10.3389/fmolb.2021.640387

Lipidomic Perturbations in Cynomolgus Monkeys are Regulated by Thyroid Stimulating Hormone
Cited by: 2
Author(s): Tao Xu, Yi-Yan Yang, Xing Huang, Jianhong Ren, Ting Xu, Wei Xie
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.598183

Genome-Wide Identification and Capsaicinoid Biosynthesis-Related Expression Analysis of the R2R3-MYB Gene Family in Capsicum annuum L.
Cited by: 19
Author(s): Jin Wang, Yi Liu, Bi‐Yu Tang, Xiang Dai, Lingling Xie, Liping Feng, Xuexiao Zou
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-66988-6

A Transcriptome Analysis Reveals that Hepatic Glycolysis and Lipid Synthesis Are Negatively Associated with Feed Efficiency in DLY Pigs
Cited by: 8
Author(s): Cineng Xu, Xingwang Wang, Zhanwei Zhuang, Jie Wu, Shenping Zhou, Jianping Quan, Rongrong Ding, Yong Ye, Longlong Peng, Zhenfang Wu, Enqin Zheng, Jie Yang
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2019.01142

Identifying Key Genes and Functionally Enriched Pathways in Sjögren’s Syndrome by Weighted Gene Co-Expression Network Analysis
Cited by: 50
Author(s): Qiuming Yao, Zhenyu Song, Bin Wang, Qiu Qin, Jinan Zhang
Software Mentions: 3
Published: almost 7 years ago

10.1155/2020/1937387

Protein Level and Infantile Diarrhea in a Postweaning Piglet Model
Cited by: 10
Author(s): Jing Gao, Jie Yin, Kang Xu, Hui Han, Zemin Liu, Chenyu Wang, Tiejun Li, Yulong Yin
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2019.00123

Identification of Key lncRNAs Associated With Atherosclerosis Progression Based on Public Datasets
Cited by: 41
Author(s): Chuanhui Wang, Huigang Shi, Lin-Hui Chen, Xiaoli Li, Guoliang Cao, Xiaofeng Hu
Software Mentions: 3
Published: over 7 years ago

10.1093/bib/bbw114

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

10.1038/s41598-021-88029-6

Transcriptomic analysis to infer key molecular players involved during host response to NDV challenge in Gallus gallus (Leghorn & Fayoumi)
Cited by: 4
Author(s): Venkata Krishna Vanamamalai, Priyanka Garg, Gautham Kolluri, Ravi Kumar Gandham, Itishree Jali, Shailesh Sharma
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-88948-4

Genetic network and gene set enrichment analyses identify MND1 as potential diagnostic and therapeutic target gene for lung adenocarcinoma
Cited by: 4
Author(s): Jinying Wei, Guangping Meng, Jing Wu, Qiang Zhang, Jie Zhang
Software Mentions: 3
Published: over 5 years ago

10.1186/s12967-021-02834-1

Identification of key methylation differentially expressed genes in posterior fossa ependymoma based on epigenomic and transcriptome analysis
Cited by: 6
Author(s): Guanyi Wang, Yibin Jia, Yuqing Ye, Enming Kang, Huijun Chen, Jiayou Wang, Xiaosheng He
Software Mentions: 3
Published: over 5 years ago

10.3389/fpls.2019.00152

Phytochrome A Regulates Carbon Flux in Dark Grown Tomato Seedlings
Cited by: 10
Author(s): Keisha D. Carlson, Sneha Bhogale, Drew Anderson, Lars Tomanek, Andreas Madlung
Software Mentions: 3
Published: over 7 years ago

10.3389/fmolb.2021.645388

Mining TCGA Data for Key Biomarkers Related to Immune Microenvironment in Endometrial cancer by Immune Score and Weighted Correlation Network Analysis
Cited by: 18
Author(s): Chengbin Guo, Yuqin Tang, Yongqiang Zhang, Gen Li
Software Mentions: 3
Published: over 5 years ago

10.1093/hmg/ddz052

Genome-wide DNA methylation profiling identifies convergent molecular signatures associated with idiopathic and syndromic autism in post-mortem human brain tissue
Cited by: 62
Author(s): Chloe Wong, Rebecca G. Smith, Eilís Hannon, Gokul Ramaswami, Neelroop N. Parikshak, Elham Assary, Claire Troakes, Jérémie Poschmann, Leonard C Schalkwyk, Wenjie Sun, Shyam Prabhakar, Daniel H. Geschwind, Jonathan Mill
Software Mentions: 3
Published: over 7 years ago

10.1186/s12944-020-01299-3

Ubiquitin-specific protease as the underlying gene biomarker for aortic stenosis
Cited by: 3
Author(s): Yin Yuan, Lianqun Wang, Bo-Chen Yao, Zhigang Guo
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-021-92091-5

Bioinformatic profiling identifies prognosis-related genes in the immune microenvironment of endometrial carcinoma
Cited by: 5
Author(s): Pu Cheng, Jiong Ma, Xia Zheng, Chunxia Zhou, Xuejun Chen
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0087499

Analysis of Global Gene Expression in Brachypodium distachyon Reveals Extensive Network Plasticity in Response to Abiotic Stress
Cited by: 80
Author(s): Henry D. Priest, Samuel E. Fox, Erik R. Rowley, Jessica R. Murray, Todd P. Michael, Todd C. Mockler
Software Mentions: 3
Published: almost 13 years ago

10.3389/fpls.2020.00076

Transcriptome Analysis Identifies Two Ethylene Response Factors That Regulate Proanthocyanidin Biosynthesis During Malus Crabapple Fruit Development
Cited by: 12
Author(s): Hua Li, Mingzheng Han, Lujia Yu, Sifan Wang, Jie Zhang, Ji Tian
Software Mentions: 3
Published: over 6 years ago

10.3389/fpls.2021.655673

Exploring Biocontrol Agents From Microbial Keystone Taxa Associated to Suppressive Soil: A New Attempt for a Biocontrol Strategy
Cited by: 34
Author(s): Yanfen Zheng, Xiaobin Han, Dong‐Lin Zhao, Keke Wei, Yuan Yuan, Yiqiang Li, Minghong Liu, Chengsheng Zhang
Software Mentions: 3
Published: over 5 years ago

Projects: cran: WGCNA

Science Score: 85/100

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Papers Mentioning WGCNA 3,479