SEaCorAl: Identifying and contrasting the regulation-correlation bias in RNA-Seq paired expression data of patient groups

Drug investigation tool: Identifying the effect of drug on cell image by using improved correlation

(2020) Muhammad Shahid Iqbal et al.   SOFTWARE-PRACTICE & EXPERIENCE

Differential expression and co-expression gene network analyses reveal molecular mechanisms and candidate biomarkers involved in breast muscle myopathies in chicken

(2019) Eva Pampouille et al.   Scientific Reports

Stage-Dependent Gene Expression Profiling in Colorectal Cancer

(2018) Man-Sun Kim et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Combining differential expression and differential coexpression analysis identifies optimal gene and gene set in cervical cancer

(2018) Hong-Bing Cai et al.   Journal of Cancer Research and Therapeutics

Integrative omics for health and disease

(2018) Konrad J. Karczewski et al.   NATURE REVIEWS GENETICS

PairedFB: a full hierarchical Bayesian model for paired RNA-seq data with heterogeneous treatment effects

(2018) Yuanyuan Bian et al.   BIOINFORMATICS

Power in pairs: assessing the statistical value of paired samples in tests for differential expression

(2018) John R. Stevens et al.   BMC GENOMICS

The Gene Ontology Resource: 20 years and still GOing strong

(2018)   NUCLEIC ACIDS RESEARCH

Differential expression and co-expression gene networks reveal candidate biomarkers of boar taint in non-castrated pigs

(2017) Markus Drag et al.   Scientific Reports

Finding network communities using modularity density

(2016) Federico Botta et al.   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT

INDEED: Integrated differential expression and differential network analysis of omic data for biomarker discovery

(2016) Yiming Zuo et al.   METHODS

KEGG: new perspectives on genomes, pathways, diseases and drugs

(2016) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Identifying the optimal gene and gene set in hepatocellular carcinoma based on differential expression and differential co-expression algorithm

(2016) Li-Yang Dong et al.   ONCOLOGY REPORTS

DECODE: an integrated differential co-expression and differential expression analysis of gene expression data

(2015) Thomas WH Lui et al.   BMC BIOINFORMATICS

Loss of Connectivity in Cancer Co-Expression Networks

(2014) Roberto Anglani et al.   PLoS One

The Cancer Genome Atlas Pan-Cancer analysis project

(2013) John N Weinstein et al.   NATURE GENETICS

Integrative approaches for finding modular structure in biological networks

(2013) Koyel Mitra et al.   NATURE REVIEWS GENETICS

Weight-conserving characterization of complex functional brain networks

(2011) Mikail Rubinov et al.   NEUROIMAGE

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Evolution of Complex Modular Biological Networks

(2008) Arend Hintze et al.   PLoS Computational Biology