Software tools

Multiscale Network Analysis

• Link to presentation: PDF

 Multiscale Network Modeling in Alzheimer’s Disease

• Link to presentation: PDF

 Key Driver Analysis

• Link to presentation: PDF
• Link to demo presentation: PDF
• Link to paper: PDF
• Link to R package: ZIP(windows), GZ(Linux)

 MEGENA: Multiscale Embeded Gene coExpression Network Analysis

• Link to the paper: DOI, PDF
• Link to tutorial: PDF
• Link to R package: github & CRAN

 SuperExactTest: Efficient Test and Visualization of Multi-Set Intersections

• Link to the paper: DOI, PDF
• Link to the tutorial: LINK
• Link to R package: github & CRAN

NetWeaver: Graphic Presentation of Complex Genomic and Network Data Analysis

• Link to the paper: DOI
• Link to the tutorial: LINK
• Link to R package: github & CRAN

sunburst.shiny: R/Shiny App for Interactive Visualization of Sunburst Network Hierarchy

• Link to the shiny app: github & shinyapps.io

Datasets

Mount Sinai cohort of large-scale genomic, transcriptomic and proteomic data in Alzheimer’s disease

• Link to the paper: DOI:10.1038/sdata.2018.185
• The Mount Sinai Brain Bank (MSBB) study description (DOI:10.7303/syn3159438)
• Metadata (DOI:10.7303/syn7392158)
• RNA-seq gene expression (DOI:10.7303/syn3157743)
• Whole Exome Sequencing (DOI:10.7303/syn4645334)
• Whole Genome Sequencing (DOI:10.7303/syn10901600)
• Proteomics (Label Free Mass Spectrometry) (DOI:10.7303/syn5759470)