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Bioinformatics Computation and Consulting Center: Software Installed

Bioinformatics

DNA/Protein Sequence Analysis

Statistical Analysis of High-throughput Data

Sequence Alignment and Assembly of NGS Data

  • Partek Flow: sequence alignment and assembly of NGS data

Comprehensive Functional Analysis

  • Ingenuity Pathway Analysis (IPA): interactive pathway analysis
  • BIOBASE
    • TRANSFAC: transcription factor prediction
    • ExPlain: transcription regulation analysis
    • PROTEOME: protein knowledgebase
    • HGMD: human genetic mutation database
    • Genome Trax: sequence annotation
  • Nextbio: gene set enrichment analysis
  • GSEA: gene set enrichment analysis

Advanced Literature and Data Search and Mining

  • Nextbio: PubMed & Elsevier full-text papers search
  • Oncomine: cancer-related gene expression and variation data mining
  • Genevestigator: medical and plant gene expression data mining

Statistics

  • SAS
  • SPSS
  • JMP
  • GPower
  • R & Bioconductor

Productivity & Utility

  • Acrobat Reader
  • Microsoft Office 2010
  • Jing
  • FileZilla
  • X-Win32
  • PuTTY