Bioinformatics Training

The mission of the Bioinformatics Training Core is to provide resources for bioinformatics education focused on best practices in high-throughput sequencing data analysis and research data management, with the goal to foster independence and knowledge transfer in the DF/HCC community

Key Services

• Basic Data Skills (Shell/R)
• Applications of High-throughput sequencing(Transcriptomics, Epigenomics, Genomics)
• Functional Analysis
• Research Data Management
• Reproducibility Tools (Version control,Documentation)
• Consultations/Office Hours
• Educational infrastructure for DF/HCC experts

Training Courses Available

• Current Topics in Bioinformatics Series (half-day or less workshops)
• Introduction to Next-Generation Sequencing Analysis Series
  • Basic Data Skills (1 to 1.5 day workshops):
    • Introduction to the Command-Line Interface (Shell)
    • Introduction to R
  • Advanced Topics: Analysis of High-Throughput Sequencing (NGS) Data (2-day intensive workshops):
    • Introduction to (bulk) RNA-Seq Using High-Performance Computing
    • Introduction to Differential Gene Expression Analysis
    • Introduction to ChIP-seq Analysis
    • Introduction to Single Cell RNA-seq Analysis

Past Courses

• Gene annotations and functional analysis of gene lists
• Bulk RNA-seq (Part I - FASTQ to counts)
• Visualizations with ggplot2 and advanced plotting methods
• Introduction to single-cell RNA-seq
• Introduction to R
• Tools for Reproducible Research 
• Introduction to command-line interface & HMS-RC O2 cluster
• Introduction to single-cell RNA-seq data analysis
• Introduction to the command-line interface
• Introduction to Python
• Introduction to differential gene expression analysis (bulk RNA-seq)
• Interactive Data Visualization with RShiny (with Ista Zahn)
• Introduction to RMarkdown 

PUBLICATION ACKNOWLEDGEMENT:

If research supported by this core facility results in publication, please acknowledge this support by including the following in your publication(s):
"We thank Dana-Farber/Harvard Cancer Center in Boston, MA, for the use of the Bioinformatics Training Core, which provided __________ service. Dana-Farber/Harvard Cancer Center is supported in part by a NCI Cancer Center Support Grant # NIH 5 P30 CA06516."