ncibtep@nih.gov

Bioinformatics Training and Education Program

Partek Flow Workshop for CCR Scientists at NCI-Frederick

Partek Flow Workshop for CCR Scientists at NCI-Frederick

 When: Mar. 29th, 2017 2:00 pm - 4:30 pm

To Know

Where:
NCI-F Bldg549, Scientific Library Training Room
Organizer:
BTEP
Class Files:
This class has ended.

About this Class

The CCR Bioinformatics Training and Education Program (BTEP) is pleased to organize a workshop on Partek Flow for scientists at NCI-Frederick.

Partek Flow software is designed specifically for the analysis needs of next generation sequencing (NGS) applications including RNA, small RNA, and DNA sequencing. With an easy-to-use graphical interface, one can perform alignment, quantification, quality control, statistics and visualization for their NGS data.

Date: Wednesday, March 29, 2017

Time: 2:00 - 4:30 pm

Location: NCI-F Building 549, Scientific Library Training Room

Registration is required.

Note: The workshop is limited to 12 seats (10 seats with desktops available for use, and 2 seats for those who can bring their own laptops)


For more information about the venue, please contact:

Alan Doss
Informationist, Scientific Library
Email: dossal@mail.nih.gov
Phone: 301-846-1093

 
WORKSHOP AGENDA
 
2:00 - 4:30 pm               RNA-Seq Analysis using Partek Flow
                                       Presenter: Eric Seiser, PhD - Partek Field Application Specialist
 
An overview of getting started on the NIH Helix server and then a live demo of RNA-seq analysis in Partek Flow. The training will highlight key concepts in RNA-seq analysis and their implementation Flow.  This will be followed by a hands-on session utilizing Partek Flow to importing raw sequence data in fastq format from a published study, followed by performing QA/QC, alignment, quantification, differential expression detection and finally biological interpretation.

Students will learn how to use basic features of Partek Flow, including:

    •    Getting set up on NIH Helix server
    •    Importing data
    •    Performing QA/AC
    •    Alignment
    •    Gene/transcript abundance estimation
    •    Differential expression detection
    •    Go Enrichment analysis
    •    Visualization (PCA, dotplot, volcano plot, chromosome view, hierarchical clustering etc.)
    •    Microarray analysis and integration with RNA-seq data

 

Files

  • PartekOverviewNCI-F_29Mar2017_BTEPWorkshop.pdf: |
  • BTEP_RNA-Seq_Partek-TrainingHandout_0.pdf: |