Overview

Introduction to the Genboree Workbench

Genboree Workbench Home Page

Video Tutorial - Introduction to the Genboree Workbench

FAQs Related to Genboree Workbench Basics

Bioinformatics Tools for Analysis of Extracellular RNAs (exRNAs) in the Genboree Workbench

Small RNA-Seq Data Analysis for exRNA Profiling Using exceRpt Small RNA-seq Pipeline

Tutorial

Understanding exceRpt Results

Tool Version Updates

Long RNA-Seq Data Analysis Using RSEQtools

View Screencast (no audio)

Tutorial

Detecting Circular and Linear Isoforms from RNA-seq Data Using KNIFE

Tutorial

Performing Differential Expression Analysis (Fold Change Calculation) Using DESeq2

Tutorial

Performing Pathway and Interaction Analysis Using the Genboree Workbench

Target Interaction Finder

This tool generates miRNA-protein target interaction files for a set of miRNA identifiers,
which can be imported into downstream tools, such as Cytoscape, for network analysis and visualization.

View Screencast below (no audio):

Tutorial

Pathway Finder

This tool performs a search for pathways either containing miRNAs of interest
or protein targets of those miRNAs.

View Screencast below (no audio):

Tutorial

Demos at ExRNA Communication Consortium (ERCC) Meetings

  • May 2014 - Demo of small and long RNA-Seq pipelines at the ERCC 2nd Investigators' Meeting, May 2014, at Bethesda, MD
  • November 2014 - Demo of small RNA-seq pipeline and use cases presented at the ERCC 3rd Investigators' Meeting, November 2014, at Rockville, MD
  • April 2015 - Demo of small RNA-seq pipeline and use cases presented at the ERCC 4th Investigators' Meeting and ISEV Annual Meeting, April 2015, at Bethesda, MD
  • May 2015 - CIBR RNA-seq workshop - Demo of exceRpt small RNA processing pipeline, May 2015, at Baylor College of Medicine, Houston, TX
  • November 2015 - Data Submission & Analysis Infrastructure at the DMRR - Talk at the ERCC 5th Investigators' Meeting, November 2015, at Rockville, MD
  • April 2016 - DMRR Data Analysis and Bioinformatics Workshop at the ERCC 6th Investigators' Meeting, April 2016, at Bethesda, MD
  • May 2016 - Poster presentation on exRNA Atlas and exRNA Virtual Biorepository at the ISEV 2016 Annual Meeting, May 2016, at Rotterdam, The Netherlands

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