Alex H. Wagner, PhD edited this page Nov 13, 2017 · 39 revisions

0-ii. Citation and description of published materials

This tutorial is accompanied by a publication. If you find the materials here or in that paper useful, please cite the following:

Malachi Griffith*, Jason R. Walker, Nicholas C. Spies, Benjamin J. Ainscough, Obi L. Griffith*. 2015. Informatics for RNA-seq: A web resource for analysis on the cloud. PLoS Comp Biol. 11(8):e1004393.

*To whom correspondence should be addressed: E-mail:,

All materials associated with this publication, including high resolution and original figure files, supplementary tables, etc. are available here: (

This includes all figures and supplementary tables.

  • Figure 1 - An overview of the central dogma of molecular biology
  • Figure 2 - RNA-seq data generation
  • Figure 3 - RNA-seq library fragmentation and size selection strategies that influence interpretation and analysis
  • Figure 4 - RNA-seq library enrichment strategies that influence interpretation and analysis
  • Figure 5 - RNA-seq analysis flow-chart
  • Figure 6 - Comparison of stranded and unstranded RNA-seq library methods and their influence on interpretation and analysis
  • Supplementary Table 1 - RNA-seq analysis techniques
  • Supplementary Table 2 - Tools for RNA-seq analysis
  • Supplementary Table 3 - Concepts in sample preparation and library construction that can influence study design, analysis and interpretation
  • Supplementary Table 4 - Description of RNA-seq library enrichment strategies
  • Supplementary Table 5 - Strand related settings for RNA-seq tools that must be adjusted to account for library construction strategy
  • Supplementary Table 6 - Standard file formats and tool-specific files used in RNA-seq analysis
  • Supplementary Table 7 - Common RNA-seq questions and their answers
  • Supplementary Table 8 - Resources for RNA-seq analysis
  • Supplementary Table 9 - RNA-seq workshops and online tutorials
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