A guide to bioinformatics for immunologists

Fiona J. Whelan, Nicholas V.L. Yap, Michael G. Surette, G. Brian Golding, Dawn M.E. Bowdish

Research output: Contribution to journalReview articlepeer-review

Abstract

Bioinformatics includes a suite of methods, which are cheap, approachable, and many of which are easily accessible without any sort of specialized bioinformatic training. Yet, despite this, bioinformatic tools are under-utilized by immunologists. Herein, we review a representative set of publicly available, easy-to-use bioinformatic tools using our own research on an under-annotated human gene, SCARA3, as an example. SCARA3 shares an evolutionary relationship with the class A scavenger receptors, but preliminary research showed that it was divergent enough that its function remained unclear. In our quest for more information about this gene - did it share gene sequence similarities to other scavenger receptors? Did it contain conserved protein domains? Where was it expressed in the human body? - we discovered the power and informative potential of publicly available bioinformatic tools designed for the novice in mind, which allowed us to hypothesize on the regulation, structure, and function of this protein. We argue that these tools are largely applicable to many facets of immunology research.

Original languageEnglish
Article numberArticle 416
JournalFrontiers in Immunology
Volume4
Issue numberDEC
DOIs
Publication statusPublished - 2013

Keywords

  • Bioinformatics
  • Immunology
  • Scavenger receptor
  • Sequence alignments
  • Single-nucleotide polymorphisms
  • Transcriptional profiling

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