3 years ago

Fast and accurate HLA typing from short-read next-generation sequence data with xHLA [Genetics]

Fast and accurate HLA typing from short-read next-generation sequence data with xHLA [Genetics]
Zhen Xuan Yeo, Cynthia Vierra-Green, Jason Piper, Suzanne Brewerton, Stephen Spellman, Marie Wong, Ewen F. Kirkness, Chao Xie, Sally Howard, Amalio Telenti, Richard H. Scheuermann, Ken Bloom, William H. Biggs, Tao Long, J. Craig Venter, Yaron Turpaz, Colleen Brady

The HLA gene complex on human chromosome 6 is one of the most polymorphic regions in the human genome and contributes in large part to the diversity of the immune system. Accurate typing of HLA genes with short-read sequencing data has historically been difficult due to the sequence similarity between the polymorphic alleles. Here, we introduce an algorithm, xHLA, that iteratively refines the mapping results at the amino acid level to achieve 99–100% four-digit typing accuracy for both class I and II HLA genes, taking only 3 min to process a 30× whole-genome BAM file on a desktop computer.

You might also like
Discover & Discuss Important Research

Keeping up-to-date with research can feel impossible, with papers being published faster than you'll ever be able to read them. That's where Researcher comes in: we're simplifying discovery and making important discussions happen. With over 19,000 sources, including peer-reviewed journals, preprints, blogs, universities, podcasts and Live events across 10 research areas, you'll never miss what's important to you. It's like social media, but better. Oh, and we should mention - it's free.

  • Download from Google Play
  • Download from App Store
  • Download from AppInChina

Researcher displays publicly available abstracts and doesn’t host any full article content. If the content is open access, we will direct clicks from the abstracts to the publisher website and display the PDF copy on our platform. Clicks to view the full text will be directed to the publisher website, where only users with subscriptions or access through their institution are able to view the full article.