Human leukocyte antigen (HLA) genes are critical genes involved in important biomedical aspects, including organ transplantation, autoimmune diseases and infectious diseases. The gene family contains the most polymorphic genes in humans and the difference between two alleles is only a single base pair substitution in many cases. The next generation sequencing (NGS) technologies could be used for high throughput HLA typing but in silico methods are still needed to correctly assign the alleles of a sample. Computer scientists have developed such methods for various NGS platforms, such as Illumina, Roche 454 and Ion Torrent, based on the characteristics of the…
HLA-DQB1*05:144 differs from HLA-DQB1*05:01:01 by a single substitution in exon 3. © 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
In the past 50 years, variants in the major histocompatibility complex (MHC) locus, also known as the human leukocyte antigen (HLA), have been reported as major risk factors for complex diseases. Recent advances, including large genetic screens, imputation, and analyses of non-additive and epistatic effects, have contributed to a better understanding of the shared and specific roles of MHC variants in different diseases. We review these advances and discuss the relationships between MHC variants involved in autoimmune and infectious diseases. Further work in this area will help to distinguish between alternative hypotheses for the role of pathogens in autoimmune disease development.
HLA-B*18:124 differs from B*18:01:01:02 by a single substitution in exon 4.© 2016 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
HLA-B*08:183 differs from HLA-B*08:01:01 by a single substitution in exon 5.© 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
The sequence of HLA-B*27:144 differs from HLA-B*27:05:02 by one nucleotide change at position 506. © 2016 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
HLA-A*23:01:19 differs from HLA-A*23:01:01 by a single substitution in exon 4. © 2016 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
For over 50?years, the International HLA and Immunogenetics Workshops (IHIW) have advanced the fields of histocompatibility and immunogenetics (H&I) via community sharing of technology, experience and reagents, and the establishment of ongoing collaborative projects. Held in the fall of 2017, the 17th IHIW focused on the application of next generation sequencing (NGS) technologies for clinical and research goals in the H&I fields. NGS technologies have the potential to allow dramatic insights and advances in these fields, but the scope and sheer quantity of data associated with NGS raise challenges for their analysis, collection, exchange and storage. The 17th IHIW adopted…
HLA-A*26:01:44 differs from HLA-A*26:01:01 by a single substitution in exon 5.© 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
This tutorial provides an overview of the Long Amplicon Analysis (LAA) application. The LAA algorithm generates highly accurate, phased and full-length consensus sequences from long amplicons. Applications of LAA include HLA typing, alternative haplotyping, and localized de novo assemblies of targeted genes.