HLA haplotype frequency estimation from real-life data with the Hapl-o-Mat software / Jürgen Sauter, Christian Schäfer, and Alexander H. Schmidt. Role of human leukocyte antigens (HLA) in autoimmune diseases / Gergely Bodis, Victoria Toth, and Andreas Schwarting -- IPD databases : cataloguing and understanding allele variants / Jashan P. Abraham, Dominic J. Barker, James Robinson, Giuseppe Maccari, and Steven G. E. Marsh -- Allele frequency net database / Faviel F. Gonzalez-Galarza, Antony McCabe, Eduardo J. Melo dos Santos, Louise Takeshita, Gurpreet Ghattaoraya, Andrew R. Jones, and Derek Middleton -- High-resolution HLA-typing by next-generation sequencing of randomly fragmented target DNA / Michael Wittig, Simonas Juzenas, Melanie Vollstedt, and Andre Franke -- High-throughput contiguous full-length next-generation sequencing of HLA class I and II genes from 96 donors in a single MiSeq run / Philip K. Ehrenberg, Aviva Geretz, and Rasmi Thomas -- Application of high-throughput next-generation sequencing for HLA typing on buccal extracted DNA / Yuxin Yin, James Lan, and Qiuheng Zhang -- Super high resolution for single molecule-sequence-based typing of classical HLA loci using ion torrent PGM / Takashi Shiina, Shingo Suzuki, Jerzy K. Kulski, and Hidetoshi Inoko -- High-resolution full-length HLA typing method using third generation (Pac-Bio SMRT) sequencing technology / Sheetal Ambardar and Malali Gowda -- Full-length HLA class I genotyping with the MinION nanopore sequencer / Kathrin Lang, Vineeth Surendranath, Philipp Quenzel, Gerhard Schöfl, Alexander H. Schmidt, and Vinzenz Lange -- Imputation-based HLA typing with SNPs in GWAS studies / Xiuwen Zheng -- In silico typing of classical and non-classical HLA alleles from standard RNA-Seq reads / Sebastian Boegel, Thomas Bukur, John C. Castle, and Ugur Sahin -- PHLAT: inference of high-resolution HLA types from RNA and whole exome sequencing / Yu Bai, David Wang, and Wen Fury -- Using exome and amplicon-based sequencing data for high-resolution HLA typing with ATHLATES / Chang Liu and Xiao Yang -- HLA typing from short-read sequencing data with OptiType / András Szolek -- Comprehensive HLA typing from a current allele database using next-generation sequencing data / Shuji Kawaguchi, Koichiro Higasa, Ryo Yamada, and Fumihiko Matsuda -- Accurate assembly and typing of HLA using a graph-guided assembler kourami / Heewook Lee and Carl Kingsford -- AmpliSAS and AmpliHLA : web server tools for MHC typing of non-model species and human using NGS data / Alvaro Sebastian, Magdalena Migalska, and Aleksandra Biedrzycka -- HLA haplotype frequency estimation from real-life data with the Hapl-o-Mat software / Jürgen Sauter, Christian Schäfer, and Alexander H. Schmidt.
Summary:
This volume explores the rapidly evolving field of HLA typing and its use in both the laboratory setting and in silico methods. The chapters in this book discuss high-throughput methods for HLA typing; wet lab protocols; microarray data and its uses; in silico tools for the identification of HLA alleles from DNA and RNA next-generation-sequencing data, as well as HLA haplotype frequency estimation. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and practical, HLA Typing: Methods and Protocols is a valuable resource for any researcher interested in learning more about this developing field.
This resource is supported by the Institute of Museum and Library Services under the provisions of the Library Services and Technology Act as administered by State Library of Iowa.