Alternative splicing and genetic variation of MHC-E: Implications for rhesus cytomegalovirus-based vaccines

Main Authors: Brochu, Hayden, Wang, Ruihan, Tollison, Tammy, Pyo, Chul-Woo, Thomas, Alexander, Tseng, Elizabeth, Law, Lynn, Gale, Michael, Geraghty, Daniel, Peng, Xinxia
Format: info dataset Journal
Terbitan: , 2022
Online Access: https://zenodo.org/record/5985423
ctrlnum 5985423
fullrecord <?xml version="1.0"?> <dc schemaLocation="http://www.openarchives.org/OAI/2.0/oai_dc/ http://www.openarchives.org/OAI/2.0/oai_dc.xsd"><creator>Brochu, Hayden</creator><creator>Wang, Ruihan</creator><creator>Tollison, Tammy</creator><creator>Pyo, Chul-Woo</creator><creator>Thomas, Alexander</creator><creator>Tseng, Elizabeth</creator><creator>Law, Lynn</creator><creator>Gale, Michael</creator><creator>Geraghty, Daniel</creator><creator>Peng, Xinxia</creator><date>2022-02-20</date><description>We used long-read sequencing to interrogate rhesus macaque (RM) MHC-E (Mamu-E) alternative splicing and genetic variations. Full-length Mamu-E RNA isoforms were recovered using the PacBio Iso-Seq method. Incomplete 5' ends of Mamu-E isoforms were confirmed using Sanger sequencing, where we identified three additional isoforms. Full-length human MHC-E (HLA-E) isoforms were also recovered using the PacBio Iso-Seq method. Isoform sequences and annotations are provided for both Mamu-E and HLA-E in addition to Mamu-E Sanger sequencing data. HLA-E annotations are reported using the hg38 reference, while Mamu-E annotations are shown using rhesus MHC Class I and II assemblies previously generated using Bacterial Artificial Cloning (BAC) technology (https://www.ncbi.nlm.nih.gov/nuccore/AC148696.1). Using PacBio Long Amplicon Analysis, we sequenced complete Mamu-E coding regions of 59 RMs and additionally captured 3' UTR polymorphism using mRNA-seq haplotype phasing analysis. The complete genotyping data for these animals are provided as well as animal metadata. Genotyping data is shown using the Mamu-E canonical isoform (Mamu-E1 from Iso-Seq analysis) as reference.</description><identifier>https://zenodo.org/record/5985423</identifier><identifier>10.5281/zenodo.5985423</identifier><identifier>oai:zenodo.org:5985423</identifier><relation>doi:10.5281/zenodo.5985422</relation><rights>info:eu-repo/semantics/restrictedAccess</rights><title>Alternative splicing and genetic variation of MHC-E: Implications for rhesus cytomegalovirus-based vaccines</title><type>Other:info:eu-repo/semantics/other</type><type>Other:dataset</type><recordID>5985423</recordID></dc>
format Other:info:eu-repo/semantics/other
Other
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Journal:Journal
Journal
author Brochu, Hayden
Wang, Ruihan
Tollison, Tammy
Pyo, Chul-Woo
Thomas, Alexander
Tseng, Elizabeth
Law, Lynn
Gale, Michael
Geraghty, Daniel
Peng, Xinxia
title Alternative splicing and genetic variation of MHC-E: Implications for rhesus cytomegalovirus-based vaccines
publishDate 2022
url https://zenodo.org/record/5985423
contents We used long-read sequencing to interrogate rhesus macaque (RM) MHC-E (Mamu-E) alternative splicing and genetic variations. Full-length Mamu-E RNA isoforms were recovered using the PacBio Iso-Seq method. Incomplete 5' ends of Mamu-E isoforms were confirmed using Sanger sequencing, where we identified three additional isoforms. Full-length human MHC-E (HLA-E) isoforms were also recovered using the PacBio Iso-Seq method. Isoform sequences and annotations are provided for both Mamu-E and HLA-E in addition to Mamu-E Sanger sequencing data. HLA-E annotations are reported using the hg38 reference, while Mamu-E annotations are shown using rhesus MHC Class I and II assemblies previously generated using Bacterial Artificial Cloning (BAC) technology (https://www.ncbi.nlm.nih.gov/nuccore/AC148696.1). Using PacBio Long Amplicon Analysis, we sequenced complete Mamu-E coding regions of 59 RMs and additionally captured 3' UTR polymorphism using mRNA-seq haplotype phasing analysis. The complete genotyping data for these animals are provided as well as animal metadata. Genotyping data is shown using the Mamu-E canonical isoform (Mamu-E1 from Iso-Seq analysis) as reference.
id IOS16997.5985423
institution ZAIN Publications
institution_id 7213
institution_type library:special
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library Cognizance Journal of Multidisciplinary Studies
library_id 5267
collection Cognizance Journal of Multidisciplinary Studies
repository_id 16997
subject_area Multidisciplinary
city Stockholm
province INTERNASIONAL
shared_to_ipusnas_str 1
repoId IOS16997
first_indexed 2022-06-06T04:53:43Z
last_indexed 2022-06-06T04:53:43Z
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