About: Assessment and improvement of Indian-origin rhesus macaque and Mauritian-origin cynomolgus macaque genome annotations using deep transcriptome sequencing data

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About: Assessment and improvement of Indian-origin rhesus macaque and Mauritian-origin cynomolgus macaque genome annotations using deep transcriptome sequencing data Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Assessment and improvement of Indian-origin rhesus macaque and Mauritian-origin cynomolgus macaque genome annotations using deep transcriptome sequencing data
Creator	Peng, Xinxia Pipes, Lenore Xiong, Hao Green, Richard Mason, Christopher Schroth, Gary Katze, Michael Palermo, Robert Jones, Daniel Ruzzo, Walter
Source	Medline; PMC
abstract	BACKGROUND: The genome annotations of rhesus (Macaca mulatta) and cynomolgus (Macaca fascicularis) macaques, two of the most common nonhuman primate animal models, are limited. METHODS: We analyzed large-scale macaque RNA-based next-generation sequencing (RNAseq) data to identify un-annotated macaque transcripts. RESULTS: For both macaque species, we uncovered thousands of novel isoforms for annotated genes and thousands of un-annotated intergenic transcripts enriched with non-coding RNAs. We also identified thousands of transcript sequences which are partially or completely ‘missing’ from current macaque genome assemblies. We showed that many newly identified transcripts were differentially expressed during SIV infection of rhesus macaques or during Ebola virus infection of cynomolgus macaques. CONCLUSIONS: For two important macaque species, we uncovered thousands of novel isoforms and un-annotated intergenic transcripts including coding and non-coding RNAs, polyadenylated and non-polyadenylated transcripts. This resource will greatly improve future macaque studies, as demonstrated by their applications in infectious disease studies.
has issue date	2014-05-08(xsd:dateTime)
bibo:doi	10.1111/jmp.12125
bibo:pmid	24810475
has license	green-oa
sha1sum (hex)	2554dcfdb6d7826d345b68aa856b77a20d2776ff
schema:url	https://doi.org/10.1111/jmp.12125
resource representing a document's title	Assessment and improvement of Indian-origin rhesus macaque and Mauritian-origin cynomolgus macaque genome annotations using deep transcriptome sequencing data
has PubMed Central identifier	PMC4176519
has PubMed identifier	24810475
schema:publication	Journal of Medical Primatology
resource representing a document's body	covid:2554dcfdb6d7826d345b68aa856b77a20d2776ff#body_text
is schema:about of	named entity 'genome' named entity 'transcripts' named entity 'non-coding RNAs' named entity 'data' named entity 'Assessment' named entity 'cynomolgus' named entity 'NEXT-GENERATION SEQUENCING' named entity 'INFECTION' named entity 'ANIMAL MODELS' named entity 'PARTIALLY' named entity 'INFECTIOUS DISEASE' named entity 'SIV' named entity 'Ebola virus' named entity 'genes' named entity 'next-generation sequencing' named entity 'macaques' named entity 'studies' named entity 'RNA-based' named entity 'future' named entity 'uncovered' named entity 'Results' named entity 'non-coding RNAs' named entity 'macaque' named entity 'Macaca mulatta' named entity 'next-generation sequencing' named entity 'macaque' named entity 'non-coding RNAs' named entity 'intergenic' named entity 'infectious disease' named entity 'animal models' named entity 'RNAseq' named entity 'isoforms' named entity 'Ebola' named entity 'polyadenylated' named entity 'cynomolgus macaque' named entity 'Macaca fascicularis' named entity 'deep sequencing' named entity 'mRNA' named entity 'rhesus macaque' named entity 'gene' named entity 'genomes' named entity 'human genome' named entity 'RNAseq' named entity 'reference genome' named entity 'cytoplasm' named entity 'gene' named entity 'protein-coding' named entity 'human genome' named entity 'RNAseq' named entity 'macaque' named entity 'intergenic' named entity 'isoforms' named entity 'NHP' named entity 'differentially expressed' named entity 'macaque' named entity 'macaque' named entity 'ncRNAs' named entity 'NHP' named entity 'genome' named entity 'contigs' named entity 'alternatively spliced' named entity 'rRNA' named entity 'protein-coding genes' named entity 'transcriptional' named entity 'isoforms' named entity 'genome' named entity 'macaque' named entity 'contigs' named entity 'isoforms' named entity 'sequencing reads' named entity 'rhesus macaques' named entity 'CPAT'

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