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RPASE :
RPASE : Individual-based allele-specific expression detection without prior knowledge of haplotype phase
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- Wang, Mi (författare)
- Uppsala universitet,Evolutionsbiologi
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- Uebbing, Severin (författare)
- Uppsala universitet,Evolutionsbiologi,Yale Sch Med, Dept Genet, New Haven, CT USA
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- Pawitan, Yudi (författare)
- Karolinska Institutet
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- Scofield, Douglas G., 1966- (författare)
- Uppsala universitet,Evolutionsbiologi
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(creator_code:org_t)
- 2018-06-20
- 2018
- Engelska.
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Ingår i: Molecular Ecology Resources. - : Wiley. - 1755-098X .- 1755-0998. ; 18:6, s. 1247-1262
- Relaterad länk:
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https://urn.kb.se/re...
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https://doi.org/10.1...
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http://kipublication...
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Abstract
Ämnesord
Stäng
- Variation in gene expression is believed to make a significant contribution to phenotypic diversity and divergence. The analysis of allele-specific expression (ASE) can reveal important insights into gene expression regulation. We developed a novel method called RPASE (Read-backed Phasing-based ASE detection) to test for genes that show ASE. With mapped RNA-seq data from a single individual and a list of SNPs from the same individual as the only input, RPASE is capable of aggregating information across multiple dependent SNPs and producing individual-based gene-level tests for ASE. RPASE performs well in simulations and comparisons. We applied RPASE to multiple bird species and found a potentially rich landscape of ASE.
Ämnesord
- NATURVETENSKAP -- Biologi -- Evolutionsbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Evolutionary Biology (hsv//eng)
Nyckelord
- allele-specific expression
- gene expression evolution
- regulatory variation
- RNA-seq
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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