Whole genome transcriptome polymorphisms in Arabidopsis thaliana
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Zhang, Xu; Byrnes, Jake K; Gal, Thomas S; Li, Wen-Hsiung; Borevitz, Justin O
Description
Whole genome tiling arrays are a key tool for profiling global genetic and expression variation. In this study we present our methods for detecting transcript level variation, splicing variation and allele specific expression in Arabidopsis thaliana. We also developed a generalized hidden Markov model for profiling transcribed fragment variation de novo. Our study demonstrates that whole genome tiling arrays are a powerful platform for dissecting natural transcriptome variation at...[Show more]
dc.contributor.author | Zhang, Xu | |
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dc.contributor.author | Byrnes, Jake K | |
dc.contributor.author | Gal, Thomas S | |
dc.contributor.author | Li, Wen-Hsiung | |
dc.contributor.author | Borevitz, Justin O | |
dc.date.accessioned | 2015-12-14T00:25:59Z | |
dc.date.available | 2015-12-14T00:25:59Z | |
dc.identifier.issn | 1465-6906 | |
dc.identifier.uri | http://hdl.handle.net/1885/94997 | |
dc.description.abstract | Whole genome tiling arrays are a key tool for profiling global genetic and expression variation. In this study we present our methods for detecting transcript level variation, splicing variation and allele specific expression in Arabidopsis thaliana. We also developed a generalized hidden Markov model for profiling transcribed fragment variation de novo. Our study demonstrates that whole genome tiling arrays are a powerful platform for dissecting natural transcriptome variation at multi-dimension and high resolution. | |
dc.description.sponsorship | We thank Andrew Cal for reading the manuscript. XZ was supported by start-up funds to JOB and a NIH grant (R01GM073822) to JOB. JKB was supported by the Department of Education's Graduate Assistance in Areas of National Needs (P-P200A030043) and NIH grants (GM30998 and GM081724) to W-HL. W-HL was supported by NIH grants (GM30998 and GM081724). JOB was supported by a NIH grant (R01GM073822). | |
dc.format | 17 pages | |
dc.publisher | BioMed Central | |
dc.rights | © 2008 Zhang et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. | |
dc.source | Genome Biology | |
dc.subject | alternative splicing | |
dc.subject | arabidopsis | |
dc.subject | gene expression regulation, plant | |
dc.subject | markov chains | |
dc.subject | gene expression profiling | |
dc.subject | genome, plant | |
dc.subject | polymorphism, genetic | |
dc.title | Whole genome transcriptome polymorphisms in Arabidopsis thaliana | |
dc.type | Journal article | |
local.description.notes | Imported from ARIES. | |
local.identifier.citationvolume | 9 | |
dcterms.dateAccepted | 2008-11-24 | |
dc.date.issued | 2008-11-24 | |
local.identifier.absfor | 060411 | |
local.identifier.ariespublication | f5625xPUB10737 | |
local.publisher.url | http://www.biomedcentral.com/ | |
local.type.status | Published Version | |
local.contributor.affiliation | Zhang, Xu, University of Chicago, United States of America | |
local.contributor.affiliation | Byrnes, Jake k , University of Chicago, United States of America | |
local.contributor.affiliation | Gal, Thomas S , University of Chicago, United States of America | |
local.contributor.affiliation | Li, Wenhsiung, University of Chicago, United States of America | |
local.contributor.affiliation | Borevitz, Justin, College of Medicine, Biology and Environment, CMBE Research School of Biology, Division of Plant Sciences, The Australian National University | |
local.identifier.essn | 1474-760X | |
local.bibliographicCitation.issue | 11 | |
local.bibliographicCitation.startpage | R165 | |
local.bibliographicCitation.lastpage | 17 | |
local.identifier.doi | 10.1186/gb-2008-9-11-r165 | |
local.identifier.absseo | 970106 | |
dc.date.updated | 2016-02-24T08:37:05Z | |
local.identifier.scopusID | 2-s2.0-57849136008 | |
local.identifier.thomsonID | 000261273100013 | |
Collections | ANU Research Publications |
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01_Zhang_Whole_genome_transcriptome_2008.pdf | Published Version | 1.06 MB | Adobe PDF |
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