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dc.contributor.author
Yu, Jian
dc.contributor.author
Ciaudo, Constance
dc.date.accessioned
2018-01-31T09:50:54Z
dc.date.available
2018-01-29T10:14:15Z
dc.date.available
2018-01-31T09:50:54Z
dc.date.available
2017-06-12T20:42:42Z
dc.date.issued
2017-03-17
dc.identifier.issn
2045-2322
dc.identifier.other
10.1038/srep44736
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/238067
dc.identifier.doi
10.3929/ethz-b-000235914
dc.description.abstract
Forward genetic screens using retroviral (or transposon) gene-trap vectors in a haploid genome revolutionized the investigation of molecular networks in mammals. However, the sequencing data generated by Phenotypic interrogation followed by Tag sequencing (PhiT-seq) were not well characterized. The analysis of human and mouse haploid screens allowed us to describe PhiT-seq data and to define quality control steps. Moreover, we identified several blind spots in both haploid genomes where gene-trap vectors can hardly integrate. Integration of transcriptomic data improved the performance of candidate gene identification. Furthermore, we experimented with various statistical tests to account for biological replicates in PhiT-seq and investigated the effect of normalization methods and other parameters on the performance. Finally, we developed: VISITs, a dedicated pipeline for analyzing PhiT-seq data
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
Nature Publishing Group
en_US
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.subject
high-throughput screening
en_US
dc.subject
Software
en_US
dc.title
Vector Integration Sites Identification for Gene-Trap Screening in Mammalian Haploid Cells
en_US
dc.type
Journal Article
dc.rights.license
Creative Commons Attribution 4.0 International
ethz.journal.title
Scientific Reports
ethz.journal.volume
7
en_US
ethz.pages.start
44736
en_US
ethz.size
14 p.
en_US
ethz.version.deposit
publishedVersion
en_US
ethz.identifier.wos
ethz.identifier.scopus
ethz.identifier.nebis
006751867
ethz.publication.place
London
ethz.publication.status
published
en_US
ethz.leitzahl
ETH Zürich::00002 - ETH Zürich::00012 - Lehre und Forschung::00007 - Departemente::02030 - Dep. Biologie / Dep. of Biology::02539 - Institut für Molecular Health Sciences / Institute of Molecular Health Sciences::03983 - Ciaudo, Constance / Ciaudo, Constance
ethz.leitzahl.certified
ETH Zürich::00002 - ETH Zürich::00012 - Lehre und Forschung::00007 - Departemente::02030 - Dep. Biologie / Dep. of Biology::02539 - Institut für Molecular Health Sciences / Institute of Molecular Health Sciences::03983 - Ciaudo, Constance / Ciaudo, Constance
ethz.date.deposited
2017-06-12T20:43:42Z
ethz.source
FORM
ethz.source
ECIT
ethz.identifier.importid
imp59365562e388010830
ethz.ecitpid
pub:193159
ethz.eth
yes
en_US
ethz.availability
Open access
en_US
ethz.rosetta.installDate
2018-02-01T13:18:38Z
ethz.rosetta.lastUpdated
2019-01-02T11:31:13Z
ethz.rosetta.exportRequired
true
ethz.rosetta.versionExported
true
dc.identifier.olduri
http://hdl.handle.net/20.500.11850/130157
dc.identifier.olduri
http://hdl.handle.net/20.500.11850/235914
ethz.COinS
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