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Series GSE27016 Query DataSets for GSE27016
Status Public on Dec 01, 2011
Title Estimates of total imprint number withstand transcriptome test
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The number of transcripts where allelic bias is dependent parent-of-origin was predicted at 100-200 until two recent studies applied RNA-Seq to brain regions from reciprocally crossed inbred mouse strains and identified over a thousand novel imprinted loci, including hundreds present in only males or females. Reanalysis revealed that the vast majority of these novel loci are explained by technical and biological variation of the approach, and are not genuine cases of general or sex-specific parent-of-origin allelic expression. Independent replication projects that, at most, a few dozen novel imprinted transcripts are present in the dataset, in line with previous projections of 100-200 total imprinted transcripts.
Overall design Whole brain transcriptome analysis of E17.5 F1 embryos from reciprocally crossed C57BL/6J and CastEi/J parents
Contributor(s) DeVeale B, Babak T
Citation(s) 22479196
Submission date Feb 02, 2011
Last update date May 15, 2019
Contact name Brian DeVeale
Phone 4164587631
Fax 4169782666
Organization name University of Toronto
Department Molecular Genetics
Lab Derek van der Kooy
Street address 160 College Street, rm 1110
City Toronto
State/province Ontario
ZIP/Postal code M5S3E1
Country Canada
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (2)
GSM665476 F1 E17.5 Brain RNA-seq Cross 1 (BxC)
GSM665477 F1 E17.5 Brain RNA-seq Cross 2 (CxB)
SRA SRP006212
BioProject PRJNA137705

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE27016_Known_imprinted_genes.Readme.txt 3.3 Kb (ftp)(http) TXT
GSE27016_RAW.tar 886.5 Mb (http)(custom) TAR (of BED)
GSE27016_imprinted_genes.mm9.bed.gz 6.4 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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