E-ERAD-352
Ontology highlight
ABSTRACT:
PROVIDER: E-ERAD-352 | ExpressionAtlas | 2017-07-25
REPOSITORIES: ExpressionAtlas
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| E-ERAD-352-analysis-methods.tsv | Tabular | |||
| E-ERAD-352-atlasExperimentSummary.Rdata | Rdata | |||
| E-ERAD-352-coexpressions.tsv.gz | Tabular | |||
| E-ERAD-352-configuration.xml | Xml | |||
| E-ERAD-352-factors.xml | Xml |
Items per page: 5 1 - 5 of 27 |
Similar Datasets
Project description:Strand-specific RNA-seq of somite-staged pure-bred wild-type mouse embryos from the Mouse Genetics Project/ DMDD
2020-02-07 | E-ERAD-499 | ExpressionAtlas
Project description:Strand-specific RNA-seq of somite-staged second generation genotypically wild-type embryos of mixed G0 lineage from the Mouse Genetics Project/DMDD
2016-10-06 | E-ERAD-401 | ExpressionAtlas
Project description:Strand-specific RNA-seq of somite-staged whole embryos from gene knockout lines comparing homozygous mutant against wild-type from the Mouse Genetics Project/DMDD
2019-05-14 | E-MTAB-5224 | ExpressionAtlas
Project description:Whole embryo RNA-seq of 73 mouse mutant lines and baseline controls from the Mouse Genetics Project (DMDD)
2019-05-14 | E-MTAB-7322 | ExpressionAtlas
Project description:Transcriptomic profiling of staged wildtype embryos from the Mouse Genetics Project (DMDD)
| PRJEB7966 | ENA
Project description:The DMDD Programme (Deciphering the Mechanisms of Developmental Disorders ) provides a free online database of morphological and molecular phenotypes from embryonic-lethal mouse gene knockouts (http://www.dmdd.org.uk/). Embryos are imaged using HREM, placentas are examined by histology and mutant embryo mRNA expression profiles are compared to wild type. To underpin these investigations we have produced a comprehensive time series of gene expression through normal embryo development. Total RNA was extracted from somite number staged wildtype embryos with no history of genetic modification in previous generations from the Mouse Genetics Programme (http://www.sanger.ac.uk/science/collaboration/mouse-resource-portal) and DNase treated. Stranded RNA-seq libraries were constructed using the Illumina TruSeq Stranded RNA protocol with oligo dT pulldown.<br> Notes about samples and libraries:<br> (1) A combination of litter identifier and embryo identifier within a litter will unambiguously identify a single embryo used in this study. </br><br> (2) There is a margin of error for the somite-stage information (+/- 1 somite) because some embryos could be in between somite stages. </br><br> (3) Sex of the embryos was determined post-RNA-seq by looking at the expression of Xist (strong expression in females only). </br><br> (4) Complementary data on genotypically wild-type mice with mixed G0 lineage and with heterozygous mutant parents can also be found in ArrayExpress under accession numbers E-ERAD-352 ( https://www.ebi.ac.uk/arrayexpress/experiments/E-ERAD-352 ) and E-ERAD-401 ( https://www.ebi.ac.uk/arrayexpress/experiments/E-ERAD-401 ).</br>
2016-06-01 | E-ERAD-499 | biostudies-arrayexpress
Project description:The DMDD Programme (Deciphering the Mechanisms of Developmental Disorders) provides a free online database of morphological and molecular phenotypes from embryonic-lethal mouse gene knockouts (http://www.dmdd.org.uk/). Embryos are imaged using HREM, placentas are examined by histology and mutant embryo mRNA expression profiles are compared to wild type. Total RNA was extracted from somite number staged homozygous mutant, heterozygous and sibling wild-type E9.5 whole C57BL/6N embryos and DNase treated. The embryos were derived from Mouse Genetics Programme gene knockout lines defined as homozygous embryonic lethal (http://www.sanger.ac.uk/science/collaboration/mouse-resource-portal). Stranded RNA-seq libraries were constructed using the Illumina TruSeq Stranded RNA protocol with oligo dT pulldown.<br> Notes about samples and libraries: </br><br>(1) The knockout alleles in this project were: Cnot4: Cnot4^tm1b(EUCOMM)Wtsi ; Ssr2: Ssr2^tm1b(EUCOMM)Wtsi ; 4933434E20Rik: 4933434E20Rik^tm1a(EUCOMM)Wtsi ; 1700007K13Rik: 1700007K13Rik^tm2b(EUCOMM)Wtsi ; Camsap3: Camsap3^tm1a(EUCOMM)Wtsi ; Anks6: Anks6^tm1b(KOMP)Wtsi ; Pdzk1: Pdzk1^tm2b(EUCOMM)Wtsi ; Otud7b: Otud7b^tm1b(EUCOMM)Wtsi ; Adamts3: Adamts3^tm1b(KOMP)Wtsi; Mir96: Mir96^tm2.2WTSI ; Cyp11a1: Cyp11a1^tm1b(EUCOMM)Hmgu and Traf6: Traf6^tm2a(EUCOMM)Wtsi. </br><br> (2) A combination of litter identifier and embryo identifier within a litter will unambiguously identify a single embryo used in this study. </br><br> (3) There is a margin of error for the somite-stage information (+/- 1 somite) because some embryos could be in between somite stages.</br><br> (4) There are a minimum of three biological replicates per line. </br><br> (5) Sex of the embryos was determined post-RNA-seq by looking at the expression of Xist (strong expression in females only). </br><br> (6) Libraries were constructed in batches comprising multiple litters from one line from RNA-extraction to sequencing.</br><br> This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/ .</br>
2015-02-11 | E-MTAB-5224 | biostudies-arrayexpress
Project description:Transcription profiling by array of Arabidopsis wild-type and dcl1-15 torpedo-staged embryos
2014-10-10 | E-GEOD-24887 | ExpressionAtlas
Project description:Transcription profiling by array of abdominal wall from heterozygous and homozygous Pitx2 mutant mouse embryos
2014-07-09 | E-MEXP-2332 | ExpressionAtlas
Project description:The DMDD Programme (Deciphering the Mechanisms of Developmental Disorders ) provides a free online database of morphological and molecular phenotypes from embryonic-lethal mouse gene knockouts (http://www.dmdd.org.uk/). Embryos are imaged using high-resolution episcopic microscopy (HREM), placentas are examined by histology and mutant embryo mRNA expression profiles are compared to wild type. To underpin these investigations we have produced a comprehensive time series of gene expression through normal embryo development<br></br>In this study, yotal RNA was extracted from wildtype C57BL/6N sibling embryos with heterozygous parentage from the Mouse Genetics Project (http://www.dmdd.org.uk/) and DNase treated. Stranded RNAseq libraries were constructed using the Illumina TruSeq Stranded RNA protocol with oligo dT pulldown. <br></br> Notes about samples and libraries:<br></br> (1) A combination of litter identifier and embryo identifier within a litter will unambiguously identify a single embryo used in this study. <br></br> (2) There is a margin of error for the somite-stage information (+/- 1 somite) because some embryos could be in between somite stages. <br></br>(3) Sex of the embryos was determined post-RNA-seq by looking at the expression of Xist (strong expression in females only). <br></br>(4) All knockouts in the parents (and hence grandparents) are for embryonic lethal genes. <br></br> (5) There are four biological replicates per somite-stage. <br></br>(6) Complementary data on genotypically wild-type mice with mixed G0 lineage and no history of genetic modification can also be found in ArrayExpress under accession numbers E-ERAD-401 ( https://www.ebi.ac.uk/arrayexpress/experiments/E-ERAD-401 ) and E-ERAD-499 ( https://www.ebi.ac.uk/arrayexpress/experiments/E-ERAD-499 ) respectively.
2015-02-11 | E-ERAD-352 | biostudies-arrayexpress