Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

46 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-Seq CAGE (Cap Analysis of Gene Expression) analysis of mice cells in RIKEN FANTOM5 project

ABSTRACT: This experiment captures the expression data reported by the RIKEN FANTOM5 project ( http://fantom.gsc.riken.jp/5/ ), focusing on mice cell data which was deposited in the seqence read archive (SRA) under study accession DRP001032 (https://www.ebi.ac.uk/ena/data/view/DRP001031 ) . The samples in this experiment can also be found on a dedicated page of the FANTOM website: http://fantom.gsc.riken.jp/5/sstar/Browse_samples. Since this is CAGE analsyis, gene expression data is reported by FANTOM5 in TPMs (tags per milliion) for gene promoters. This is in conjunction with E-MTAB-3577 (http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3577/)

INSTRUMENT(S): Helicos HeliScope

ORGANISM(S): Mus musculus

SUBMITTER:

PROVIDER: E-MTAB-3578 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

RNA-Seq CAGE (Cap Analysis of Gene Expression) analysis of mice tissue in RIKEN FANTOM5 project

Project description:This experiment captures the expression data reported by the RIKEN FANTOM5 project ( http://fantom.gsc.riken.jp/5/ ), focusing on mice tissue data which was deposited in the sequence read archive (SRA) under study accession DRP001032 (https://www.ebi.ac.uk/ena/data/view/DRP001031 ) . The samples in this experiment can also be found on a dedicated page of the FANTOM website: http://fantom.gsc.riken.jp/5/sstar/Browse_samples. Since this is CAGE analysis, gene expression data is reported by FANTOM5 in TPMs (tags per milliion) for gene promoters. This is in conjunction with E-MTAB-3578 (http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3578/)

2015-05-14 | E-MTAB-3579 | biostudies-arrayexpress

RNA-Seq CAGE (Cap Analysis of Gene Expression) analysis of human tissues in RIKEN FANTOM5 project

Project description:This experiment captures the expression data reported by the RIKEN FANTOM5 project ( http://fantom.gsc.riken.jp/5/ ), focusing on tissue/organism part data which was deposited in the seqence read archive (SRA) under study accssion DRP001031 ( https://www.ebi.ac.uk/ena/data/view/DRP001031 ) . The samples in this experiment can also be found on a dedicated page of the FANTOM website: http://fantom.gsc.riken.jp/5/sstar/Browse_samples . Since this is CAGE analsyis, gene expression data is reported by FANTOM5 in TPMs (tags per milliion) for gene promoters.

2015-02-28 | E-MTAB-3358 | biostudies-arrayexpress

Re-analysis of E-MTAB-1585

Project description:Raw data from E-MTAB-1585 was normalized by using reads per million. https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1585/

2013-09-19 | GSE50860 | GEO

Coordinated effects of sequence variation on DNA binding, chromatin structure, and transcription.

Project description:Nascent transcriptome sequencing (GRO-seq) experiment of 3 human lymphoblastoid cell line samples from the 1000 Genomes sample set (http://www.1000genomes.org/). Dataset includes one parent-daughter trio (CEU populations). This accession contains raw, mapped, and processed GRO-seq read data, other assays in this study are available under accession E-MTAB-1884 (ChIP-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1884) and E-MTAB-1883 (RNA-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1883/).

2013-10-17 | E-MTAB-1885 | biostudies-arrayexpress

Coordinated effects of sequence variation on DNA binding, chromatin structure, and transcription.

Project description:Transcriptome sequencing (RNA-seq) experiment of 14 human lymphoblastoid cell line samples from the 1000 Genomes sample set (http://www.1000genomes.org/). Dataset includes two parent-daughter trios (CEU and YRI populations) and additional eight unrelated individuals (CEU population). This accession contains raw and mapped RNA-seq read data, other assays in this study are available under accession E-MTAB-1884 (ChIP-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1884) and E-MTAB-1885 (GRO-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1885).

2013-10-17 | E-MTAB-1883 | biostudies-arrayexpress

Coordinated effects of sequence variation on DNA binding, chromatin structure, and transcription.

Project description:ChIP-seq experiment of 14 human lymphoblastoid cell line samples from the 1000 Genomes sample set (http://www.1000genomes.org/). Dataset includes two parent-daughter trios (CEU and YRI populations) and additional eight unrelated individuals (CEU population). This accession contains raw and mapped ChIP-seq read data, other assays in this study are available under accession E-MTAB-1883 (RNA-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1883) and E-MTAB-1885 (GRO-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1885/).

2013-10-17 | E-MTAB-1884 | biostudies-arrayexpress

Defining the microbial response to colitis through integrated host and microbiome profiling: Replication data set

Project description:This is a replication study of E-MTAB-3562 ( http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3562/ ) and complementary transcription profiling data from the mouse hosts have also been deposited at ArrayExpress under accession number E-MTAB-3590 ( http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3590/ )

2015-12-31 | E-MTAB-4082 | biostudies-arrayexpress

Breed gene expression differences in young offspring chicken with Affymetrix Chicken Gene Chip

Project description:Heritable epigenetic variation in wild and domesticated chickens. Original processed data are available in the archive: http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-644/E-MTAB-644.additional.zip

2011-05-10 | E-MTAB-644 | biostudies-arrayexpress

Breed gene expression differences in adult parent chicken with Affymetrix Chicken Gene Chip

2011-05-10 | E-MTAB-645 | biostudies-arrayexpress

EGAS00001000195-4-sc-20120308 - samples

Project description:The expression data for this study can be found here: http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1088/ and its SNP6 data can be found here: http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1087/

| EGAD00001000138 | EGA

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data