Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional start site mapping of P14 WT and P14 Tbpl2-/- mutant mouse oocytes

ABSTRACT: Transcriptional start site mapping of P14 WT and P14 Tbpl2-/- mutant mouse oocytes

PROVIDER: PRJEB37152 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3981345.fastq.gz	Fastqsanger.gz
	ERR3981346.fastq.gz	Fastqsanger.gz
	ERR3981347.fastq.gz	Fastqsanger.gz

Items per page:

1 - 3 of 3

Similar Datasets

Transcriptional start site mapping of P14 WT and P14 Tbpl2-/- mutant mouse oocytes

Project description:We used SLIC-CAGE to map transcriptional start sites (TSSs) of P14 WT and P14 Tbpl2-/- mutant mouse oocytes. Comparison of WT and Tbpl2-/- oocytes demonstrates that Tbpl2 guides transcriptional start site selection in the growing oocyte. This TSS selection is different compared to the canonical somatic type of TSS selection and depends on TATA-like elements as core promoter motifs, recognised by Tbpl2.

2020-11-12 | E-MTAB-8866 | biostudies-arrayexpress

SLIC-CAGE (Super-Low Input Carrier-CAGE) transcription start site mapping of mouse migratory and gonadal primordial germ cells, postnatal oocytes and early embryo

Project description:We used SLIC-CAGE to map transcription start sites (TSSs) of mouse primordial germ cells from embryonic days 9.5-16.5, postnatal oocytes (P6, P14 and MII), and early 2-cell and 4-cell mouse embryos. We use this TSS data to show that the mouse germline development starts with the somatic promoter code with a prominent switch to the maternal code (W-box dependent) occurring during the follicular oogenesis. We also find that the promoters of gonadal germ cells are characterised by a previously unknown divergence from the somatic transcription initiation. This divergence is distinct from the promoter code used later by the developing oocytes and reveals genome-wide promoter remodelling during early female and male germline development.

2022-02-14 | E-MTAB-9757 | biostudies-arrayexpress

Transcription start site identification in Bacillus subtilis

Project description:Transcription start site identification in Bacillus subtilis

| PRJEB35762 | ENA

Transcription Start Site analysis of Mouse Ter119+ erythroid cells

Project description:Transcription Start Site analysis in Mouse Ter119+ erythroid cells

2013-11-11 | GSE49459 | GEO

Genome-wide transcriptional start site mapping and sRNA identification in the pathogen Leptospira interrogans

Project description:Leptospira are emerging zoonotic pathogens transmitted from animals to humans typically through contaminated environmental sources of water and soil. Transcriptional regulation of pathogenic Leptospira spp. underlying the adaptive response to different hosts and environmental conditions remains elusive. In this study, we provide the first global Transcriptional Start Site (TSS) map of a Leptospira species. RNA was obtained from the pathogen Leptospira interrogans grown at 30° (optimal in vitro temperature) and 37°C (host temperature) and selectively enriched for 5' ends of native transcripts. Primary TSS (pTSS) was identified for 2,865 genes, accounting for 67% of the total genome. The majority of the TSSs were located between 0 to 10 nucleotides from the translational start site. Comparative dRNA-seq analysis revealed conservation of most pTSS at 30° and 37°C. Promoter prediction algorithms allow the identification of the binding sites of the alternative sigma factor sigma 54. However, other motifs were not identified indicating that Leptospira consensus promoter sequences are inherently different from the E. coli model. RNA sequencing also identified 277 and 226 putative small regulatory RNAs (sRNAs) at 30°C and 37°C, respectively, including 8 validated sRNAs by Northern blots. These results provide the first global view of transcriptional start sites and the repertoire of sRNAs in L. interrogans, and will establish a foundation for future experimental work on gene regulation under various environmental conditions including those in the host.

2017-01-23 | GSE92976 | GEO

Transcription start site mapping of Saccharomyces cerevisiae grown in YPD media using the nAnTi-iCAGE protocol

Project description:We used nAnT-iCAGE – unbiased single-nucleotide resolution method for genome-wide transcription start site (TSS) capture, to produce libraries from Saccharomyces cerevisiae total RNA. Our goal was to investigate S. cerevisiae core-promoters and assess the rules of transcription initiation in BY4741 strain grown in YPD media.

2022-02-01 | E-MTAB-7465 | biostudies-arrayexpress

Transcription start site analysis of NIPBL depletion in melanoma cell line

Project description:Transciption start site expression was studied after knockdown of NIPBL in melanoma cell lines 501mel

2025-05-01 | GSE232296 | GEO

Transcription Start Site analysis of Mouse Ter119+ erythroid cells

Project description:Transcription Start Site analysis in Mouse Ter119+ erythroid cells Strand Specific Paired end NanoCage analysis of Total RNA from Mouse Ter119+ erythroid cells

2013-11-11 | E-GEOD-49459 | biostudies-arrayexpress

Transcription start site analysis of NIPBL depletion in cancer cell line

Project description:Transciption start site expression was studied after knockdown of NIPBL cancer cell lines (A549, H358, H2228, 22RV1, VCAP, C106, SW620, HCT116, CAMA-1)

2025-05-01 | GSE263449 | GEO

Genome-wide mapping of transcription start sites in a ∆set2 strain

Project description:Here we quantified the transcription start site usage in a WT strain (BY4741) and a ∆set2 strain associated with the appearence of cryptic transcription start sites.

2015-01-14 | GSE62735 | GEO

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