Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Expression profiling of Hsf5 WT and Hsf5 KO testes in mouse on postnatal day 12 and 16

PROVIDER: PRJNA1078550 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28024654_1.fastq.gz	Fastqsanger.gz
	SRR28024654_2.fastq.gz	Fastqsanger.gz
	SRR28024655_1.fastq.gz	Fastqsanger.gz
	SRR28024655_2.fastq.gz	Fastqsanger.gz
	SRR28024656_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Expression profiling of Hsf5 WT and Hsf5 KO testes in mouse on postnatal day 16

Project description:To investigate the role of HSF5 protein in mouse reproduction, We collected WT or Hsf5+/- (control) and Hsf5-/- testes at postnatal day 16 (P16) for RNA sequencing.

2024-03-03 | GSE259417 | GEO

NKAPL binding sites in mouse testis and the genome-wide occupancy of the SOX30/HDAC3 protein complex and RNA Pol II in the absence of NKAPL

Project description:To profile genomic binding sites of NKAPL and examine whether its knockout alters the genome-wide occupancy of the SOX30/HDAC3 protein complex and RNA Pol II in mouse testes, wild-type and Nkapl KO testes at postnatal day 21 were harvested for ChIP-seq.

2024-12-12 | GSE232398 | GEO

Upf2 in NMD pathway

Project description:Purpose: Probe the transcriptome-wide changes in the expression pattern between WT and Sertoli-specific Upf2 KO testes Methods: Total RNA were extracted from WT and Sertoli-specific Upf2 KO testes in triplicates and subject to deep-sequencing in Ion Torrent seq platform. Results: Using an optimized data analysis workflow, we mapped about 30 million sequence reads per sample to the mouse genome (build mm9) and identified 16,014 transcripts in the retinas of WT and Nrl−/− mice with BWA workflow and 34,115 transcripts with TopHat workflow. RNA-seq data confirmed stable expression of 25 known housekeeping genes, and 12 of these were validated with qRT–PCR. RNA-seq data had a linear relationship with qRT–PCR for more than four orders of magnitude and a goodness of fit (R2) of 0.8798. Approximately 10% of the transcripts showed differential expression between the WT and Nrl−/− retina, with a fold change ≥1.5 and p value <0.05. Altered expression of 25 genes was confirmed with qRT–PCR, demonstrating the high degree of sensitivity of the RNA-seq method. Hierarchical clustering of differentially expressed genes uncovered several as yet uncharacterized genes that may contribute to retinal function. Data analysis with BWA and TopHat workflows revealed a significant overlap yet provided complementary insights in transcriptome profiling. Conclusions: Our study represents the first detailed analysis of Upf2-mediated NMD pathway in Sertoli cell development Testis mRNA profiling was generated from postnatal day 4 WT and Amh-cKO (Sertoli specific Upf2 KO) testes, in triplicates.

2014-09-06 | E-GEOD-58405 | biostudies-arrayexpress

Transcriptome analysis of meiotic prophase spermatocytes in Zfp541 +/- and Zfp541 KO mice

Project description:ZFP541 is one of the candidates for a transcriptional regulator during mouse meiotic prophase. In order to address the role of ZFP541, transcriptomes of meiotic prophase-enriched population were compared between Zfp541 +/- and Zfp541 KO testes by RNA-seq. The meiotic prophase-enriched population was isolated from Zfp541 +/- and Zfp541 KO testes at postnatal day 18 (P18), on the Rec8-3FH-GFP KI background by fluorescent sorting of GFP positive cells.

2020-12-29 | GSE163917 | GEO

Expression profiling of Morc2b wt and Morc2b ko testes

Project description:We report the effect of Morc2b inactivation on the transcriptome of testes at postnatal day 12 (PND12). We find 88 differentially expressed genes between wild type and Morc2b-/- testes

2018-01-08 | GSE103127 | GEO

Transcription profiling of mouse WT and Nxf2 KO post-natal day 21 testes

Project description:In euakryotes, mRNAs must be exported from the nucleus to the cytsoplasm. NXF2 is highly expressed in the mouse male germ cells. We are interested in its function in spermatogenesis, espically in the nuclear RNA export in the testis. To this end, we made Nxf2 mutant mice by gene targeting. In an attempt to identify the mRNA substrates of NXF2, we perform the microarray experiments on testes. We used microarrays to check the expression profiles of the Nxf2 WT and KO 21d testes on C57BL/6 background. Experiment Overall Design: To examine the expression difference between WT and Nxf2 KO testes, we collected testes from juvenile mice of three ages ( 21d, 26d, 28d). Testis weight was similar between WT and KO mice at post-natal day 21. Three pairs of WT and KO 21d testes were chosen for microarray analysis.

2009-11-14 | E-GEOD-13526 | biostudies-arrayexpress

Mir-132/212 shapes age-dependent transcriptome and is required for binocular matching of orientation preference and depth perception.

Project description:We performed RNA sequencing and smallRNA sequencing experiments on visual cortex tissues from three groups of animals: wildtype mice postnatal day 10 (P10-WT), wildtype mice postnatal day 28 (P28-WT), and miR-132/212 null mice postnatal day 28 (P28-KO).

2017-03-03 | GSE95649 | GEO

Project description:Mouse postnatal day 12 oocyte RNA-seq

| PRJNA434598 | ENA

Mus musculus

Project description:Transcript profiling of WT and Nxf2 KO post-natal day 21 testes

| PRJNA110139 | ENA

Genome wide DNA binding profile of SOX3 in mouse testes

Project description:SOX3 is highly expressed in spermatogonial stem cells within the post natal mouse testes. A ChIP-Seq experiement was performed for SOX3 in postnatal day 7 testes.

2020-11-18 | GSE146706 | 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