Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome analysis of the three equine tissue

ABSTRACT: Transcriptome analysis of the three equine tissue

PROVIDER: PRJNA797088 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17612700_1.fastq.gz	Fastqsanger.gz
	SRR17612700_2.fastq.gz	Fastqsanger.gz
	SRR17612701_1.fastq.gz	Fastqsanger.gz
	SRR17612701_2.fastq.gz	Fastqsanger.gz
	SRR17612702_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Equine RNAseq Tissue pool

Project description:Equine RNAseq Tissue pool

| PRJEB7168 | ENA

Equine tissue miRNA profiling

Project description:Equine tissue miRNA profiling

| PRJNA836389 | ENA

Transcriptome analysis of the three equine tissue

Project description:The aim of the project was to identify the tissue-specific patterns of gene expression of selected horse tissues, derived from two germ layers, endodermal (liver and lung) and mesenchymal (cardiac striated muscle) origin.

2023-08-31 | GSE193661 | GEO

Transcriptome analysis of equine sarcoids

Project description:The aim of this study was to identify changes in transcriptome of horse sarcoids - a locally invasive skin tumors of equids, which are considered to be the most common equine skin neoplasm. The global expression of genes was investigated in four tumour samples and in the tumour-distant skin samples, obtained from the same individual.

2016-06-18 | GSE83430 | GEO

Analysis of the Equine Transcriptome by mRNA Sequencing

Project description:Analysis of the Equine Transcriptome by mRNA Sequencing

| PRJNA202909 | ENA

Transcription profiling of horse equine Laminitis samples vs Control.

Project description:Equine lameller tissues were collected to compare normal vs laminitis generated differences in transcriptom level. Experiment Overall Design: Three Laminitis generated vs three normal Equine hoof tissues were subjected to comparison analysis in transcriptom level by using the Affymetrix Bovine GeneChip. Experiment Overall Design: The reasons for Bovine chip were; 1) Genetic similarity to Equine. Experiment Overall Design: 2) More transcriptom was search at that Affymetrix platform comparing the Equine GeneChip at the time of the study.

2008-11-06 | E-GEOD-7360 | biostudies-arrayexpress

Transcriptomic analysis of the chorioallantois in equine premature placental separation.

Project description:The transcripts from equine chorioallantois of thirty-three premature placental separation and four control were compared.

2022-10-31 | GSE186617 | GEO

Reduced representation bisulfite sequencing of equine tissue

Project description:Reduced representation bisulfite sequencing of equine tissue

| PRJNA789530 | ENA

Structural annotation of equine protein-coding genes determined by mRNA sequencing

Project description:The horse, like a majority of animal species, has a limited amount of species-specific expressed sequence data available in public databases. As a result, structural models for a majority of genes defined in the equine genome are predictions based on ab initio sequence analysis or the projection of gene structures from other mammalian species. The current study used Illumina-based sequencing of messenger RNA (RNA-seq) to help refine structural annotation of equine protein-coding genes and for a preliminary assessment of gene expression patterns. Sequencing of mRNA from eight equine tissues generated 293,758,105 thirty five-base sequence tags, equaling 10.28 giga-basepairs of total sequence data. The tag alignments represent approximately 208X coverage of the equine mRNA transcriptome and confirmed transcriptional activity for roughly 90% of the protein-coding gene structures predicted by Ensembl and NCBI. Tag coverage was sufficient to define structural annotation for 11,356 genes, while also identifying an additional 456 transcripts with exon/intron features that are not listed by either Ensembl or NCBI. Genomic locus data and intervals for the protein-coding genes predicted by the Ensembl and NCBI annotation pipelines were combined with 75,116 RNA-seq derived transcriptional units to generate a consensus equine protein-coding gene set of 20,302 defined loci. Gene ontology annotation was used to compare the functional and structural categories of genes expressed in either a tissue-restricted pattern or broadly across all tissue samples. Examination of 8 equine RNA samples representing 6 distinct tissues

2010-11-10 | E-GEOD-21925 | biostudies-arrayexpress

Comparison of steady state mRNA levels between equine articular cartilage and ten other equine tissues

Project description:A tissue survey of gene expression was conducted using microarray-based transcriptional profiling to compare equine articular cartilage to 10 other normal adult horse tissues. The ten comparative tissues were bladder, cerebellum, kidney, liver, lung, lymph node, muscle, placental villous, spleen, and testis. Messenger RNA transcriptome comparisons were conducted between equine articular cartilage and ten other body tissues using a 9413 element equine-specific cDNA microarray and a two-color dye-swap experimental design. After scanning, the median intensities adjusted for background were entire chip Lowess-normalized for each individual slide. Quantile regression was used to estimate the conditional quantile of the M and A log ratios given the observed average log intensity. Briefly, a nonparametric approach was used to reveal the relationship between percentiles of M and A, where M is log2 (R/G) and A is 0.5 log2 (RG) with R representing expression in articular cartilage and G representing expression in the comparative tissue. The quantile regression was fit using a B-spline with 5 fixed nodes. The 1st, 5th, 10th, 20th, 50th, 80th, 90th, 95th, and 99th conditional quantiles were estimated. For each observed gene intensity in a given tissue comparison, the normal quantile was used as the cartilage-specificity in place of the corresponding estimated regression quantile.

2011-01-27 | E-GEOD-23862 | biostudies-arrayexpress

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