Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Sheep RNA isoform analysis for growth traits using ISO-Seq (HiFi)

PROVIDER: PRJEB59757 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR10860000.fastq.gz	Fastqsanger.gz
	ERR10860001.fastq.gz	Fastqsanger.gz
	ERR10860002.fastq.gz	Fastqsanger.gz
	ERR10860003.fastq.gz	Fastqsanger.gz
	ERR10859992.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Project description:Sheep transcriptome analysis for growth traits

| PRJEB52253 | ENA

Project description:Bighorn Sheep Iso-Seq and RNA-Seq data

| PRJNA1162453 | ENA

Project description:Isoform sequencing (Iso-Seq) analysis of Nile tilapia gonad

| PRJNA867512 | ENA

Reference Short-Read Transcriptomes of Human Peripheral Blood Lymphocytes (Illumina RNA-Seq, Matched to PacBio Iso-Seq Data)

Project description:Long-read sequencing technologies such as Iso-Seq (PacBio Inc.) generate highly accurate sequences of full-length mRNA transcript isoforms. Long-read transcriptomics may be especially useful in the context of lymphocyte functional plasticity as it relates to human health and disease. However, no long-read isoform-aware reference transcriptomes of human circulating lymphocytes seem to be publicly available despite being valuable as benchmarks in a variety of transcriptomic studies. To begin to fill this gap, we purified four lymphocyte subsets (CD4 T, CD8 T, NK, and Pan B cells) from the peripheral blood of a healthy male donor and obtained high-quality RNA (RIN>8) for PacBio Iso-Seq analysis and parallel RNA-Seq analysis.

2022-09-16 | GSE202328 | GEO

Reference Long-Read Transcriptomes of Human Peripheral Blood Lymphocytes (PacBio Iso-Seq, Matched to Illumina RNA-Seq Data)

2022-09-16 | GSE202327 | GEO

Genome-wide association studies for sheep growth and meat production traits using Illumina OvineSNP50 BeadChip

Project description:Mear prodution is the most important trait for sheep. In this study, we performed a Genome-wide association study (GWAS) by using Illumina Ovine SNP50 BeadChip in 329 purebred sheep phenotyped for 11 growth and meat production traits (birth weight, weaning weight, 6-month weight, eye muscle area, fat thickness, pre-weaning gain, post-weaning gain, daily weight gain, height at withers , chest girth and shin circumference). A total of 319 sheep and 48,198 SNPs were fitted using TASSEL 3.0 software as random effects in a mixed linear model. 36 chromosome-wise significant SNPs were identified for 7 traits and 10 of them reached genome-wide significance level consistently for post-weaning gain. Gene annotation was implemented based on the latest version3.1 ovine genome sequence (released October 2012), and meanwhile we referenced genomic information of human, bovine, mouse and rat. More than one-third SNPs (14 out of 36) were located within ovine genes , some other were located close to ovine genes (878bp-398165bp apart). 329 sheep DNA were scanned using OvineSNP50 Beadchip and the association is done between the SNP data and 11 different meat prodution traits

2015-05-01 | E-GEOD-46231 | biostudies-arrayexpress

Project description:isoform sequencing (Iso-Seq) of silver carp

| PRJNA705843 | ENA

T cell receptor-induced alternative splicing of MALT1 affects T cell signaling and effector cell differentiation

Project description:MALT1 is an essential component of the T cell receptor (TCR)-induced T cell activation pathway. Two alternative splice isoforms of MALT1 (ISO A and ISO B) are conserved within vertebrae, which differ in the presence of exon 7 (MALT1 ISO A). We show by isoform-specific reconstitution of MALT1-deficient CD4-positive T cells that MALT1 ISO A mediates additional functions in T cell activation. Transcriptome-wide analysis revealed a distinct subset of genes specifically upregulated in presence of exon 7.

2024-12-01 | GSE40596 | GEO

XAP5 CIRCADIAN TIMEKEEPER regulates RNA splicing and the circadian clock by genetically separable pathways

Project description:Regulators of post-transcriptional events, such as pre-mRNA splicing factors, are involved in controlling the pace of the circadian clock. However, in most cases the underlying mechanisms remain unclear. Previously, we have identified XAP5 CIRCADIAN TIMEKEEPER (XCT) as an Arabidopsis thaliana circadian clock regulator with uncharacterized molecular functions. To investigate a possible role for XCT in RNA splicing, we performed PacBio Isoform Sequencing (Iso-Seq) on wild-type Col-0, reduction-of-function allele xct-1, null allele xct-2, the complemented line xct-2 XCT and prl1-2 (a mutate with known defects in intron retention). We then performed differential splicing analysis on the Iso-Seq data using JunctionSeq R package. Our results indicate that xct mutants have transcriptome-wide pre-mRNA splicing defects, predominantly aberrant 3’ splice site selection. Expression of a genomic copy of XCT fully rescues those splicing defects.

2023-04-01 | GSE220902 | GEO

Genome-wide association studies for sheep growth and meat production traits using Illumina OvineSNP50 BeadChip

2015-05-01 | GSE46231 | GEO