Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Using ribosome profiling and matched RNA sequencing to study the evolution of gene expression levels in mammalian organs across two major gene expression layers

ABSTRACT: Using ribosome profiling and matched RNA sequencing to study the evolution of gene expression levels in mammalian organs across two major gene expression layers

PROVIDER: PRJEB28810 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR2812330.fastq.gz	Fastqsanger.gz
	ERR2812340.fastq.gz	Fastqsanger.gz
	ERR2812350.fastq.gz	Fastqsanger.gz
	ERR2812360.fastq.gz	Fastqsanger.gz
	ERR2812370.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 132

Similar Datasets

Using ribosome profiling and matched RNA sequencing to study the co-evolution of transcriptome and translatome in mammalian organs

Project description:Ribosome profiling (Ribo-seq) and matched RNA sequencing (RNA-seq) data for three major mammalian organs (brain (cerebrum), liver, and testis) from five representatives of the three main mammalian lineages: human, rhesus macaque, mouse (placental mammals); grey short-tailed opossum (marsupials); and platypus (egg-laying monotremes). Corresponding data were generated for a bird (red junglefowl, the progenitor of domestic chicken; henceforth referred to as “chicken”), to be used as an evolutionary outgroup.

2020-07-23 | E-MTAB-7247 | biostudies-arrayexpress

Gene Expression between two cell layers in maize shoot apical meristem

2013-01-28 | GSE16868 | GEO

Gene Expression between two cell layers in maize shoot apical meristem

Project description:All above ground organs of higher plants are ultimately derived from shoot apical meristems (SAMs). The SAM exhibits distinctive structural organization, and monocot SAMs such as maize are comprised of two cell layers, a single cell layered tunica (L1) and a corpus (L2). Although recent research has revealed roles of these cell layers in the SAM, intra- and inter-cell-layer signaling networks involved in organ development remain largely unknown except for a few differentially expressed genes. Here, we used Illumnia technology to conduct RNA-seq of L1 and L2 cell layers in maize B73 maize shoot apical meristem. Single sequencing library was constructed for L1 and L2 cell layer. Each library was sequenced using 2 lanes on a Solexa flow cell. Processed data file 'ZmB73_4a.53_filtered_genes.fasta' and its README file are linked below as supplementary files. The fasta file contains the gene model ID and corresponding sequence generated from maize genome project. This fasta file was used for the following samples: GSM418173, GSM418174, GSM420173, GSM420174, GSM422828, GSM422829.

2013-01-28 | E-GEOD-16868 | biostudies-arrayexpress

Gene expression profiling in different organs of chickpea

Project description:Gene expression profiling in different organs of chickpea

| PRJNA401922 | ENA

Expression data of E7.5 primary germ layers

Project description:Expression data of E7.5 primary germ layers

| PRJNA438676 | ENA

Gene expression in matched primary and liver metastases

Project description:Gene expression in matched primary and liver metastases

| PRJNA616290 | ENA

The evolution of gene expression levels in mammalian organs

Project description:The evolution of gene expression levels in mammalian organs

| PRJNA143627 | ENA

Gene expression changes after seizure preconditioning in the three major hippocampal cell layers.

Project description:Rodents experience hippocampal damage after status epilepticus (SE) mainly in pyramidal cells while sparing the dentate granule cell layer (DGCL). Hippocampal damage was prevented in rats that had been preconditioned by brief seizures on 2 consecutive days before SE. To identify neuroprotective genes and biochemical pathways changed after preconditioning we compared the effect of preconditioning on gene expression in the CA1 and CA3 pyramidal and DGCLs, harvested by laser capture microscopy. In the DGCL the expression of 632 genes was altered, compared to only 151 and 58 genes in CA1 and CA3 pyramidal cell layers. Most of the differentially expressed genes regulate tissue structure and intra- and extracellular signaling, including neurotransmission. A selective upregulation of energy metabolism transcripts occurred in CA1 pyramidal cells relative to the DGCL. These results reveal a broad transcriptional response of the DGCL to preconditioning, and suggest several mechanisms underlying the neuroprotective effect of preconditioning seizures.

| S-EPMC2295285 | biostudies-literature

Effects of narciclasine treatment on major metabolic organs of C57BL/6 mice

Project description:To test the effects of narciclasine treatment on major metabolic organs of C57BL/6 mice, we first fed the mice with a high fat diet (HFD) then gavaged them with the narciclasine weekly. After 7 weeks of narciclasine treatment, the four major metabolic organs WAT, BAT, Liver and muscle were harvested and the total RNA was prepared for RNA sequencing analysis. By analyzing the RNA-seq data sets, we found that the primary target of this narciclasine is skeletal muscle.

2017-06-12 | GSE63268 | GEO

Laminar gene expression of rat extraocular orbital and global layers

Project description:Adult rat global and orbital layers of rectal extraocular muscles microdissected using Arcturus Pixcell II LCM are gene profiled here using affymetrix rat RAE230A gene chip. www.med.upenn.edu/cellbio/faculty/rubinstein/ www.uphs.upenn.edu/pmi/members/khurana/lab%20page.htm Keywords: ordered

2004-10-12 | GSE1374 | 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