Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Nuclear and cellular expression data from the whole 16-cell stage Arabidopsis thaliana embryo and a cell type-specific expression atlas of the early Arabidopsis embryo

ABSTRACT: Nuclear and cellular expression data from the whole 16-cell stage Arabidopsis thaliana embryo and a cell type-specific expression atlas of the early Arabidopsis embryo

PROVIDER: PRJNA350269 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Nuclear and cellular expression data from the whole 16-cell stage Arabidopsis thaliana embryo and a cell type-specific expression atlas of the early Arabidopsis embryo

Project description:SuperSeries contain expression data from the nuclei of cell types involved in patterning events, with focus on root apical stem cell formation, at 16-cell stage, early globular stage and late globular stage in the early Arabidopsis embryo (atlas). Expression data comparing nuclear and cellular RNA isolated from whole 16-cell stage Arabidopsis embryos is also included. This SuperSeries is composed of the SubSeries listed below.

2017-11-06 | GSE89101 | GEO

Nuclear and cellular expression data from the whole 16-cell stage Arabidopsis thaliana embryo

Project description:Due to its inaccessibility, transgenic methods have been recently developed to isolate tissue- or cell-specific nuclear RNA from the Arabidopsis embryo for transcriptomic profiling. While these approaches have made the it possible to conduct transcriptomic studies at the cellular level, only nuclear and not whole celluar RNA can be isolated. The question thus arrises if nuclear RNA is a reasonable proxy for whole cellular mRNA. To answer this, microarray-based transcriptomic profiling was used to determine genome-wide expression in nuclei and cells isolated from whole 16-cell stage Arabidopsis embryos.

2017-11-06 | GSE89098 | GEO

Expression data from Arabidopsis globular stage embryo regions

Project description:We collected Arabidopsis globular stage embryo proper and suspensor from 5 or 7-micro paraffin sections using the Lecia LMD6000 system in order to identify the mRNAs present in different embryo regions.

2019-08-06 | GSE135393 | GEO

Cell type-specific expression atlas of the early Arabidopsis thaliana embryo

Project description:The establishement of the first plant tissues occurs during embryo development. Indeed, cell types that will form the Arabidopsis root stem cell niche are first specified during 16-cell (16C), early globular (EG) and late globular (LG) stage of embryonic development. While some regulatory factors are known, we do not yet understand the genetic networks underlying the specification of these cell types. One main reason for this is the difficulties in adapting genome-wide approaches to the cellular level. Here, we have adapted such an approach (INTACT) to generate microarray-based cell type-specific transcriptomic profiles at 16C to LG stage for use in determining the role of the transcriptome in cell specification and differentiation during root stem cell niche formation.

2017-11-06 | GSE89100 | GEO

Single-cell RNA-seq of the 16-cell stage Ciona embryo

Project description:Single-cell RNA-seq of the 16-cell stage Ciona embryo

| PRJEB22925 | ENA

Gene Expression Atlas of Embryo Development in Arabidopsis

Project description:Gene Expression Atlas of Embryo Development in Arabidopsis

| PRJNA507243 | ENA

Expression data from Arabidopsis globular stage embryo regions

Project description:Expression data from Arabidopsis globular stage embryo regions

| PRJNA558733 | ENA

Gata.a, Tcf7 and Zic-r.a ChIP-chip analysis in Ciona intestinalis embryo (16-cell stage)

Project description:DNA binding profiles of three maternal factors (Tcf7, Gata.a and Zic-r.a) in chordate 16-cell stage embryo. 16-cell stage ciona intestinalis embryos were collected from multiple batches and the extracted chromatin was immunoprecipitated by the antibodies which specifically recognize ciona Gata.a, Tcf7 and Zic-r.a, respectively.

2016-04-22 | GSE70902 | GEO

Single-cell RNA-seq of the 16-cell stage Ciona embryo

Project description:Ciona develops according to a stereotyped or invariant lineage. This allowed us to collect precisely defined replicates of all eight blastomeres of the right half of the embryo at the 16-cell stage of Ciona. We manually dissected each embryo, collecting and identifying each cell before library preparation and single-cell RNA-seq to give us a data set of 8 blastomeres x 4 embryos (32 cells). We sequenced these on MiSeq and HiSeq 2500. A fifth embryo was only sequenced on MiSeq and excluded from subsequent analysis.

2020-03-06 | E-MTAB-6117 | biostudies-arrayexpress

scRNA-seq 8- to 16-cell stage bovine embryo

Project description:we analysed the transcriptome of bovine embryo during the major Embryonic Gene Activation (EGA) in cows. We did it at a single cell level to investigate if the cell are heterogeneous and to check if early specification events take place already at this stage.

2018-03-14 | GSE99210 | 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