Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNAseq transcriptome analysis of White Blood Cells (WBCs) from individuals with and without trisomy 21 [unstranded]

ABSTRACT: Poly(A)+ RNA extracted from WBCs obtained from chromosome 21 disomic (D21) and trisomic (T21) individuals to identify consistent changes in gene expression across individuals.

ORGANISM(S): Homo sapiens

PROVIDER: GSE128614 | GEO | 2019/09/12

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

RNAseq transcriptome analysis of White Blood Cells (WBCs) from individuals with and without trisomy 21 [stranded]

Project description:Poly(A)+ RNA extracted from WBCs obtained from chromosome 21 disomic (D21) and trisomic (T21) individuals to identify consistent changes in gene expression across individuals.

2019-09-12 | GSE128621 | GEO

Downregulation of Endothelin Receptor B Contributes to Defective B Cell Lymphopoiesis in Trisomy 21 Pluripotent Cells

Project description:Individuals with Trisomy 21 (T21) exhibit numerous hematological abnormalities, including reductions in numbers of circulating B and T lymphocytes. To elucidate molecular mechanisms underlying these phenotypes, we differentiated human isogenic disomic and trisomic pluripotent cells, and observed that trisomic cells showed defects in B cell, but not T, cell differentiation. Global gene expression of differentiated, trisomic B cells revealed reduced expression of genes encoding endothelin signaling components, namely the Endothelin Receptor B (Ednrb), and its ligand Endothelin1 (Edn1).. Depletion of Ednrb mRNA in cord blood CD34+ cells led to defective B cell differentiation, supporting an hypothesis that low expression of Ednrb in T21 contributes to intrinsic lymphoid defects. Further evidence for the role of the Ednrb pathway in B cell differentiation was obtained through CRISPR/Cas9 gene targeting in disomic and trisomic iPS cells. Knockout of Ednrb in both cell backgrounds reduced the capacity for B cell differentiation. Collectively, this work identifies downregulation of Ednrb as a causative factor for impaired B lymphocyte generation in trisomic cells, which may contribute to defects in immune function associated with T21. Furthermore, a novel role for endothelin signaling in regulation of B cell development has been identified.

2018-05-30 | GSE110064 | GEO

Blood cells with trisomy 21 overreact to heat shock stress [PRO-seq]

Project description:Lymphoblastoid cells trisomic for chromosome 21 activate the heat shock response more robustly than disomic cells.

2023-04-21 | GSE173537 | GEO

Blood cells with trisomy 21 overreact to heat shock stress [ATAC-seq]

Project description:Lymphoblastoid cells trisomic for chromosome 21 activate the heat shock response more robustly than disomic cells.

2023-04-21 | GSE173536 | GEO

Genome-wide comparison of trisomy 21 iPSCs and derived isogenic disomy 21 iPSCs.

Project description:Human trisomies can alter cellular phenotypes and produce congenital abnormalities such as Down Syndrome (DS). Here we have generated induced pluripotent stem cells (iPSCs) from DS fibroblasts, and introduced a TKNEO transgene into one copy of chromosome 21 by gene targeting. When selecting against TKNEO, spontaneous chromosome loss was the most common cause for survival, with a frequency of ~10-4, while point mutations, epigenetic silencing, and TKNEO deletions occurred at lower frequencies in this unbiased comparison of inactivating mutations. Mitotic recombination events resulting in extended loss of heterozygosity were not observed in DS iPSCs. The disomic cells that we derived proliferated faster and produced more endothelia in vivo than their otherwise isogenic trisomic counterparts, but hematopoietic differentiation, pluripotency and survival were statistically unchanged. Our study describes the first targeted removal of a human trisomy, which could prove useful in both clinical and research applications. RNA samples were from two trisomic iPSC clone (C2-4, C3-5) and four derived disomic subclones (C2-4-3, C2-4-4 and C3-5-11, C3-5-13). Duplicate RNA samples from human embyonic stem cells (H1) were included as control.

2012-10-23 | E-GEOD-38931 | biostudies-arrayexpress

Cerebral organoid proteomics reveals signatures of dysregulated cortical development associated with human trisomy 21

Project description:This experiment is a label-free multidimensional LC/MS/MS analysis of drug treated cerebral organoids (COs), using Orbitrap Fusion mass spectrometer instrumentation. We generated COs from induced pluripotent stem cells (iPSC) from an individual with DS (female C2-4 line, referred to as T21 hereafter) and an unrelated euploid individual (female H50-1 line, referred to as D21 hereafter). The T21 organoids were treated with the drug harmine. Proteomics was used to identify proteins with differential expression in the harmine treatment and T21 vs euploid comparison.

2017-02-14 | MSV000080549 | MassIVE

Transcriptome analysis by RNA sequencing of human trisomy 21 and normal control blood cells

Project description:The aim of this study is to analyse trisomy 21 (T21) transcriptome. We generated RNA sequencing (RNA-Seq) paired-end data from ribosomal RNA-depleted total RNA isolated from blood cell samples of four T21 and four normal control individuals.

2021-05-04 | GSE151282 | GEO

RNAseq transcriptome analysis of White Blood Cells (WBCs) from individuals with and without trisomy 21 [unstranded]

Project description:RNAseq transcriptome analysis of White Blood Cells (WBCs) from individuals with and without trisomy 21 [unstranded]

| PRJNA528283 | ENA

Translating Dosage Compensation to Trisomy 21

Project description:Down syndrome is a common disorder with enormous medical and social costs, caused by trisomy for Chr21. We tested the concept that gene imbalance across an extra chromosome can be de facto corrected in DS patient stem cells by manipulating a single gene, XIST. Using zinc finger nucleases, we targeted a large, inducible XIST transgene into the Chr21 DYRK1A locus, in DS pluripotent stem cells. XIST RNA coats Chr21 and triggers stable heterochromatin modifications, chromosome-wide transcriptional silencing and DNA methylation to form a “Chr21 Barr Body.” This provides a model to study human chromosome inactivation and creates a system to investigate genomic expression changes and cellular pathologies of trisomy 21, free from genetic and epigenetic noise. In this study, we used microarrays to understand the genome-wide impacts of inducible XIST expression on Chr21 in trisomy 21 human iPS cell lines, and to evaluate the extent of Chr21 silencing trisomic samples versus a disomic male iPS cell line.

2013-07-12 | GSE47014 | GEO

RNAseq from disomic and trisomic fibroblasts and lymphoblastoids

Project description:RNA was sequenced from individuals Disomic and Trisomic for chromosome 21 to identify consistent changes in gene expression across individuals

2016-07-29 | GSE79842 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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