Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A reference model for circulating hematopoietic stem cells with applications to diagnostics

ABSTRACT: A reference model for circulating hematopoietic stem cells with applications to diagnostics

PROVIDER: PRJEB85241 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR14206500_1.fastq.gz	Fastqsanger.gz
	ERR14206500_2.fastq.gz	Fastqsanger.gz
	ERR14206600_1.fastq.gz	Fastqsanger.gz
	ERR14206600_2.fastq.gz	Fastqsanger.gz
	ERR14206700_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 1016

Similar Datasets

A reference model for circulating hematopoietic stem cells with applications to diagnostics

Project description:With aging, deviation of human blood counts from their normal range accompanies the transition from health to hematological and other diseases. Hematopoietic stem and progenitor cells (HSPCs) deliver life-long multi-lineage output, but their variation across healthy humans and their diagnostic utility haven’t been characterized. To address this, we introduce an HSPC reference model using single-cell profiling of circulating CD34+ cells (cHSPCs) from 148 healthy individuals. We characterize physiological cHSPC composition, link it with standard blood counts and show that the ratio between lymphoid and myeloid progenitors is decreased in ageing males. Using this new reference model, we develop sensitive tools which could be used for diagnostics of myelodysplastic syndrome (MDS) from peripheral blood without bone marrow analysis. Profiling cHSPC compositions leads to the discovery of new MDS subclasses, ranging in their lymphocyte, basophil and granulocyte progenitor frequencies. The data and methodologies presented herein highlight the role of reference modeling in promoting clinical applications of single-cell genomics in MDS and in the future for other diseases too. This dataset can be explored as metacells at https://apps.tanaylab.com/MCV/blood_aging (for more about metacells, see https://github.com/tanaylab/metacells and https://doi.org/10.1186/s13059-022-02667-1).

2025-01-06 | GSE285943 | GEO

A reference model for circulating hematopoietic stem cells with applications to diagnostics

Project description:A reference model for circulating hematopoietic stem cells with applications to diagnostics

| PRJNA1207024 | ENA

Customized internal reference controls for improved assessment of circulating microRNAs in disease

Project description:Altered levels of circulating extracellular miRNA in plasma and serum have shown promise as non-invasive biomarkers of disease. However, unlike the assessment of cellular miRNA levels for which there are accepted housekeeping genes, analogous reference controls for normalization of circulating miRNA are lacking. The objective of this study was to devise an approach to both identify and validate circulating miRNA reference controls on a de novo basis, and evaluate the relative performance of these customized internal reference controls versus other strategies. As a case example, 1066 different miRNAs were screened in plasma from pulmonary arterial hypertension patients and control subjects to identify an initial pool of miRNA candidates.

2015-04-28 | GSE68314 | GEO

BLADE-R: streamlined RNA extraction for molecular diagnostics and high-throughput applications.

Project description:BLADE-R: streamlined RNA extraction for molecular diagnostics and high-throughput applications.

| PRJNA1165700 | ENA

Circulating Hematopoietic Stem/Progenitor Cell subsets contribute to human hematopoietic homeostasis

Project description:Circulating Hematopoietic Stem/Progenitor Cell subsets contribute to human hematopoietic homeostasis

| PRJNA1065878 | ENA

Customized internal reference controls for improved assessment of circulating microRNAs in disease

2015-04-28 | E-GEOD-68314 | biostudies-arrayexpress

Circulating Hematopoietic Stem/Progenitor Cell subsets contribute to human hematopoietic homeostasis

Project description:In physiological conditions, few circulating hematopoietic stem/progenitor cells (cHSPC) are present in peripheral blood (PB) and their role remain unsolved. By integrating advanced immunophenotyping, high-throughput transcriptome profiling and functional assays we characterized the biological properties of human cHSPC. We found distinct composition but comparable bone marrow (BM) homing and differentiation potential after xenotransplantation of cHSPC with respect to their BM counterpart. Trafficking HSPC are in a low-cycling pre-activated state with primitive and committed progenitors being transcriptionally and functionally skewed towards erythroid differentiation. Moreover, a subset of circulating lymphoid progenitors are primed for seeding lymphoid organs and can actively contribute to T-cell production in patients treated with gene therapy. In case of hematopoietic impairment, cHSPC content and composition correlate with BM-HSPC state. Altogether, our data unveiled the cHSPC contribution to steady-state hematopoiesis, with a key function in sustaining extramedullary lympho- and erythro-poiesis, and supported their clinical exploitation as biomarker for BM-HSPC.

2024-03-26 | GSE253485 | GEO

Transcriptome Study of CD34+ hematopoietic progenitor from patients reached of Primary Myelofibrosis

Project description:An increased number of circulating CD34+ hematopoietic progenitors (HP) and a prominent amplification of dystrophic megakaryocytes (MK) are observed in PMF patients. As transcriptome data from CD34+ hematopoietic progenitors showed modulations of FLT3 and MAP kinase expression independently of the JAK2V617F mutation status Transcriptome analysis was performed on circulating CD34+ cells from PMF patients using Agilent 22K microarray and compared to CD34+ cells from blood and bone marrow from un-mobilized healthy donors. Indirect map: each tested sample was hybridzed with reference probe

2008-07-29 | E-GEOD-12234 | biostudies-arrayexpress

Comparative genomic hybridization of Bordetella pertussis clinical isolates circulating in areas of intensive children vaccination and a reference strain

Project description:Genomic content of Bordetella pertussis clinical isolates circulating in areas of intensive children vaccination. 13 isolates and one reference strain of Bordetella pertussis used.

2008-10-01 | E-MEXP-1322 | biostudies-arrayexpress

Biomarkers for the Early Diagnosis, Prediction, Prognosis for Colorectal Cancers

Project description:Recent basic and clinical research on the circulating tumor cells (CTCs) in CRC patients takes potential diagnostics, prognostics, and applications into consideration, especially the molecular detection of CTCs in peripheral blood. Moreover, identification of therapeutic targets on CTCs and real-time monitoring of CTCs in cancer patients undergoing systemic therapy are the most important future clinical applications. CTCs measures may be useful to guide change in treatment decisions.

| 2142924 | ecrin-mdr-crc

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