Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Quantification of intrinsic regulatory factors refines human hematopoietic progenitor definitions and reveals early erythroid lineage priming

ABSTRACT: Quantification of intrinsic regulatory factors refines human hematopoietic progenitor definitions and reveals early erythroid lineage priming

PROVIDER: PRJNA1006753 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR25693402_1.fastq.gz	Fastqsanger.gz
	SRR25693402_2.fastq.gz	Fastqsanger.gz
	SRR25693403_1.fastq.gz	Fastqsanger.gz
	SRR25693403_2.fastq.gz	Fastqsanger.gz
	SRR25693404_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Quantification of intrinsic regulatory factors refines human hematopoietic progenitor definitions and reveals early erythroid lineage priming

Project description:Hematopoietic stem and progenitor cell (HSPC) transplantation is an essential therapy for the treatment of hematological conditions, but finer definitions of human HSPC subsets with associated function could enable better tuning of grafts and more routine application in patients with lower risks. To deeply characterize human HSPCs, we quantified 41 surface proteins and functional regulators on millions of CD34+ and CD34- cells, spanning four primary human hematopoietic tissues: bone marrow, mobilized peripheral blood, cord blood, and fetal liver. We propose more granular definitions of HSPC subsets and provide new, detailed differentiation trajectories of erythroid and myeloid lineages. These aspects of our revised human hematopoietic model were validated with corresponding epigenetic analysis and in vitro clonal differentiation assays. Overall, we demonstrate the utility of using molecular regulators as surrogates for cellular identity and functional potential, providing a framework for description, prospective isolation, and cross-tissue comparison of HSPCs in humans.

2023-08-20 | GSE241229 | GEO

Priming

Project description:Priming

2025-05-29 | OEX00014296 | NODE

MHCquant2 refines immunopeptidomics tumor antigen discovery

Project description:The identification of human leukocyte antigen (HLA)-presented peptides as targets of anti-cancer T cell response is pivotal for the development of novel immunotherapies. Mass spectrometry (MS)-based immunopeptidomics enables the detection of these peptides, yet confident identifications and thus implementation in immunotherapy design are hampered by the high diversity and low abundance of naturally presented HLA peptides. Here, we introduce MHCquant2, a Nextflow-based open-source pipeline that leverages OpenMS tools and peptide property predictors (DeepLC, MS2PIP) for highly sensitive and scalable HLA peptide identification and quantification across various MS platforms. MHCquant2 increased peptide identifications up to 27% with significant expansion of low-abundant peptides, outperforming state-of-the-art pipelines. Using MHCquant2 we build a comprehensive benign tissue repository comprising re-analyzed data from available benign immunopeptidomes and a novel benignMHCquant2 dataset, adding more than 160,000 novel naturally presented HLA peptides. First applications of this benign repository and the MHCquant2 pipeline enabled (i) the refinement of tumor-associated antigens, (ii) as well as the detection of novel, high-frequent tumor-exclusive peptide antigens for multiple tumor entities, and (iii) the identification and quantification of mutation-derived low-abundant neoepitopes. MHCquant2 refines tumor antigen discovery in immunopeptidomics, paving the way for the implementation of off-the-shelf and personalized immunotherapy design.

2025-08-22 | PXD058436 | Pride

o Exploring dynamics of pre-germinative metabolism in Medicago truncatula seeds during priming, dry-back, and post-priming imbibition using proteomics

Project description:o The dramatic impact of climate change poses a demanding challenge: the need to enhance seed quality by designing tailored seed priming protocols. Proteomics can provide a comprehensive picture of the molecular players behind the seed response to priming. Using label-free protein quantification with mass spectrometry, changes in the seed proteome of the model legume Medicago truncatula were investigated along the rehydration-dehydration cycle of a standard vigorization treatment (hydropriming plus dry-back) and during post-priming imbibition.

2023-07-10 | PXD031336 | Pride

MAE-seq refines regulatory elements across the genome

Project description:MAE-seq refines regulatory elements across the genome

| PRJNA796352 | ENA

Imbalanced TGF-beta signalling and autophagy drive erythroid priming of hematopoietic stem cells in Beta-thalassemia

Project description:Imbalanced TGF-beta signalling and autophagy drive erythroid priming of hematopoietic stem cells in Beta-thalassemia

| PRJNA1096683 | ENA

Deep proteomic analysis of murine erythroid differentiation

Project description:Erythropoiesis is a tightly controlled process. Although human and murine erythropoiesis are grossly similar, several aspects of these processes present significant differences. We have performed a label free quantification of proteins expressed during murine erythroid differentiation of primary cells with the aim to compare human and murine differentiations. Furthermore, we also analyzed the proteome of three murine cell lines, MEDEP, G1ER and Friend cells, to determine their similarities with the proteome of primary cells.

2020-05-26 | PXD009384 | Pride

A receptor kinase complex refines cambium activity in Arabidopsis

Project description:A receptor kinase complex refines cambium activity in Arabidopsis

| PRJEB102508 | ENA

Impact on erythroid progenitor type on erythroid differntiation

Project description:Impact on erythroid progenitor type on erythroid differntiation

| PRJNA515507 | ENA

Absolute quantification of miRNAs

Project description:Absolute quantification of miRNAs

| PRJNA116765 | ENA