Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression profile at single cell level of peripheral blood mononuclear cells (PBMCs) from 17 healthy donor

ABSTRACT: Quantifying aging rate is important for evaluating age-associated decline and mortality. Here we generate a similar dataset for a reference 17-sample aging cohort to compute a single cell level aging clock. The cell type annotations are available in https://doi.org/10.6084/m9.figshare.23789844.v1.

ORGANISM(S): Homo sapiens

PROVIDER: GSE213516 | GEO | 2023/06/29

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Deciphering cell states and genealogies of human hematopoiesis with single-cell multi-omics

Project description:This SuperSeries is composed of the SubSeries listed below. The main processed data are organized in the following two Figshare links: Seurat objects: https://doi.org/10.6084/m9.figshare.23290004 ReDeeM-V output: https://doi.org/10.6084/m9.figshare.24418966.v1

2023-11-18 | GSE219015 | GEO

Zhang2020 - Draft metabolic reconstruction model of Atlantic cod liver generated from gadMorTrinity and iHepatocyte2322

Project description:This is an auto-generated model with COBRA Matlab toolbox. The gadMorTrinigy de novo Trinity transcript assembly and peptide sequences are available at https://doi.org/10.6084/m9.figshare.c.5168303.v2

2020-10-26 | MODEL2010090002 | BioModels

Single-cell analysis of human dermal fibroblasts isolated from a single male donor over 35 years

Project description:Background: Skin homeostasis is mediated by dermal fibroblasts and is affected by aging. Although age-related heterogeneity in fibroblasts has been reported, the effects of donor and species on this heterogeneity are unclear. Methods: To analyze age-related transcriptomic changes in human dermal fibroblasts, single-cell RNA sequencing was performed on dermal fibroblasts (ASF-4 cells) collected from the inner forearm of a volunteer over three decades. Results: Four main cell subpopulations changed with donor age and showed proliferative, homeostasis, fibrotic, and senescence functional annotations. The downregulation of the expression of genes encoding key extracellular matrix production and mechanotransduction components decreased with donor age. Interestingly, dermal fibroblasts have two putative differentiation pathways: one that involves the acquisition of senescent properties and the acquisition of fibrotic properties without the suppression of proliferation. Aging induced fibroblast differentiation in a manner involving the acquisition of senescent properties. Conclusion:Reconciling the various aspects of fibroblast heterogeneity may provide insight into the mechanisms underlying human skin aging and associated phenomena, including wrinkles, sagging, delayed wound healing, and suppressed scar formation.

2023-09-21 | GSE203034 | GEO

A mesenchymal stromal cell gene signature for donor age

Project description:Human aging is associated with loss of function and regenerative capacity. Human bone marrow derived mesenchymal stromal cells (hMSCs) are involved in tissue regeneration, evidenced by their capacity to differentiate into several lineages and therefore are considered the gold standard for cell-based regeneration therapy. Tissue maintenance and regeneration is dependent on stem cells and declines with age and aging is thought to influence therapeutic efficacy, therefore, more insight in the process of aging of hMSCs is of high interest. We, therefore, hypothesized that hMSCs might reflect signs of aging. In order to find markers for donor age, early passage hMSCs were isolated from bone marrow of 61 donors, with ages varying from 17-84, and clinical parameters, in vitro characteristics and microarray analysis were assessed. Although clinical parameters and in vitro performance did not yield reliable markers for aging since large donor variations were present, genome-wide microarray analysis resulted in a considerable list of genes correlating with human age. By comparing the transcriptional profile of aging in human with the one from rat, we discovered follistatin as a common marker for aging in both species. The gene signature presented here could be a useful tool for drug testing to rejuvenate hMSCs or for the selection of more potent, hMSCs for cell-based therapy. We used microaray gene expression profiling to find expressed genes that correlated with the donor age of bone-marrow derived mesenchymal stromal cells (hMSCs) Human mesenchymal stem cells (hMSC) were biopsied from bone marrow from 61 different donors aging from 17 - 89 years old. The genome wide expression profiles was assessed using Affymetrix microarrays. The expression of genes was correlated with the age of the donors.

2012-07-20 | E-GEOD-39540 | biostudies-arrayexpress

Mass spectrometry imaging (MSI) combined with LC-MS/MS data from head and neck squamous cell carcinoma (HNSCC) xenograft samples to map peptide information

Project description:Mass spectrometry imaging (MSI) was used to investigate different tumors regions from five head and neck squamous cell carcinoma (HNSCC) xenograft samples of tumor model CAL33. Specifically, the authors investigated if measurements could be attributed to tumor hypoxia. Hypoxic regions were defined using consecutive tissue slices which were stained with anti-pimonidazole polyclonal antibody. M/z values which were associated to hypoxic regions were converted to masses and mapped with masses from LC-MS/MS experiment. LC-MS/MS experiment was carried out on three different HNSCC xenografts samples from the same tumor model (CAL33).For details see: https://doi.org/10.21203/rs.3.rs-3755587/v1

2024-02-28 | PXD047820 | Pride

Project description:Deep sequencing for quantifying transposon landscape changes during fly aging

| PRJNA678741 | ENA

A mesenchymal stromal cell gene signature for donor age

2012-07-21 | GSE39540 | GEO

5e2e282b-6e6a-425a-94a1-e830f617eadd - samples

Project description:Shallow targeted sequencing with 462 mRNA and 97 antibodies of AML patientÃ¢Â€Â™s bone marrow mononuclear cells from iliac crest aspirations from. Please note raw and integrated gene expression data, cell type annotation, metadata and dimensionality reduction are available as Seurat v3 objects through figshare. Access link is https://doi.org/10.6084/m9.figshare.14780127.v1 AMLQ4_SMK1 AML314 male AMLQ1_SMK2 AML116 female AMLQ3_SMK3 AML127 female AMLQ6_SMK4 AML183 male AMLQ2_SMK5 AML327 female AMLQ5_SMK6 AML334 male APLQ5_SMK7 APL124 male APLQ3_SMK8 APL142 male APLQ6_SMK9 APL218 female APLQ4_SMK10 APL147 male APLQ2_SMK11 APL223 female APLQ1_SMK12 APL224 female

| EGAD00001008185 | EGA

Innovations in primate interneuron repertoire

Project description:We report single-nucleus transcriptomes from brain regions in 5 species: mice: Frontal Cortex, V1, Hippocampus, Striatum; common marmoset: 7 neocortical regions, Hippocampus, Striatum (Nucleus Accumbens, Caudate, Putamen); rhesus macaque: Prefrontal Cortex, V1; human: Prefrontal Cortex, V1, Striatum (Caudate); ferret: Prefrontal Cortex, V1, Striatum

2020-06-04 | GSE151761 | GEO

B2 and B3 Raf-like protein kinases activate SnRK2s and are essential for abscisic acid signaling

Project description:m9 was identified to function in ABA signaling pathway and we applied RNAseq assay to identify ABA induced and repressed genes in m9

2021-03-24 | GSE152691 | 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