Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Primitive erythroid and myeloid progenitors in mouse embryos

ABSTRACT: We undertook single-nucleus RNA sequencing to analyze primitive hematopoietic progenitors that circulate in embryonic mouse heart tubes at E10.5.

INSTRUMENT(S): Bioanalyzer 2200, NA, Illumina NovaSeq 6000, Chromium Controller

ORGANISM(S): Mus musculus

SUBMITTER: Yong Zhou

PROVIDER: E-MTAB-14480 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

sn-RNAseq of cells from wide-type embryonic hearts and Emp2-/- ones

Project description:We undertook single-nucleus RNA sequencing analysis using cells from WT embryonic mouse hearts and Emp2-/- hearts at E10.5.

2026-07-31 | E-MTAB-14376 | biostudies-arrayexpress

scRNA-seq of PD-1/CTLA4 double-positive and double-negative CD4+ T cells from HIV patients and healthy controls

Project description:scRNA-seq was performed and data generated to examine the transcriptomic differences between PD-1/CTLA4 double-positive and double-negative CD4+ T cells in HIV patients.

2022-08-24 | E-MTAB-12039 | biostudies-arrayexpress

scRNA-Seq analysis of differentiation to primitive streak fate of mouse embryonic stem cells

Project description:scRNA-Seq analysis of differentiation to primitive streak fate of mouse embryonic stem cells

2022-01-20 | E-MTAB-10243 | biostudies-arrayexpress

GBM-Space: Joint Transcriptome and Chromatin Accessibility Profiling of Glioblastoma (10x Genomics - Multiome)

Project description:Cancer cells display highly heterogeneous and plastic states in glioblastoma, an incurable brain tumour. However, how these malignant states arise and whether they follow defined cellular trajectories across tumours is poorly understood. Here, we generated a deep single cell and spatial multi-omic atlas of human glioblastoma that pairs transcriptomic, epigenomic and genomic profiling of 12 tumours across multiple regions. Please cite De Jong et al., bioRxiv 2025 upon use. This submission contains the Cell Ranger ARC processed outputs from single nuclei joint transcriptome- and chromatin accessibility-sequencing (10x Genomics) for each multiome reaction generated as part of the GBM-space atlas. See README_cellranger_arc.md We also provide processed and annotated 10x multiome snRNA-seq and snATAC-seq objects across the dataset. See GBM_space_snRNA_README.md and GBM_space_ATAC_filtered_peaks_README.md respectively. Finally, we provide metacell-level aggregated snRNA-seq expression and snATAC-seq gene-activity scores derived from our GBM-space atlas, used for the epigenetic plasticity analysis in Saraswat M et al., bioRxiv 2025. See README_metacell.md.

2026-09-12 | E-MTAB-17183 | biostudies-arrayexpress

A high-resolution single-cell multiomic atlas of the human fetal lung - scRNA / GEX / VDJ

Project description:We obtained human embryonic and fetal lungs from 5-22 pcw for scRNAseq and scATACseq analysis. To focus on epithelial differentiation and region specialization, we deeply sampled 15, 18, 20 and 22 pcw lungs and separated proximal and distal regions while leaving lungs at 5, 6, 9 and 11 pcw intact. These cell samples (except for one at 6pcw) were split and processed for both scRNAseq and scATACseq.

2022-01-27 | E-MTAB-11278 | biostudies-arrayexpress

Characterization of aldosterone-producing cell cluster (APCC) at single-cell resolution

Project description:Single-cell RNA sequencing of two human adrenal glands (obtained from renal cell carcinoma and pheochromocytoma cases) was performed to characterize the gene expression profile of aldosterone-producing cell clusters.

2022-07-04 | E-MTAB-11837 | biostudies-arrayexpress

Single-nucleus ATAC sequencing of human fetal lung from 4 anatomic regions

Project description:We performed micro-dissections of developing human lungs during the late pseudoglandular stage and performed single nuclear ATAC-sequencing (n = 2; biological replicates from 103-122 PCD) on trachea, bronchi, non-cartilaginous airways, and distal lung.

2026-07-18 | E-MTAB-17243 | biostudies-arrayexpress

Single cell RNA-seq of hiPSC-derived kidney organoids differentiated within self-assembling peptide hydrogels and the animal-derived matrix Matrigel

Project description:scRNA-seq was used to characterise hiPSC-derived kidney organoids differentiated within fully synthetic self-assembling peptide hydrogels of variable mechanical strengths and compare these to organoids differentiated within the animal-derived matrix, Matrigel. Organoids were matured in the respective matrices until day 24 of differentiation and 6 organoids per support matrix were then pooled and dissociated using the cold-active protease from Bacillus licheniformis. Cells were processed on the 10x Genomics Chromium platform using the Single-Cell 3’ v3.1 protocol. The NextSeq500 (Illumina) was used to sequence the libraries generated and initial processing of the data was carried out using the 10X Genomic Cell Ranger v3.1.0 pipeline.

2022-10-31 | E-MTAB-11149 | biostudies-arrayexpress

RNA-seq of HLA-A2 restricted human CD8+ T cells against SARS-CoV-2 from 11 COVID-19 patients

Project description:A cryovial that contains frozen PBMCs (10^6 cells/vial) from each of 11 COVID-19 patients was thawed in 37oC water bath. Immediately after, thawed cells were transferred to 15-mL Falcon tube that contained 10 mL of cold culture medium. After centrifugation at 150g for 5 min, the cell pellets were resuspended in complete RPMI + 10% heat-inactivated FCS medium and plated onto 12-well plate at a concentration of 5 x 10^6 cells/3 mL/well. Then a peptide cocktail was added at a concentration of 5 μg/mL for 16hr in 5% CO2 37oC incubator. After 16-hour incubation, cells were washed 3 times and incubated for 10 minutes with Fc receptor block, following each sample was stained with a total of 6 HLA-A2+/peptide fluorescent tetramer (Tet) and pentamer (Pent) for 10 min. After cell washing at twice, each sample was stained with cell hashing antibodies for 20 min, respectively and then washed at three times and finally pooled. The combined cells were stained with CITE-seq and anti-human CD8 FACS antibody for 30 minutes. After cell washing at twice, viable HLA-A2+/peptide Tet/Pent positive CD8+ T cells were sorted by FACS Aria II. The scRNA-Seq libraries including GEX and CITE-seq libraries were prepared using the 10x Chromium single-cell 3’ reagent kits (v3.1 Chemistry), per manufacturer’s instructions. As a result, we have 2 separate groups of the single cell datasets. MKH datasets (MKH_GEX_... and MKH_FB...) contain RNA-seq outcomes of HLA-A2 restricted human CD8+ T cells against SARS-CoV-2 from 5 COVID-19 patients. MKK datasets contain RNA-seq outcomes of HLA-A2 restricted human CD8+ T cells against SARS-CoV-2 from 6 COVID-19 patients. Cell hashing and CITE-seq antibody information is available in the csv files.

2025-12-01 | E-MTAB-14727 | biostudies-arrayexpress

Single cell sequencing of PBMC from childhood ITP patients with transient or chronic disease course

Project description:To compare PMBC scRNA-seq results of chronic (cases) vs transient (controls) ITP, including scTCR- and sc-BCR-seq.

2025-06-30 | E-MTAB-14364 | biostudies-arrayexpress