Single Cell Transcriptomics of human carotid artery plaques V2
Single-cell RNA-seq · human · 14 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 14 samples: 7 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Single cell spatial transcriptomics integration deciphers the morphological heterogeneity of atherosclerotic carotid arteriesNature communications · 2025
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE294291_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1248935 and SRA study SRP577978. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 7 replicated groups read from 14 sample titles; they account for 14 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8901824 scSeq_CAR11_Seq1 scSeq_CAR11_Seq
- GSM8901825 scSeq_CAR11_Seq2 scSeq_CAR11_Seq
- GSM8901826 scSeq_CAR12_Seq1 scSeq_CAR12_Seq
- GSM8901827 scSeq_CAR12_Seq2 scSeq_CAR12_Seq
- GSM8901828 scSeq_CAR13_Seq1 scSeq_CAR13_Seq
- GSM8901829 scSeq_CAR13_Seq2 scSeq_CAR13_Seq
- GSM8901830 scSeq_CAR14_Seq1 scSeq_CAR14_Seq
- GSM8901831 scSeq_CAR14_Seq2 scSeq_CAR14_Seq
- GSM8901832 scSeq_CAR15_Seq1 scSeq_CAR15_Seq
- GSM8901833 scSeq_CAR15_Seq2 scSeq_CAR15_Seq
- GSM8901834 scSeq_CAR16_Seq1 scSeq_CAR16_Seq
- GSM8901835 scSeq_CAR16_Seq2 scSeq_CAR16_Seq
- GSM8901836 scSeq_CAR17_Seq1 scSeq_CAR17_Seq
- GSM8901837 scSeq_CAR17_Seq2 scSeq_CAR17_Seq
- GSE294466 Xenium spatial transcriptomics of human carotid artery plaques 32 samples shares carotid, plaques, artery
- GSE253903 High-Dimensional Single-Cell Multimodal Landscape of Human Carotid Atherosclerosis [scRNA-seq] 12 samples shares carotid
- GSE224273 Single-cell immune landscape of human atherosclerotic plaques 9 samples shares plaques
- GSE279783 Autoreactive effector Treg cells with a compromised regulatory program in patients with coronary artery disease 144 samples shares artery
- GSE311133 Transcriptome analysis of human coronary artery smooth muscle cells under pro-differentiation and pro-dedifferentiation treatments 15 samples shares artery
- GSE281541 Adenosine to Inosine RNA editing level in ADAR1-deficient or hypoxia-exposed human pulmonary artery endothelial cells 12 samples shares artery
- GSE287300 Single cell compendium of the muscle microenvironment in peripheral artery disease reveals capillary endothelial heterogeneity and activation of resident macrophages 9 samples shares artery
- GSE310095 Whole Blood Transcriptomics Differentiates Circulating Gene Expression Between Coronary Artery Disease and Peripheral Artery Disease 71 samples shares artery
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.