Endothelial-to-mesenchymal transition contributes to accelerated atherosclerosis in Hutchinson–Gilford progeria syndrome
RNA-seq (gene expression) · mouse · 14 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 14 samples: 14 samples, each with a distinct title — no replicated groupsGroups 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
- Endothelial-to-Mesenchymal Transition Contributes to Accelerated Atherosclerosis in Hutchinson-Gilford Progeria SyndromeCirculation · 2024
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 GSE269166_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1120035 and SRA study SRP511693. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 14 sample titles: 14 distinct titles with little repetition. 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.
- GSM8307392 Apoe-/-LmnaLCS/LCS_pool 1 (lamin C only control)
- GSM8307393 Apoe-/-LmnaLCS/LCS_pool 2 (lamin C only control)
- GSM8307394 Apoe-/-LmnaLCS/LCS_pool 3 (lamin C only control)
- GSM8307395 Apoe-/-LmnaLCS/LCS_pool 4 (lamin C only control)
- GSM8307396 Apoe-/-LmnaLCS/LCS SM22Cre_pool 1 (VSMC-specific progerin expression)
- GSM8307397 Apoe-/-LmnaLCS/LCS SM22Cre_pool 2 (VSMC-specific progerin expression)
- GSM8307398 Apoe-/-LmnaLCS/LCS SM22Cre_pool 3 (VSMC-specific progerin expression)
- GSM8307399 Apoe-/-Lmna+/+_pool 1 (wild-type control)
- GSM8307400 Apoe-/-Lmna+/+_pool 2 (wild-type control)
- GSM8307401 Apoe-/-Lmna+/+_pool 3 (wild-type control)
- GSM8307402 Apoe-/-Lmna+/+_pool 4 (wild-type control)
- GSM8307403 Apoe-/-LmnaG609G/G609G_pool 1 (ubiquitous progerin expression)
- GSM8307404 Apoe-/-LmnaG609G/G609G_pool 2 (ubiquitous progerin expression)
- GSM8307405 Apoe-/-LmnaG609G/G609G_pool 3 (ubiquitous progerin expression)
- GSE330229 Accelerated RNA polymerase II elongation drives endothelial transition and plaque vulnerability: pharmacological targeting of the super elongation complex [RNA-seq] 24 samples shares accelerated, transition
- GSE299090 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [RNA-seq] 21 samples shares contributes, transition
- GSE246928 Endothelial RNF20 Suppresses Endothelial-to-Mesenchymal Transition and Safeguards Physiological Angiocrine Signaling to Prevent Congenital Heart Disease 12 samples shares endothelial-to-mesenchymal, transition
- GSE329653 Flow induced-endothelial phenotypic transition contributes to Intracranial Aneurysm 9 samples shares contributes, transition
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares contributes, transition
- GSE301899 mTOR signaling contributes to system-driven rhythmic gene expression in mouse liver 282 samples shares contributes
- GSE307881 Mouse Offspring Conceived by In Vitro Fertilization Exhibit Accelerated Reproductive Aging Through Early Ovarian Failure 151 samples shares accelerated
- GSE239602 Single-cell and spatial transcriptomics uncovers the role of senescent vascular cells in pathological arterial remodeling during murine atherosclerosis 82 samples shares atherosclerosis
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.