Efferct of Vista deficiency on mucosal damage in DSS-induced colitis
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 10 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.
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 GSE231506_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 PRJNA966172 and SRA study SRP435597. 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 10 sample titles: 10 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.
- GSM7286931 Mouse_DSS_vista_WT_VS_KO_colon_3.KO.52A
- GSM7286932 Mouse_DSS_vista_WT_VS_KO_colon_3.KO.93A
- GSM7286933 Mouse_DSS_vista_WT_VS_KO_colon_3.KO.94A
- GSM7286934 Mouse_DSS_vista_WT_VS_KO_colon_3.WT.61A
- GSM7286935 Mouse_DSS_vista_WT_VS_KO_colon_3.WT.67A
- GSM7286936 Mouse_DSS_vista_WT_VS_KO_colon_3.WT.69A
- GSM7986100 Mouse_DSS_vista_WT_VS_KO_colon_3/bam/KO-56A.bam
- GSM7986101 Mouse_DSS_vista_WT_VS_KO_colon_3/bam/KO-91A.bam
- GSM7986102 Mouse_DSS_vista_WT_VS_KO_colon_3/bam/WT-33A.bam
- GSM7986103 Mouse_DSS_vista_WT_VS_KO_colon_3/bam/WT-62A.bam
- GSE264497 Intestinal Epithelial C/EBPβ Deficiency Impairs Colitis-Associated Tumorigenesis by Disrupting CXCL1 /CXCL2/CXCL5-CXCR2-Mediated Neutrophil Infiltration [RNA-seq ] 15 samples shares deficiency, colitis
- GSE299286 Exploring the inhibitory mechanism of DSS-induced ulcerative colitis by Banxia Xiexin Decoctionthrough the combination of serumpharmacochemistry, networkpharmacology, and transcriptomics. 12 samples shares dss-induced, colitis
- GSE281377 Microbiota exposure following DSS-induced colitis promotes Mincle-mediated training of myeloid progenitors 54 samples shares dss-induced, colitis
- GSE230801 Predisposal of Interferon Regulatory Factor 1 Deficiency to Accumulate DNA Damage and Promote Osteoarthritis Development in Cartilage 15 samples shares deficiency, damage
- GSE301604 TRMT6 mitigates susceptibility and progression of DSS-induced colitis multifacetedly via translational regulation 12 samples shares dss-induced, colitis
- GSE243060 Multi-organ Transcriptome Atlas of a Mouse Model of Relative Energy Deficiency in Sport (REDs) 419 samples shares deficiency
- GSE254229 ALS/FTD-linked TBK1 deficiency in microglia induces an aged-like microglial signature and drives social recognition deficits in mice 141 samples shares deficiency
- GSE267786 Impact of SLC15A4, TASL and TASL2(Gm6377) deficiency on endolysosomal TLR7 and TLR9 responses 95 samples shares deficiency
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.