Effect of depletion of C15ORF48/miR-147 on gene expression in primary colonocytes [colonocytes]
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 3 × WT vs 3 × KOGroups 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
- The epithelial C15ORF48/miR-147-NDUFA4 axis is an essential regulator of gut inflammation, energy metabolism, and the microbiomeProceedings of the National Academy of Sciences of the United States of America · 2024
Read the full summary ↓
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 GSE246492_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 PRJNA1033339 and SRA study SRP468998. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 6 samples.
How we read this: 2 replicated groups read from 12 sample titles; they account for 6 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.
- GSM7869797 WT1 WT
- GSM7869798 WT2 WT
- GSM7869799 WT3 WT
- GSM7869800 WT1-DSS
- GSM7869801 WT2-DSS
- GSM7869802 WT3-DSS
- GSM7869803 KO2 KO
- GSM7869804 KO4 KO
- GSM7869805 KO5 KO
- GSM7869806 KO1-DSS
- GSM7869807 KO2-DSS
- GSM7869808 KO3-DSS
- GSE224948 Effect of depletion of Spi1, Cebpb, and Jun on gene expression during therapy-induced-senescence of primary, murine Eµ-myc;bcl2 B-cell lymphomas 51 samples shares depletion, primary
- GSE269745 Effects of depletion of Irf8 and Mafb on gene expression of adult microglia and CNS border associtated macrophages (CAMs) 44 samples shares depletion
- GSE263106 Effect of muscle-specific Pex5 depletion on gene expression in gastrocnemius muscle 36 samples shares depletion
- GSE202738 Effect of neutrophil depletion on gene expression im macrophages and fibroblasts from mouse lung and skin 25 samples shares depletion
- GSE281340 Effect of depletion of Med23 on gene expression during VSV infection of MEF and BMDM cells. 24 samples shares depletion
- GSE280846 Effects of Trem2 depletion on gene expressions in a mouse photothrombotic stroke model 18 samples shares depletion
- GSE241746 Effect of Zbtb24-depletion on gene expressions during the activation of total splenic B cells 18 samples shares depletion
- GSE232198 Effect of depletion of Gstt1 on gene expression of metastatic derived cell lines [Gstt1 KD in Metastatic Cells] 18 samples shares depletion
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.