RNA-seq profiling of wild type and Trim33-/- splenic dendritic cells
RNA-seq (gene expression) · mouse · 16 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
- 16 samples: 6 conditions, mostly in triplicateGroups 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
- TRIM33 plays a critical role in regulating dendritic cell differentiation and homeostasis by modulating Irf8 and Bcl2l11 transcriptionCellular & molecular immunology · 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 GSE193183_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 PRJNA795190 and SRA study SRP353834. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 6 replicated groups read from 16 sample titles; they account for 16 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.
- GSM5776074 WT_pDC_1 WT_pDC
- GSM5776075 WT_pDC_2 WT_pDC
- GSM5776076 WT_pDC_3 WT_pDC
- GSM5776077 KO_pDC_1 KO_pDC
- GSM5776078 KO_pDC_2 KO_pDC
- GSM5776079 KO_pDC_3 KO_pDC
- GSM5776080 WT_cDC1_1 WT_cDC1
- GSM5776081 WT_cDC1_2 WT_cDC1
- GSM5776082 KO_cDC1_1 KO_cDC1
- GSM5776083 KO_cDC1_2 KO_cDC1
- GSM5776084 WT_cDC2_1 WT_cDC2
- GSM5776085 WT_cDC2_2 WT_cDC2
- GSM5776086 WT_cDC2_3 WT_cDC2
- GSM5776087 KO_cDC2_1 KO_cDC2
- GSM5776088 KO_cDC2_2 KO_cDC2
- GSM5776089 KO_cDC2_3 KO_cDC2
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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.