RNA-seq analysis of B16F10 cells following p300/CBO knockout
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 × B16F10_ctl vs 3 × B16F10_CbpKO vs 3 × B16F10_dKO vs 3 × B16F10_p300KOGroups 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.
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 GSE318796_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 PRJNA1420644 and SRA study SRP675618. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM9503412 B16F10_ctl_rep1 B16F10_ctl
- GSM9503413 B16F10_ctl_rep2 B16F10_ctl
- GSM9503414 B16F10_ctl_rep3 B16F10_ctl
- GSM9503415 B16F10_CbpKO_rep1 B16F10_CbpKO
- GSM9503416 B16F10_CbpKO_rep2 B16F10_CbpKO
- GSM9503417 B16F10_CbpKO_rep3 B16F10_CbpKO
- GSM9503418 B16F10_dKO_rep1 B16F10_dKO
- GSM9503419 B16F10_dKO_rep2 B16F10_dKO
- GSM9503420 B16F10_dKO_rep3 B16F10_dKO
- GSM9503421 B16F10_p300KO_rep1 B16F10_p300KO
- GSM9503422 B16F10_p300KO_rep2 B16F10_p300KO
- GSM9503423 B16F10_p300KO_rep3 B16F10_p300KO
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- GSE219143 RNA-seq of B16F10 cancer cells treated with different conditioned media from cancer cell-induced TAM 12 samples shares b16f10, rna-seq
- GSE288348 Disease-associated astrocyte epigenetic memory promotes CNS pathology [sgEp300, sgACLY astrocytes bulk RNA-Seq dataset] 18 samples shares p300, rna-seq
- GSE313569 p300-Mediated Histone H3K18 Lactylation Promotes Mitochondrial ROS Accumulation via Mitophagy Inhibition to Potentiate Dopamine Agonists Efficacy in Prolactinomas [RNA-seq] 12 samples shares p300, rna-seq
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- GSE326452 Bulk RNA-seq of mouse brain following closed head injury: role of IL-1R1 signaling 200 samples shares following, rna-seq
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- GSE225317 Trophectoderm biopsies of blastocysts for preimplantation genetic testing following in vitro fertilization and embryo culture increases epigenetic dysregulation in a mouse model [RNA-seq] 110 samples shares following, rna-seq
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.