Mismatch repair protein MLH1 suppresses replicative stress in BRCA2 deficient breast tumors
RNA-seq (gene expression) · mouse · 23 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
- 23 samples
- 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
- Mismatch repair protein MLH1 suppresses replicative stress in BRCA2-deficient breast tumorsThe Journal of clinical investigation · 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 GSE220973_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 PRJNA912195 and SRA study SRP413074. Searching any of these in the dataset finder brings you back here.
The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Sample titles run Clone11 … Clone88 and carry no group information.
- GSM6833401 Clone11
- GSM6833402 Clone12
- GSM6833403 Clone25
- GSM6833404 Clone26
- GSM6833405 Clone3
- GSM6833406 Clone35
- GSM6833407 Clone36
- GSM6833408 Clone43
- GSM6833409 Clone45
- GSM6833410 Clone53
- GSM6833411 Clone54
- GSM6833412 Clone55
- GSM6833413 Clone57
- GSM6833414 Clone58
- GSM6833415 Clone6
- GSM6833416 Clone67
- GSM6833417 Clone7
- GSM6833418 Clone70
- GSM6833419 Clone83
- GSM6833420 Clone91
- GSM6833421 Clone94
- GSM6833422 Clone95
- GSM6833423 Clone88
- GSE302064 Transcriptome analysis of the effect of RAD52 knockout on olaparib response in BRCA2-deficient, olaparib-resistant murine ovarian cancer cells (ID8-OR) 12 samples shares brca2, deficient
- GSE288159 G-quadruplexes are a source of vulnerability in BRCA2 deficient granule cell progenitors and medulloblastoma 12 samples shares brca2, deficient
- GSE300751 CDK16 and CDK18 inhibition suppresses nuclear pore-mediated DNA repair and hepatocellular carcinoma [liver tumor] 14 samples shares suppresses, repair
- GSE229811 Transcriptional profiling of striatum and cortex from a mouse model of Huntington's disease (Q140) crossed with Mlh1 heterozygous mice [Mlh1] 64 samples shares mlh1
- GSE237510 Transcriptional profiling of cortex from a mouse model of Huntington's disease (Q140) crossed with Mlh1 heterozygous and homozygous mice [Mlh1_4m] 48 samples shares mlh1
- GSE237544 Transcriptional profiling of striatum from a mouse model of Huntington's disease (Q140) crossed with Mlh1 heterozygous and homozygous mice [Mlh1_4m] 48 samples shares mlh1
- GSE300888 Sequential Platinum and PARP Inhibition Enhances PD1 Immunotherapy Efficacy in Murine Brca2 Mutated Pancreatic Cancer [RNAseq_2] 14 samples shares brca2
- GSE300887 Sequential Platinum and PARP Inhibition Enhances PD1 Immunotherapy Efficacy in Murine Brca2 Mutated Pancreatic Cancer [RNAseq_1] 13 samples shares brca2
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.