In vivo CRISPR screens identify a dual function of MEN1 in regulating tumor-microenvironment interactions [CT26 IMC RNA-seq]
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.
- Paper
- In vivo CRISPR screens identify a dual function of MEN1 in regulating tumor-microenvironment interactionsNature genetics · 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 GSE194352_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 PRJNA800352. 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.
- GSM5834018 CT26-sgEV-2_S4
- GSM5834019 CT26-sgEV-3_S3
- GSM5834020 CT26-sgEV-4_S9
- GSM5834021 CT26-sgEV-6_S5
- GSM5834022 CT26-sgMEN1-1-1_S8
- GSM5834023 CT26-sgMEN1-1-3_S6
- GSM5834024 CT26-sgMEN1-1-4_S2
- GSM5834025 CT26-sgMEN1-3-2_S10
- GSM5834026 CT26-sgMEN1-3-3_S7
- GSM5834027 CT26-sgMEN1-3-4_S1
- GSE324386 Transcriptomic profiling of CRISPR-Cas9 knockout of RAD51D, LIMCH1, and BRD9 in MC38 colorectal cancer cells reveals regulation of PD-L1 expression 29 samples shares crispr, imc
- GSE334845 Discovery of Tcf7 regulators with clonally-resolved CRISPR screens identifies Trim28 as a mediator of CD8 T cell differentiation in tumors [RNA-Seq] 86 samples shares crispr, screens
- GSE268045 StealTHY: enabling CRISPR-Cas9 screens in immunocompetent hosts to expose concealed metastatic regulators [paired-end] 70 samples shares crispr, screens
- GSE273071 Reporter CRISPR screens decipher cis- and trans-regulatory principles at the Xist locus [RNA-seq] 59 samples shares crispr, screens
- GSE268044 StealTHY: enabling CRISPR-Cas9 screens in immunocompetent hosts to expose concealed metastatic regulators [single-end] 45 samples shares crispr, screens
- GSE285351 Genome-wide in vivo CRISPR screens identify GATOR1 as a potent tumor suppressor in MYC-driven lymphomagenesis 35 samples shares crispr, screens
- GSE269446 In vivo CRISPR screens in Head and Neck Cancer reveal that Uchl5 modulates extracellular matrix deposition to promote immune evasion 23 samples shares crispr, screens
- GSE220556 In vivo CRISPR screens reveal SCAF1 and USP15 as novel drivers of pancreatic cancer 20 samples shares crispr, screens
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.