Genome-wide CRISPR screen of HoxA9 immortalised R26-CreERT2 Adar1fl/+ and R26-CreERT2 Adar1fl/E861A cells
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: 12 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
- GGNBP2 regulates MDA5 sensing triggered by self double-stranded RNA following loss of ADAR1 editingScience 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 GSE233671_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 PRJNA977563 and SRA study SRP440096. 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 12 sample titles: 12 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.
- GSM7432240 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 fl/+ Day 0 rep 1 (167, S1)
- GSM7432241 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 fl/+ Day 0 rep 2 (167, S3)
- GSM7432242 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 fl/+ Day 7 rep 1 (167, S2)
- GSM7432243 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 fl/+ Day 7 rep 2 (167, S8)
- GSM7432244 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 fl/+ Day 14 rep 1 (167, S3)
- GSM7432245 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 fl/+ Day 14 rep 2 (167, S9)
- GSM7432246 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 E861A/E861A Day 0 rep 1 (165, S4)
- GSM7432247 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 E861A/E861A Day 0 rep 2 (165, S10)
- GSM7432248 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 E861A/E861A Day 7 rep 1 (165, S5)
- GSM7432249 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 E861A/E861A Day 7 rep 2 (165, S11)
- GSM7432250 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 E861A/E861A Day 14 rep 1 (165, S6)
- GSM7432251 CRISPR screen, Hoxb8 imortalised GM-CSF cell line, Adar1 E861A/E861A Day 14 rep 2 (165, S12)
- GSE233452 Fractionation of sgControl, sgIfih1 and sgGgnbp2 in HoxA9 immortalized Rosa26-CreERT2 Adar1fl/E861A immortalised myeloid cells. 54 samples shares adar1fl, hoxa9, e861a, immortalised
- GSE233590 Tamoxifen timecourse in HoxA9 immortalized R26-CreERT2 Adar1fl/+ and R26-CreERT2 Adar1fl/E861A myeliod cell lines. 16 samples shares adar1fl, hoxa9, e861a, r26-creert2
- GSE285351 Genome-wide in vivo CRISPR screens identify GATOR1 as a potent tumor suppressor in MYC-driven lymphomagenesis 35 samples shares crispr, genome-wide, screen
- GSE273667 Genome-wide CRISPR screening identifies the E3 ubiquitin ligase HERC1 as a modulator of the response to nucleoside analogs in acute myeloid leukemia 12 samples shares crispr, genome-wide, screen
- GSE269463 Genome-wide CRISPR-Cas9 knockout screens identify DNMT1 as a druggable dependency in sonic hedgehog medulloblastoma 21 samples shares crispr, genome-wide, screen
- 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, screen
- GSE268045 StealTHY: enabling CRISPR-Cas9 screens in immunocompetent hosts to expose concealed metastatic regulators [paired-end] 70 samples shares crispr, screen
- GSE263759 Integrated time-series analysis and high-content CRISPR screening delineate the dynamics of macrophage immune regulation [RNA-seq] 64 samples shares crispr, screen
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.