Nonviral CRISPR/Cas9 Mutagenesis for Streamlined Generation of Mouse Lung Cancer Models
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: 9 distinct titles, 1 of them repeatedGroups 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
- Nonviral CRISPR/Cas9 mutagenesis for streamlined generation of mouse lung cancer modelsProceedings of the National Academy of Sciences of the United States of America · 2024
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 GSE249293_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 PRJNA1048458 and SRA study SRP475785. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 12 sample titles: 9 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.
- GSM7933177 CTL116
- GSM7933178 CTL117
- GSM7933179 CTL144
- GSM7933180 CTL146
- GSM7933181 CTL187PulmonI
- GSM7933182 153TTraquea
- GSM7933183 156T3
- GSM7933184 159TPulmonD
- GSM7933185 159TPulmonI
- GSM7933186 201T1pulmon
- GSM7933187 201T2pulmon
- GSM7933188 201TTraquea
- GSE245533 Next Generation Sequencing Analysis of Transcriptome Profile in CRISPR/Cas9 U90926KO IEC4.1 Cells Treated with IFN-gamma protein (IFNγ) 12 samples shares crispr, cas9, generation
- 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, cas9
- GSE268045 StealTHY: enabling CRISPR-Cas9 screens in immunocompetent hosts to expose concealed metastatic regulators [paired-end] 70 samples shares crispr, cas9
- GSE268044 StealTHY: enabling CRISPR-Cas9 screens in immunocompetent hosts to expose concealed metastatic regulators [single-end] 45 samples shares crispr, cas9
- GSE326336 CRISPR/Cas9 screening reveals key role of STK11/LKB1 in vasopressin-mediated regulation of Aqp2 transcription 44 samples shares crispr, cas9
- GSE295763 Precise Excision of Expanded GGC Repeats in NOTCH2NLC via CRISPR/Cas9 for Treating Neuronal Intranuclear Inclusion Disease 18 samples shares crispr, cas9
- GSE297349 CRISPR-Cas9 Screening Reveals Microproteins Regulating Adipocyte Proliferation and Lipid Metabolism [RNA-seq] 18 samples shares crispr, cas9
- GSE225240 Reevaluation by CRISPR-Cas9 approach reveals multiple lincRNAs dispensable for pluripotency maintenance and SNORA73 essential for pluripotency exit 13 samples shares crispr, cas9
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.