Impact of Conditional Knockout of Complement C3 and Sphingosine-1-Phosphate Receptor 1 (S1PR1) on Lung Metastasis in MMTV-PyMT Mice
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.
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 GSE235593_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 PRJNA986518 and SRA study SRP445382. 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.
- GSM7505998 AJ1_WT
- GSM7505999 AJ2_WT
- GSM7506000 AJ3_WT
- GSM7506001 AJ4_WT
- GSM7506002 AJ5_C3_KO
- GSM7506003 AJ6_C3_KO
- GSM7506004 AJ7_C3_KO
- GSM7506005 AJ8_C3_KO
- GSM7506006 AJ9_S1pr1KO
- GSM7506007 AJ10_S1pr1KO
- GSM7506008 AJ11_S1pr1KO
- GSM7506009 AJ12_S1pr1KO
- GSE229815 Transcriptional profiling of 12 month striatum and cortex from a mouse model of Huntington's disease (Q140) crossed with Msh2 heterozygous or homozygous conditional knockout mice [Msh2_12mon] 138 samples shares conditional, knockout
- GSE229817 Transcriptional profiling of 6 month striatum and cortex from a mouse model of Huntington's disease (Q140) crossed with Msh2 conditional knockout mice [Msh2_6mon] 64 samples shares conditional, knockout
- GSE266438 Loss of Sphingosine-1-Phosphate Receptor 4 weakens innate mechanisms leading to defective lymph node hypertrophy and germinal center formation 45 samples shares sphingosine-1-phosphate, receptor
- GSE279318 DYRK1A Inhibition via Harmine or via Conditional Knockout 28 samples shares conditional, knockout
- GSE273906 Sphingosine-1-phosphate receptor 3 activation promotes sociability and regulates the expression of genes associated with anxiolytic-like behavior 24 samples shares sphingosine-1-phosphate, receptor
- GSE244544 Characterization of an Osmr Conditional Knockout Mouse Model 18 samples shares conditional, knockout
- GSE205029 Single Cell Sequencing Data of Mouse Spinal Cord with Dorsal Column Lesion and Astrocyte-Specific Ryk conditional Knockout 16 samples shares conditional, knockout
- GSE303929 Comparative Transcriptomic Analysis of Embryonic Hearts in Atf4 Exon 2 and Exon 2–3 Conditional Knockout Mice 16 samples shares conditional, knockout
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.