Next-Generation Sequencing to compare RNA transcripts between Adam19 wildtype and knockout 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: 2 × heart_WT_ATR234 vs 2 × lung_WT_ATR234 vs 2 × heart_Mut_ATR237 vs 2 × lung_Mut_ATR237Groups 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
- Adam19 Deficiency Impacts Pulmonary Function: Human GWAS Follow-up in MouseResearch square · 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 GSE183318_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 PRJNA759920 and SRA study SRP335436. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 8 of them. 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.
- GSM5555480 heart_WT_ATR234.1 heart_WT_ATR234
- GSM5555481 lung_WT_ATR234.1 lung_WT_ATR234
- GSM5555482 heart_WT_ATR234.2 heart_WT_ATR234
- GSM5555483 lung_WT_ATR234.2 lung_WT_ATR234
- GSM5555484 heart_Mut_ATR236.4
- GSM5555485 lung_Mut_ATR236.4
- GSM5555486 heart_Mut_ATR237.2 heart_Mut_ATR237
- GSM5555487 lung_Mut_ATR237.2 lung_Mut_ATR237
- GSM5555488 heart_Mut_ATR237.3 heart_Mut_ATR237
- GSM5555489 lung_Mut_ATR237.3 lung_Mut_ATR237
- GSM5555490 heart_WT_ATR240.2
- GSM5555491 lung_WT_ATR240.2
- GSE311013 Elimination of myotonia improves myopathy in a muscleblind knockout model of myotonic dystrophy: longread sequencing of Clcn1 transcripts in muscle from Mbnl1 knockout, Exon 7a deletion, and ADR mice. 27 samples shares transcripts, knockout
- GSE264452 Single nucleus RNA sequencing of hippocampal tissue from wildtype and SHIP1 conditional knockout mice at postnatal day 15. 8 samples shares wildtype, knockout
- GSE279541 Transcriptome sequencing samples of the Bmi1 knockout and wildtype neonatal mouse organ of Corti. 7 samples shares wildtype, knockout
- GSE225435 RNA sequencing on Postnatal day (P) 7 wildtype and Zmiz1-Knockout cortex 6 samples shares wildtype, knockout
- GSE97946 Next-generation RNA Sequencing and Transcriptome Comparison of Mouse Wild Type and Mesenchymal Bmpr1a conditional knockout lungs of E15.5 6 samples shares next-generation, knockout
- GSE275033 Next-Generation Sequencing Facilitates Quantitative Analysis of WT and Mpp8/Tasor double knockout Embryonic Stem Cells Transcriptomes 6 samples shares next-generation, knockout
- GSE262293 Gene expression in wildtype and Prxl2a knockout mouse 24 samples shares wildtype, knockout
- GSE268679 Transcriptomic profile of the hippocampus after status epilepticus in wildtype and EZH2 neuronal knockout mice. 19 samples shares wildtype, 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.