A novel mouse model of Prader-Willi Syndrome including the deletion of both Necdin and Magel2 genes
RNA-seq (gene expression) · mouse · 20 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
- 20 samples: 19 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.
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 GSE269225_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 PRJNA1120761 and SRA study SRP512185. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 20 sample titles: 19 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.
- GSM8308890 DW1_S1
- GSM8308891 DW2_S2
- GSM8308892 DW3_S3
- GSM8308893 DW4_S4
- GSM8308894 DW4_S5
- GSM8308895 NW1_S6
- GSM8308896 NW2_S7
- GSM8308897 NW3_S8
- GSM8308898 NW4_S9
- GSM8308899 NW5_S10
- GSM8308900 DK1_S11
- GSM8308901 DK2_S12
- GSM8308902 DK3_S13
- GSM8308903 DK4_S14
- GSM8308904 SK5_S15
- GSM8308905 NK1_S16
- GSM8308906 NK2_S17
- GSM8308907 NK3_S18
- GSM8308908 NK4_S19
- GSM8308909 NK5_S20
- GSE328896 Patch-seq analysis of dorsal striatum cholinergic interneurons in a mouse model of 22q11 deletion syndrome 125 samples shares deletion
- GSE333730 Role of Snord116 in pituitary growth hormone deficiency of Prader-Willi Syndrome 20 samples shares prader-willi
- GSE223376 TMEM106B coding variant is protective and deletion detrimental in a mouse model of tauopathy 72 samples shares deletion
- GSE220322 Gene expression in pre-cystic mouse kidneys after Pkd2 deletion. 48 samples shares deletion
- GSE260762 Deletion of CD177 exacerbates acute pancreatitis-associated lung injury and colonic barrier dysfunction in a mouse model of acute pancreatitis 39 samples shares deletion
- GSE307127 Immune Receptor Lag3 Deletion Alleviates Neurodegeneration Phenotypes in a Mouse Model of Alzheimer’s Disease 36 samples shares deletion
- GSE247436 Deletion of Gba in neurons, but not microglia, causes neurodegeneration in a Gaucher mouse model 32 samples shares deletion
- GSE335309 Effect of keratinocyte-intrinsic VISTA deletion on UV-induced type I interferon and inflammatory gene expression in mouse epidermis 29 samples shares deletion
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.