Transcription profiling of sorted beta cells from Liver-specific insulin receptor knock-out (LIRKO) mice
RNA-seq (gene expression) · mouse · 18 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
- 18 samples: 18 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 GSE297142_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 PRJNA1262871 and SRA study SRP585199. 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 18 sample titles: 18 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.
- GSM8984580 SL269932 Ctrl_Chow
- GSM8984581 SL269933 Ctrl_Chow
- GSM8984582 SL269934 Ctrl_Chow
- GSM8984583 SL269935 Ctrl_Chow
- GSM8984584 SL269936 Ctrl_Chow
- GSM8984585 SL269937 Ctrl_Chow
- GSM8984586 SL269938 Ctrl_HFD
- GSM8984587 SL269939 Ctrl_HFD
- GSM8984588 SL269940 Ctrl_HFD
- GSM8984589 SL269941 Ctrl_HFD
- GSM8984590 SL269942 Ctrl_HFD
- GSM8984591 SL269943 LIRKO_Chow
- GSM8984592 SL269944 LIRKO_Chow
- GSM8984593 SL269945 LIRKO_Chow
- GSM8984594 SL269946 LIRKO_Chow
- GSM8984595 SL269947 LIRKO_HFD
- GSM8984596 SL269948 LIRKO_HFD
- GSM8984597 SL269949 LIRKO_HFD
- GSE301186 Transcriptional and functional architecture of the whole neutrophil compartment [RNA-seq sorted_cells] 11 samples shares transcription, sorted
- GSE326173 Nuclear receptor Nur77 resolves the inflammatory response of macrophages primarily by regulating expression of AP-1 transcription factors and their target genes [ChIP-seq] 42 samples shares transcription, receptor
- GSE324864 HP1B and H3K9me3 Regulate Olfactory Receptor Choice and 2 Transcriptional Identity [ChIP-seq] 28 samples shares transcription, receptor
- GSE284504 Transcriptional profiling of brain from a zQ175 KI mouse model of Huntington's disease 335 samples shares transcription
- 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 transcription
- GSE225576 An atlas of the aging mouse transcriptome and proteome reveals the features of age-related post-transcriptional dysregulation 128 samples shares transcription
- GSE286046 Asymmetric Histone Inheritance Regulates Differential Transcription Re-initiation and Cell Fate Decisions in Mouse Olfactory Horizontal Basal Cells 96 samples shares transcription
- GSE282096 Diminished transcriptional activity and splicing changes drive gene length-biased rewiring in the aging transcriptome (RNA-Seq) 94 samples shares transcription
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.