The role of LDLR in intestinal inflammation
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 5 × WT vs 5 × Ldlr KOGroups 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.
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 GSE277062_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 PRJNA1160308 and SRA study SRP532363. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 2 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8513339 WT-1 WT
- GSM8513340 WT-2 WT
- GSM8513341 WT-3 WT
- GSM8513342 WT-4 WT
- GSM8513343 WT-5 WT
- GSM8513344 Ldlr KO-1 Ldlr KO
- GSM8513345 Ldlr KO-2 Ldlr KO
- GSM8513346 Ldlr KO-3 Ldlr KO
- GSM8513347 Ldlr KO-4 Ldlr KO
- GSM8513348 Ldlr KO-5 Ldlr KO
- GSE294054 Obesity accelerates age-related memory deficits and alters white matter tract integrity in Ldlr-/-.Leiden mice 39 samples shares ldlr
- GSE210460 Time-Restricted Feeding Reduces Atherosclerosis in LDLR KO Mice but Not in ApoE Knockout Mice 24 samples shares ldlr
- GSE255321 Therapeutic effects of FGF21 mimetic bFKB1 on MASH and atherosclerosis in Ldlr-/-.Leiden mice 24 samples shares ldlr
- GSE297526 ABCC4 impairs the clearance of plasma LDL cholesterol through suppressing LDLR abundance on hepatic surface 15 samples shares ldlr
- GSE266416 IL-17 links the tumor suppressor LKB1 to gastrointestinal inflammation and polyposis 33 samples shares intestinal
- GSE269507 The interleukin 22–oncostatin M axis promotes intestinal inflammation and tumorigenesis [scRNA-seq] 12 samples shares intestinal
- GSE271362 CGRP-Related Neuropeptide Adrenomedullin 2 Promotes Tissue-Protective ILC2 Responses and Limits Intestinal Inflammation 11 samples shares intestinal
- GSE274144 ATAC-seq of VLDLR+ vs VLDLR- HSCs after acute anemia induction 14 samples shares ldlr
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.