Antibiotics damage the colonic mucus barrier in a microbiota-independent manner II
RNA-seq (gene expression) · mouse · 22 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
- 22 samples: 11 × Vancomycin vs 11 × PBSGroups 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
- Antibiotics damage the colonic mucus barrier in a microbiota-independent mannerScience advances · 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 GSE270466_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 PRJNA1126690 and SRA study SRP515329. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 2 replicated groups read from 22 sample titles; they account for 22 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.
- GSM8343471 Vancomycin1 Vancomycin
- GSM8343472 Vancomycin2 Vancomycin
- GSM8343473 Vancomycin3 Vancomycin
- GSM8343474 Vancomycin4 Vancomycin
- GSM8343475 Vancomycin5 Vancomycin
- GSM8343476 Vancomycin6 Vancomycin
- GSM8343477 Vancomycin7 Vancomycin
- GSM8343478 Vancomycin8 Vancomycin
- GSM8343479 Vancomycin9 Vancomycin
- GSM8343480 Vancomycin10 Vancomycin
- GSM8343481 Vancomycin11 Vancomycin
- GSM8343482 PBS1 PBS
- GSM8343483 PBS2 PBS
- GSM8343484 PBS3 PBS
- GSM8343485 PBS4 PBS
- GSM8343486 PBS5 PBS
- GSM8343487 PBS6 PBS
- GSM8343488 PBS7 PBS
- GSM8343489 PBS8 PBS
- GSM8343490 PBS9 PBS
- GSM8343491 PBS10 PBS
- GSM8343492 PBS11 PBS
- GSE270467 Antibiotics damage the colonic mucus barrier in a microbiota-independent manner 50 samples shares microbiota-independent, antibiotics, colonic, barrier, damage, manner, mucus
- GSE260592 Antibiotics damage the colonic mucus barrier in a microbiota-independent manner I 28 samples shares microbiota-independent, antibiotics, colonic, barrier, damage, manner, mucus
- GSE293180 Analysis of Host and Microbiome Responses to Antibiotics Reveals Microbiota-Independent Effects on Gut Immune Response [multiabx] 97 samples shares microbiota-independent, antibiotics
- GSE293029 Analysis of Host and Microbiome Responses to Antibiotics Reveals Microbiota-Independent Effects on Gut Immune Response 64 samples shares microbiota-independent, antibiotics
- GSE260762 Deletion of CD177 exacerbates acute pancreatitis-associated lung injury and colonic barrier dysfunction in a mouse model of acute pancreatitis 39 samples shares colonic, barrier
- GSE287742 Macrophage-derived oncostatin M repairs the lung epithelial barrier during inflammatory damage 11 samples shares barrier, damage
- GSE293364 Analysis of Host and Microbiome Responses to Antibiotics Reveals Microbiota-Independent Effects on Gut Immune Response. 101 samples shares microbiota-independent, antibiotics
- GSE241206 Vascular and perivascular cell profiling reveals the molecular and cellular bases of blood-brain barrier heterogeneity 105 samples shares barrier
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.