Transcriptional response of terminal ileum to bacterial monocolonization
Expression microarray · mouse · 12 samples
- What it is
- Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 3 × Ileum.Badol.L232# vs 3 × Ileum.Chisto# vs 3 × Ileum.GF# vs 3 × Ileum.SFB#Groups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed expression table (series matrix) and the array files, from NCBI.
Direct links to NCBI, 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.
Whole study · RAW.tar
Everything the authors deposited as one archive (GSE87676_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.
What the files usually look like: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.
Also filed as BioProject PRJNA345537. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM2338091 Ileum.Badol.L232#1 Ileum.Badol.L232#
- GSM2338092 Ileum.Badol.L232#2 Ileum.Badol.L232#
- GSM2338093 Ileum.Badol.L232#3 Ileum.Badol.L232#
- GSM2338094 Ileum.Chisto#1 Ileum.Chisto#
- GSM2338095 Ileum.Chisto#2 Ileum.Chisto#
- GSM2338096 Ileum.Chisto#3 Ileum.Chisto#
- GSM2338097 Ileum.GF#1 Ileum.GF#
- GSM2338098 Ileum.GF#2 Ileum.GF#
- GSM2338099 Ileum.GF#3 Ileum.GF#
- GSM2338100 Ileum.SFB#1 Ileum.SFB#
- GSM2338101 Ileum.SFB#2 Ileum.SFB#
- GSM2338102 Ileum.SFB#3 Ileum.SFB#
- GSE40821 Regulation of antibacterial defense in the small intestine by the nuclear bile acid receptor 6 samples shares bacterial
- GSE10010 IL-22 plays an indispensable role in early host defense against attaching and effacing (A/E) bacterial pathogens 6 samples shares bacterial
- GSE331176 Phagosome-mediated activation of STING by purine and pyrimidine-based bacterial cyclic dinucleotides 380 samples shares bacterial
- GSE298739 c-Myc Inhibits Macrophage Antimycobacterial Response in Mycobacterium tuberculosis Infection 35 samples shares bacterial
- GSE307417 SGLT2 inhibition decreases complement C1q, maintaining renal antibacterial response 14 samples shares bacterial
- GSE301313 Transcriptional differences in jejunum and ileum of a conditional knockout of Dab2 in the intestine 12 samples shares ileum
- GSE277691 Elucidating early intestinal stem cell response to bacterial infection 12 samples shares bacterial
- GSE301781 Bacterial infections shape cardiac macrophages’ response to ischemia 12 samples shares bacterial
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.