Changes in tryptophan de novo NAD synthesis associated with chronic intestinal inflammation
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: 10 × Control vs 10 × WinnieGroups 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
- Alterations in tryptophan metabolism and de novo NAD(+) biosynthesis within the microbiota-gut-brain axis in chronic intestinal inflammationFrontiers in medicine · 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 GSE264317_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 PRJNA1101986 and SRA study SRP502655. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 2 replicated groups read from 20 sample titles; they account for 20 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.
- GSM8215996 Control1 Control
- GSM8215997 Control2 Control
- GSM8215998 Control3 Control
- GSM8215999 Control4 Control
- GSM8216000 Control5 Control
- GSM8216001 Control6 Control
- GSM8216002 Control7 Control
- GSM8216003 Control8 Control
- GSM8216004 Control9 Control
- GSM8216005 Control10 Control
- GSM8216006 Winnie1 Winnie
- GSM8216007 Winnie2 Winnie
- GSM8216008 Winnie3 Winnie
- GSM8216009 Winnie4 Winnie
- GSM8216010 Winnie5 Winnie
- GSM8216011 Winnie6 Winnie
- GSM8216012 Winnie7 Winnie
- GSM8216013 Winnie8 Winnie
- GSM8216014 Winnie9 Winnie
- GSM8216015 Winnie10 Winnie
- GSE311912 Probiotics Complex Synergizes with FOLFOX to Enhance Antitumor Response and Ameliorate Chemotherapy-induced Intestinal Toxicity via Upregulation of NAD+ Metabolism 27 samples shares nad, intestinal
- GSE331524 Transcriptomic analysis of hippocampus and prefrontal cortex in a mouse model of chronic radiation-induced gastrointestinal injury 12 samples shares intestinal, chronic
- GSE294963 In Vitro Modeling of Age-Related Methylation Changes with Intestinal Organoids [RNA-Seq] 11 samples shares intestinal, changes
- GSE306673 Akkermansia muciniphila contributes to fasting-mediated radioprotection by inducing epigenetic and transcriptional changes in small intestinal epithelial cells 32 samples shares intestinal, changes
- GSE330309 Impact of Sex Chromosomes and Gonad Type in Stress Susceptibility in Corticostriatal Brain Regions 96 samples shares nad
- GSE291544 Roles of chromosomal and gonadal sex in the fetal and placental responses to maternal food restriction in mice [junctional zone/decidua] 60 samples shares nad
- GSE300533 Gonadal and chromosomal sex effects on hepatic transcriptome 48 samples shares nad
- GSE173532 Altering metabolism to program cell identity via NAD+ dependent deacetylation [RNA-seq] 30 samples shares nad
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.