Metabolic effects of cesarean section induced gut microbial dysbiosis in high-fat diet induced obese mice
RNA-seq (gene expression) · mouse · 21 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
- 21 samples: 11 × HM_CS vs 10 × HM_VDGroups 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 GSE254801_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 PRJNA1071717 and SRA study SRP487272. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 21 samples.
How we read this: 2 replicated groups read from 21 sample titles; they account for 21 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.
- GSM8057924 HM_CS_1 HM_CS
- GSM8057925 HM_CS_2 HM_CS
- GSM8057926 HM_CS_3 HM_CS
- GSM8057927 HM_CS_4 HM_CS
- GSM8057928 HM_CS_5 HM_CS
- GSM8057929 HM_CS_6 HM_CS
- GSM8057930 HM_CS_7 HM_CS
- GSM8057931 HM_CS_8 HM_CS
- GSM8057932 HM_CS_9 HM_CS
- GSM8057933 HM_CS_12 HM_CS
- GSM8057934 HM_CS_14 HM_CS
- GSM8057935 HM_VD_1 HM_VD
- GSM8057936 HM_VD_3 HM_VD
- GSM8057937 HM_VD_4 HM_VD
- GSM8057938 HM_VD_5 HM_VD
- GSM8057939 HM_VD_6 HM_VD
- GSM8057940 HM_VD_7 HM_VD
- GSM8057941 HM_VD_8 HM_VD
- GSM8057942 HM_VD_9 HM_VD
- GSM8057943 HM_VD_10 HM_VD
- GSM8057944 HM_VD_14 HM_VD
- GSE225224 Transcriptomic analysis of peripheral neuropathy in a high-fat diet-induced mouse model of type 2 diabetes 46 samples shares high-fat, induced, diet
- GSE303852 Liver RNA-seq from obese mice following Roux-en-Y gastric bypass or sham surgery under chow or high-fat diet conditions 20 samples shares high-fat, obese, diet
- GSE319603 Transcriptomic Insights into Aerobic Exercise-Mediated Attenuation of High-Fat Diet–Induced Muscle Wasting 18 samples shares high-fat, induced, diet
- GSE302244 High-fat diet-derived microbial metabolome induces an inflammatory phenotype in intestinal epithelial cells [organoids] 17 samples shares microbial, high-fat, diet
- GSE329539 Hypothalamic transcriptomic response to High-Fat Diet induced obesity: modulatory effects of Resveratrol, Curcumin, and Aged Garlic Extract. 12 samples shares high-fat, induced, diet
- GSE279918 Gene expression profile at single cell level of lungs of adult male and female C57BL/6 mice with andwithout high-fat diet-induced obesity 12 samples shares high-fat, induced, diet
- GSE225560 Divergent roles for caspase-8 and MLKL in high-fat diet induced obesity and NAFLD in mice 12 samples shares high-fat, induced, diet
- GSE293222 High-Fat Diet-Induced Liver-Gut Crosstalk Suppresses Autophagy and Exacerbates Colitis [colon] 12 samples shares high-fat, induced, diet
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.