Comparison of transcriptional changes in regenerating mice livers at baseline and 24-48 hours post 70% partial hepatectomy with or without etomoxir treatment
RNA-seq (gene expression) · mouse · 27 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
- 27 samples: 5 conditions, mostly with about 7 replicates eachGroups 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 GSE256002_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 PRJNA1077372 and SRA study SRP490115. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 27 samples.
How we read this: 5 replicated groups read from 27 sample titles; they account for 27 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.
- GSM8084028 Control_sham_1 Control_sham
- GSM8084029 Control_sham_2 Control_sham
- GSM8084030 Control_sham_3 Control_sham
- GSM8084031 Control_sham_4 Control_sham
- GSM8084032 Control_sham_5 Control_sham
- GSM8084033 PHx24h_1 PHx24h
- GSM8084034 PHx24h_2 PHx24h
- GSM8084035 PHx24h_3 PHx24h
- GSM8084036 PHx24h_4 PHx24h
- GSM8084037 PHx24h_5 PHx24h
- GSM8084038 PHx24h_6 PHx24h
- GSM8084039 PHx24h_7 PHx24h
- GSM8084040 PHx24hETO_1 PHx24hETO
- GSM8084041 PHx24hETO_2 PHx24hETO
- GSM8084042 PHx24hETO_3 PHx24hETO
- GSM8084043 PHx24hETO_4 PHx24hETO
- GSM8084044 PHx48h_1 PHx48h
- GSM8084045 PHx48h_2 PHx48h
- GSM8084046 PHx48h_3 PHx48h
- GSM8084047 PHx48h_4 PHx48h
- GSM8084048 PHx48h_5 PHx48h
- GSM8084049 PHx48h_6 PHx48h
- GSM8084050 PHx48h_7 PHx48h
- GSM8084051 PHx48hETO_1 PHx48hETO
- GSM8084052 PHx48hETO_2 PHx48hETO
- GSM8084053 PHx48hETO_3 PHx48hETO
- GSM8084054 PHx48hETO_4 PHx48hETO
- GSE282210 Transcriptome analysis of quiescent livers and regenerating livers after partial hepatectomy (PH) in young and aged mice 133 samples shares regenerating, hepatectomy, partial
- GSE328885 Liver transcriptomic response to partial hepatectomy in intestinal-specific SIRT1 knockout mice 34 samples shares hepatectomy, partial
- GSE279813 Gene expression changes in skin of dihydrotestosterone-induced mice after treatment of a newly-developed traditional Chinese medicine formula, Hanlianxiang. 24 samples shares treatment, changes
- GSE233516 DNA dioxygenase Tet2 regulates liver regeneration after partial hepatectomy. 18 samples shares hepatectomy, partial
- GSE108449 Altas of gene expression in mice liver during liver regeneration process post 2/3 partial hepatectomy using RNA-seq 18 samples shares hepatectomy, partial
- GSE298695 Mechanosensing by endothelial Piezo1 promotes liver regeneration after partial hepatectomy via ATF2-ID1-Wnt2 pathway 16 samples shares hepatectomy, partial
- GSE249630 Modeling T cell temporal response to cancer immunotherapy rationalize development of combinatorial treatments protocols 1372 samples shares treatment
- GSE332646 Bulk RNA-seq of juvenile mouse liver following NDMA or saline treatment in WT and Mgmt-/- genotypes across multiple timepoints 214 samples shares treatment
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.