GEO series

Whole Transcriptome Analysis of Hypothalamus in Mice during Short-Term Starvation

GSE289833 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2025/02/23 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 12 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: 12 samples: 12 samples, each with a distinct title — no replicated groupsGroups 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: Whole Transcriptome Analysis of Hypothalamus in Mice during Short-Term StarvationInternational journal of molecular sciences · 2023

Summary (written by the submitters)

Molecular profiling of the hypothalamus in response to metabolic shifts is a critical cue to better understand the principle of the central control of whole-body energy metabolism. The transcriptional responses of the rodent hypothalamus to short-term calorie restriction have been documented. However, studies on the identification of hypothalamic secretory factors that potentially contribute to the control of appetite are lacking.

Read the full summary ↓

In this study, we analyzed the differential expression of hypothalamic genes and compared the selected secretory factors from the fasted mice with those of fed control mice using bulk RNA-sequencing. We verified seven secretory genes that were significantly altered in the hypothalamus of fasted mice. In addition, we determined the response of secretory genes in cultured hypothalamic cells to treatment with ghrelin and leptin. The current study provides further insights into the neuronal response to food restriction at the molecular level and may be useful for understanding the hypothalamic control of appetite.

Published in

Whole Transcriptome Analysis of Hypothalamus in Mice during Short-Term Starvation

Oh EY, Park BS, Yang HR et al. · International journal of molecular sciences 2023 · PMID 36834616 · doi:10.3390/ijms24043204

This dataset

Open GSE289833 in finder → Find more mouse RNA-seq datasets →

Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE289833_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1225160 and SRA study SRP564594. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 36834616) ↗

Study design

12 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 12 sample titles: 12 distinct titles with little repetition. 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.

Samples in this study

GSM8799951 Sample1, hippocampus, fasted, 18h
GSM8799952 Sample2, hippocampus, fasted, 18h
GSM8799953 Sample3, hippocampus, fasted, 18h
GSM8799954 Sample4, hippocampus, fed, 18h
GSM8799955 Sample5, hippocampus, fed, 18h
GSM8799956 Sample6, hippocampus, fed, 18h
GSM8799957 Sample7, hypothalamus, fasted, 18h
GSM8799958 Sample8, hypothalamus, fasted, 18h
GSM8799959 Sample9, hypothalamus, fasted, 18h
GSM8799960 Sample10, hypothalamus, fed, 18h
GSM8799961 Sample11, hypothalamus, fed, 18h
GSM8799962 Sample12, hypothalamus, fed, 18h

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Search all mouse RNA-seq datasets in GEO →

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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.