A gene expression atlas for different kinds of stress in the mouse brain
Open accessAbstract
Stressful experiences are part of everyday life and animals have evolved physiological and behavioral responses aimed at coping with stress and maintaining homeostasis. However, repeated or intense stress can induce maladaptive reactions leading to behavioral disorders. Adaptations in the brain, mediated by changes in gene expression, have a crucial role in the stress response. Recent years have seen a tremendous increase in studies on the transcriptional effects of stress. The input raw data are freely available from public repositories and represent a wealth of information for further global and integrative retrospective analyses. We downloaded from the Sequence Read Archive 751 samples (SRA-experiments), from 18 independent BioProjects studying the effects of different stressors on the brain transcriptome in mice. We performed a massive bioinformatics re-analysis applying a single, standardized pipeline for computing differential gene expression. This data mining allowed the identification of novel candidate stress-related genes and specific signatures associated with different stress conditions. The large amount of computational results produced was systematized in the interactive “Stress Mice Portal”.
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SCML4 has previously been linked to stress reactions in mice, and modifications to its protein structure might therefore further contribute to related effects in mood phenotypes.
“SCML4 has previously been linked to stress reactions in mice and modifications to its protein structure might therefore further contribute to related effects in mood phenotypes [52].”
From Neandertal introgression partitions the genetic landscape of neuropsychiatric disorders and associated behavioral phenotypes (2022) · cites this paper as [52]
The Results table of stress-related brain transcriptome changes lists Scml4 among differentially expressed genes in the mouse nucleus accumbens, supporting a link to stress-related gene expression. The cited passage does not address changes to SCML4 protein structure or their effects on mood phenotypes; that part is the citing authors’ speculation. (LLM, conf=0.86)
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Additional file 1 of Hypothalamic protein profiling from mice subjected to social defeat stress
Mitra, S., Sameer Kumar, G. S., Samanta, A., Schmidt, M. V., & Thakur, S. S. (2024) · Figshare · doi:10.6084/m9.figshare.26726279
Additional file 5 of Hypothalamic protein profiling from mice subjected to social defeat stress
Mitra, S., Sameer Kumar, G. S., Samanta, A., Schmidt, M. V., & Thakur, S. S. (2024) · Figshare · doi:10.6084/m9.figshare.26726291
Additional file 3 of Hypothalamic protein profiling from mice subjected to social defeat stress
Mitra, S., Sameer Kumar, G. S., Samanta, A., Schmidt, M. V., & Thakur, S. S. (2024) · Figshare · doi:10.6084/m9.figshare.26726285
Additional file 4 of Hypothalamic protein profiling from mice subjected to social defeat stress
Mitra, S., Sameer Kumar, G. S., Samanta, A., Schmidt, M. V., & Thakur, S. S. (2024) · Figshare · doi:10.6084/m9.figshare.26726288
Additional file 2 of Hypothalamic protein profiling from mice subjected to social defeat stress
Mitra, S., Sameer Kumar, G. S., Samanta, A., Schmidt, M. V., & Thakur, S. S. (2024) · Figshare · doi:10.6084/m9.figshare.26726282
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- Authors
- Flati, T., Gioiosa, S., Chillemi, G., Mele, A., Oliverio, A., Mannironi, C., Rinaldi, A., & Castrignanò, T.
- Affiliations
- Cineca (IT)
- Università degli Studi della Tuscia (IT)
- Sapienza University of Rome (IT)
- Institute of Molecular Biology and Pathology (IT)
- Corresponding author
- Rinaldi, Arianna
- Castrignanò, Tiziana
- ORCID
- Venue
- Scientific Data
- Published
- 2020-12-16
- Volume
- 7
- Issue
- 1
- Pages
- 437-437
- ISSN
- 2052-4463 (ISSN-L)
- PMC
- PMC7744580
- OpenAlex
- W3111074515
- Cited by
- 65
- References
- 78
- Citations by year
- 2026: 10 · 2025: 13 · 2024: 12 · 2023: 17 · 2022: 11 · 2021: 2
- Type
- data paper
- Language
- en
- Open access
- gold
- doi.org
- Locations
- Scientific Data (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- IRIS Research product catalog (Sapienza University of Rome) (submittedVersion, cc-by)
- Cineca Institutional Research Information System (Tor Vergata University) (submittedVersion, other-oa)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- UnitusOpen (Tuscia University) (submittedVersion)
- UnitusOpen (Tuscia University) (submittedVersion, cc-by-nc-nd)
- Funders
- Dipartimenti di Eccellenza
- Ministero dell’Istruzione, dell’Università e della Ricerca (“Landscape 4.0, 2018-2019)
- Dipartimento per la Innovazione nei Sistemi Biologici, Agroalimentari e Forestali, Università degli Studi della Tuscia
- Topics
- Life Sciences › Neuroscience › Behavioral Neuroscience › Stress Responses and Cortisol
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene expression and cancer classification
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Keywords
- stress response, brain transcriptome, gene expression atlas, mouse brain, differential gene expression, stress-related genes
- MeSH terms
- Animals, Brain, Female, Male, Stress, Physiological, Stress, Psychological, Gene Expression, Computational Biology, Mice, Data Mining, Transcriptome, Datasets as Topic
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