PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and Heterogeneity
ABSTRACT Purpose Premature cellular senescence is a pivotal process in aging and age‐related diseases, triggered by various stressors. However, this is not a homogeneous phenotype, but a heterogeneous cellular state composed of multiple senescence programs with different compositions. Therefore, und...
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| Format: | Article |
| Language: | English |
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Wiley
2025-04-01
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| Series: | Aging Medicine |
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| Online Access: | https://doi.org/10.1002/agm2.70020 |
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| author | Vinícius Pierdoná Patrícia Lavandoski Rafael Moura Maurmann Guilherme Antônio Borges Jose Carlos Merino Mombach Fátima Theresinha Costa Rodrigues Guma Florencia María Barbé‐Tuana |
| author_facet | Vinícius Pierdoná Patrícia Lavandoski Rafael Moura Maurmann Guilherme Antônio Borges Jose Carlos Merino Mombach Fátima Theresinha Costa Rodrigues Guma Florencia María Barbé‐Tuana |
| author_sort | Vinícius Pierdoná |
| collection | DOAJ |
| description | ABSTRACT Purpose Premature cellular senescence is a pivotal process in aging and age‐related diseases, triggered by various stressors. However, this is not a homogeneous phenotype, but a heterogeneous cellular state composed of multiple senescence programs with different compositions. Therefore, understanding the complex dynamics of senescence programs requires a systemic approach. We introduce PseudoCell, a multivalued logical regulatory network designed to explore the molecular intricacies of premature senescence. Methods PseudoCell integrates key senescence signaling pathways and molecular mechanisms, offering a versatile platform for investigating diverse premature senescence programs initiated by different stimuli. Results Validation through simulation of classical senescence programs, including oxidative stress‐induced senescence and oncogene‐induced senescence, demonstrates its ability to replicate molecular signatures consistent with empirical data. Additionally, we explore the role of CCL11, a novel senescence‐associated molecule, through simulations that reveal potential pathways and mechanisms underlying CCL11‐mediated senescence induction. Conclusions In conclusion, PseudoCell provides a systematic approach to dissecting premature senescence programs and uncovering novel regulatory mechanisms. |
| format | Article |
| id | doaj-art-b6122b3000bc4b1bbd3b36aa3d55b107 |
| institution | OA Journals |
| issn | 2475-0360 |
| language | English |
| publishDate | 2025-04-01 |
| publisher | Wiley |
| record_format | Article |
| series | Aging Medicine |
| spelling | doaj-art-b6122b3000bc4b1bbd3b36aa3d55b1072025-08-20T02:22:06ZengWileyAging Medicine2475-03602025-04-018214515510.1002/agm2.70020PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and HeterogeneityVinícius Pierdoná0Patrícia Lavandoski1Rafael Moura Maurmann2Guilherme Antônio Borges3Jose Carlos Merino Mombach4Fátima Theresinha Costa Rodrigues Guma5Florencia María Barbé‐Tuana6Programa de Pós‐Graduação Em Ciências Biológicas: Bioquímica Do Departamento de Bioquímica Universidade Federal Do Rio Grande Do Sul Porto Alegre Rio Grande do Sul BrazilPrograma de Pós‐Graduação Em Ciências Biológicas: Bioquímica Do Departamento de Bioquímica Universidade Federal Do Rio Grande Do Sul Porto Alegre Rio Grande do Sul BrazilPrograma de Pós‐Graduação Em Biologia Celular e Molecular da Escola de Ciências da Saúde e da Vida ‐ Pontifícia Universidade Católica Do Rio Grande Do Sul Porto Alegre Rio Grande do Sul BrazilDepartamento de Engenharia Electrotécnica e de Computadores Universidade de Coimbra Coimbra PortugalDepartamento de Física Universidade Federal de Santa Maria Santa Maria Rio Grande do Sul BrazilPrograma de Pós‐Graduação Em Ciências Biológicas: Bioquímica Do Departamento de Bioquímica Universidade Federal Do Rio Grande Do Sul Porto Alegre Rio Grande do Sul BrazilPrograma de Pós‐Graduação Em Biologia Celular e Molecular da Escola de Ciências da Saúde e da Vida ‐ Pontifícia Universidade Católica Do Rio Grande Do Sul Porto Alegre Rio Grande do Sul BrazilABSTRACT Purpose Premature cellular senescence is a pivotal process in aging and age‐related diseases, triggered by various stressors. However, this is not a homogeneous phenotype, but a heterogeneous cellular state composed of multiple senescence programs with different compositions. Therefore, understanding the complex dynamics of senescence programs requires a systemic approach. We introduce PseudoCell, a multivalued logical regulatory network designed to explore the molecular intricacies of premature senescence. Methods PseudoCell integrates key senescence signaling pathways and molecular mechanisms, offering a versatile platform for investigating diverse premature senescence programs initiated by different stimuli. Results Validation through simulation of classical senescence programs, including oxidative stress‐induced senescence and oncogene‐induced senescence, demonstrates its ability to replicate molecular signatures consistent with empirical data. Additionally, we explore the role of CCL11, a novel senescence‐associated molecule, through simulations that reveal potential pathways and mechanisms underlying CCL11‐mediated senescence induction. Conclusions In conclusion, PseudoCell provides a systematic approach to dissecting premature senescence programs and uncovering novel regulatory mechanisms.https://doi.org/10.1002/agm2.70020agingbioinformaticscellular senescencein silico modelingpremature senescence |
| spellingShingle | Vinícius Pierdoná Patrícia Lavandoski Rafael Moura Maurmann Guilherme Antônio Borges Jose Carlos Merino Mombach Fátima Theresinha Costa Rodrigues Guma Florencia María Barbé‐Tuana PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and Heterogeneity Aging Medicine aging bioinformatics cellular senescence in silico modeling premature senescence |
| title | PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and Heterogeneity |
| title_full | PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and Heterogeneity |
| title_fullStr | PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and Heterogeneity |
| title_full_unstemmed | PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and Heterogeneity |
| title_short | PseudoCell: A Multivalued Logical Regulatory Network to Investigate Premature Senescence Dynamics and Heterogeneity |
| title_sort | pseudocell a multivalued logical regulatory network to investigate premature senescence dynamics and heterogeneity |
| topic | aging bioinformatics cellular senescence in silico modeling premature senescence |
| url | https://doi.org/10.1002/agm2.70020 |
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