Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases
The processes leading to, or avoiding cell death are widely studied, because of their frequent perturbation in various diseases. Cell death occurs in three highly interconnected steps: Initiation, signaling and execution. We used a systems biology approach to gather information about all known modes...
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| Format: | Article |
| Language: | English |
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MDPI AG
2020-04-01
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| Series: | Cancers |
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| Online Access: | https://www.mdpi.com/2072-6694/12/4/990 |
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| author | Jean-Marie Ravel L. Cristobal Monraz Gomez Nicolas Sompairac Laurence Calzone Boris Zhivotovsky Guido Kroemer Emmanuel Barillot Andrei Zinovyev Inna Kuperstein |
| author_facet | Jean-Marie Ravel L. Cristobal Monraz Gomez Nicolas Sompairac Laurence Calzone Boris Zhivotovsky Guido Kroemer Emmanuel Barillot Andrei Zinovyev Inna Kuperstein |
| author_sort | Jean-Marie Ravel |
| collection | DOAJ |
| description | The processes leading to, or avoiding cell death are widely studied, because of their frequent perturbation in various diseases. Cell death occurs in three highly interconnected steps: Initiation, signaling and execution. We used a systems biology approach to gather information about all known modes of regulated cell death (RCD). Based on the experimental data retrieved from literature by manual curation, we graphically depicted the biological processes involved in RCD in the form of a seamless comprehensive signaling network map. The molecular mechanisms of each RCD mode are represented in detail. The RCD network map is divided into 26 functional modules that can be visualized contextually in the whole seamless network, as well as in individual diagrams. The resource is freely available and accessible via several web platforms for map navigation, data integration, and analysis. The RCD network map was employed for interpreting the functional differences in cell death regulation between Alzheimer’s disease and non-small cell lung cancer based on gene expression data that allowed emphasizing the molecular mechanisms underlying the inverse comorbidity between the two pathologies. In addition, the map was used for the analysis of genomic and transcriptomic data from ovarian cancer patients that provided RCD map-based signatures of four distinct tumor subtypes and highlighted the difference in regulations of cell death molecular mechanisms. |
| first_indexed | 2024-03-10T20:24:32Z |
| format | Article |
| id | doaj.art-c79b893f747644929aa3df7cde2f1b06 |
| institution | Directory Open Access Journal |
| issn | 2072-6694 |
| language | English |
| last_indexed | 2024-03-10T20:24:32Z |
| publishDate | 2020-04-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Cancers |
| spelling | doaj.art-c79b893f747644929aa3df7cde2f1b062023-11-19T21:56:42ZengMDPI AGCancers2072-66942020-04-0112499010.3390/cancers12040990Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying DiseasesJean-Marie Ravel0L. Cristobal Monraz Gomez1Nicolas Sompairac2Laurence Calzone3Boris Zhivotovsky4Guido Kroemer5Emmanuel Barillot6Andrei Zinovyev7Inna Kuperstein8Institut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, 75005 Paris, FranceInstitut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, 75005 Paris, FranceInstitut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, 75005 Paris, FranceInstitut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, 75005 Paris, FranceFaculty of Medicine, Lomonosov Moscow State University, 119991 Moscow, RussiaCentre de Recherche des Cordeliers, Equipe labellisée par la Ligue contre le cancer, Université de Paris, Sorbonne Université, Inserm U1138, Institut Universitaire de France, 75006 Paris, FranceInstitut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, 75005 Paris, FranceInstitut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, 75005 Paris, FranceInstitut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, 75005 Paris, FranceThe processes leading to, or avoiding cell death are widely studied, because of their frequent perturbation in various diseases. Cell death occurs in three highly interconnected steps: Initiation, signaling and execution. We used a systems biology approach to gather information about all known modes of regulated cell death (RCD). Based on the experimental data retrieved from literature by manual curation, we graphically depicted the biological processes involved in RCD in the form of a seamless comprehensive signaling network map. The molecular mechanisms of each RCD mode are represented in detail. The RCD network map is divided into 26 functional modules that can be visualized contextually in the whole seamless network, as well as in individual diagrams. The resource is freely available and accessible via several web platforms for map navigation, data integration, and analysis. The RCD network map was employed for interpreting the functional differences in cell death regulation between Alzheimer’s disease and non-small cell lung cancer based on gene expression data that allowed emphasizing the molecular mechanisms underlying the inverse comorbidity between the two pathologies. In addition, the map was used for the analysis of genomic and transcriptomic data from ovarian cancer patients that provided RCD map-based signatures of four distinct tumor subtypes and highlighted the difference in regulations of cell death molecular mechanisms.https://www.mdpi.com/2072-6694/12/4/990regulated cell deathsurvivalsignaling networkcomprehensive mapbiocurationdata visualization |
| spellingShingle | Jean-Marie Ravel L. Cristobal Monraz Gomez Nicolas Sompairac Laurence Calzone Boris Zhivotovsky Guido Kroemer Emmanuel Barillot Andrei Zinovyev Inna Kuperstein Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases Cancers regulated cell death survival signaling network comprehensive map biocuration data visualization |
| title | Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases |
| title_full | Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases |
| title_fullStr | Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases |
| title_full_unstemmed | Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases |
| title_short | Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases |
| title_sort | comprehensive map of the regulated cell death signaling network a powerful analytical tool for studying diseases |
| topic | regulated cell death survival signaling network comprehensive map biocuration data visualization |
| url | https://www.mdpi.com/2072-6694/12/4/990 |
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