Exploring the OncoGenomic Landscape of cancer
Abstract Background The widespread incorporation of next-generation sequencing into clinical oncology has yielded an unprecedented amount of molecular data from thousands of patients. A main current challenge is to find out reliable ways to extrapolate results from one group of patients to another a...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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BMC
2018-08-01
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| Series: | Genome Medicine |
| Online Access: | http://link.springer.com/article/10.1186/s13073-018-0571-0 |
| _version_ | 1811342624438616064 |
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| author | Lidia Mateo Oriol Guitart-Pla Miquel Duran-Frigola Patrick Aloy |
| author_facet | Lidia Mateo Oriol Guitart-Pla Miquel Duran-Frigola Patrick Aloy |
| author_sort | Lidia Mateo |
| collection | DOAJ |
| description | Abstract Background The widespread incorporation of next-generation sequencing into clinical oncology has yielded an unprecedented amount of molecular data from thousands of patients. A main current challenge is to find out reliable ways to extrapolate results from one group of patients to another and to bring rationale to individual cases in the light of what is known from the cohorts. Results We present OncoGenomic Landscapes, a framework to analyze and display thousands of cancer genomic profiles in a 2D space. Our tool allows users to rapidly assess the heterogeneity of large cohorts, enabling the comparison to other groups of patients, and using driver genes as landmarks to aid in the interpretation of the landscapes. In our web-server, we also offer the possibility of mapping new samples and cohorts onto 22 predefined landscapes related to cancer cell line panels, organoids, patient-derived xenografts, and clinical tumor samples. Conclusions Contextualizing individual subjects in a more general landscape of human cancer is a valuable aid for basic researchers and clinical oncologists trying to identify treatment opportunities, maybe yet unapproved, for patients that ran out of standard therapeutic options. The web-server can be accessed at https://oglandscapes.irbbarcelona.org/. |
| first_indexed | 2024-04-13T19:15:14Z |
| format | Article |
| id | doaj.art-f1b96d1f25864c0f9283a4041ec3264f |
| institution | Directory Open Access Journal |
| issn | 1756-994X |
| language | English |
| last_indexed | 2024-04-13T19:15:14Z |
| publishDate | 2018-08-01 |
| publisher | BMC |
| record_format | Article |
| series | Genome Medicine |
| spelling | doaj.art-f1b96d1f25864c0f9283a4041ec3264f2022-12-22T02:33:43ZengBMCGenome Medicine1756-994X2018-08-011011810.1186/s13073-018-0571-0Exploring the OncoGenomic Landscape of cancerLidia Mateo0Oriol Guitart-Pla1Miquel Duran-Frigola2Patrick Aloy3Joint IRB-BSC-CRG Program in Computational Biology, Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and TechnologyJoint IRB-BSC-CRG Program in Computational Biology, Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and TechnologyJoint IRB-BSC-CRG Program in Computational Biology, Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and TechnologyJoint IRB-BSC-CRG Program in Computational Biology, Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and TechnologyAbstract Background The widespread incorporation of next-generation sequencing into clinical oncology has yielded an unprecedented amount of molecular data from thousands of patients. A main current challenge is to find out reliable ways to extrapolate results from one group of patients to another and to bring rationale to individual cases in the light of what is known from the cohorts. Results We present OncoGenomic Landscapes, a framework to analyze and display thousands of cancer genomic profiles in a 2D space. Our tool allows users to rapidly assess the heterogeneity of large cohorts, enabling the comparison to other groups of patients, and using driver genes as landmarks to aid in the interpretation of the landscapes. In our web-server, we also offer the possibility of mapping new samples and cohorts onto 22 predefined landscapes related to cancer cell line panels, organoids, patient-derived xenografts, and clinical tumor samples. Conclusions Contextualizing individual subjects in a more general landscape of human cancer is a valuable aid for basic researchers and clinical oncologists trying to identify treatment opportunities, maybe yet unapproved, for patients that ran out of standard therapeutic options. The web-server can be accessed at https://oglandscapes.irbbarcelona.org/.http://link.springer.com/article/10.1186/s13073-018-0571-0 |
| spellingShingle | Lidia Mateo Oriol Guitart-Pla Miquel Duran-Frigola Patrick Aloy Exploring the OncoGenomic Landscape of cancer Genome Medicine |
| title | Exploring the OncoGenomic Landscape of cancer |
| title_full | Exploring the OncoGenomic Landscape of cancer |
| title_fullStr | Exploring the OncoGenomic Landscape of cancer |
| title_full_unstemmed | Exploring the OncoGenomic Landscape of cancer |
| title_short | Exploring the OncoGenomic Landscape of cancer |
| title_sort | exploring the oncogenomic landscape of cancer |
| url | http://link.springer.com/article/10.1186/s13073-018-0571-0 |
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