A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preference
Copy number alterations (CNAs) in cancer patients show a large variability in their number, length and position, but the sources of this variability are not known. CNA number and length are linked to patient survival, suggesting clinical relevance. We have identified genes that tend to be mutated in...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
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eLife Sciences Publications Ltd
2016-11-01
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| Series: | eLife |
| Subjects: | |
| Online Access: | https://elifesciences.org/articles/16519 |
| _version_ | 1811200373158838272 |
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| author | Dina Cramer Luis Serrano Martin H Schaefer |
| author_facet | Dina Cramer Luis Serrano Martin H Schaefer |
| author_sort | Dina Cramer |
| collection | DOAJ |
| description | Copy number alterations (CNAs) in cancer patients show a large variability in their number, length and position, but the sources of this variability are not known. CNA number and length are linked to patient survival, suggesting clinical relevance. We have identified genes that tend to be mutated in samples that have few or many CNAs, which we term CONIM genes (COpy Number Instability Modulators). CONIM proteins cluster into a densely connected subnetwork of physical interactions and many of them are epigenetic modifiers. Therefore, we investigated how the epigenome of the tissue-of-origin influences the position of CNA breakpoints and the properties of the resulting CNAs. We found that the presence of heterochromatin in the tissue-of-origin contributes to the recurrence and length of CNAs in the respective cancer type. |
| first_indexed | 2024-04-12T02:03:49Z |
| format | Article |
| id | doaj.art-8b33e334a5fe48889ba953d661d83f4a |
| institution | Directory Open Access Journal |
| issn | 2050-084X |
| language | English |
| last_indexed | 2024-04-12T02:03:49Z |
| publishDate | 2016-11-01 |
| publisher | eLife Sciences Publications Ltd |
| record_format | Article |
| series | eLife |
| spelling | doaj.art-8b33e334a5fe48889ba953d661d83f4a2022-12-22T03:52:36ZengeLife Sciences Publications LtdeLife2050-084X2016-11-01510.7554/eLife.16519A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preferenceDina Cramer0Luis Serrano1Martin H Schaefer2https://orcid.org/0000-0001-7503-6364EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation, The Barcelona Institute of Science and Technology, Barcelona, Spain; Universitat Pompeu Fabra, Barcelona, SpainEMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation, The Barcelona Institute of Science and Technology, Barcelona, Spain; Universitat Pompeu Fabra, Barcelona, Spain; Institució Catalana de Recerca i Estudis Avançats, Barcelona, SpainEMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation, The Barcelona Institute of Science and Technology, Barcelona, Spain; Universitat Pompeu Fabra, Barcelona, SpainCopy number alterations (CNAs) in cancer patients show a large variability in their number, length and position, but the sources of this variability are not known. CNA number and length are linked to patient survival, suggesting clinical relevance. We have identified genes that tend to be mutated in samples that have few or many CNAs, which we term CONIM genes (COpy Number Instability Modulators). CONIM proteins cluster into a densely connected subnetwork of physical interactions and many of them are epigenetic modifiers. Therefore, we investigated how the epigenome of the tissue-of-origin influences the position of CNA breakpoints and the properties of the resulting CNAs. We found that the presence of heterochromatin in the tissue-of-origin contributes to the recurrence and length of CNAs in the respective cancer type.https://elifesciences.org/articles/16519cancer genomicscopy number alterationstissue-specificity of disease |
| spellingShingle | Dina Cramer Luis Serrano Martin H Schaefer A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preference eLife cancer genomics copy number alterations tissue-specificity of disease |
| title | A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preference |
| title_full | A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preference |
| title_fullStr | A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preference |
| title_full_unstemmed | A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preference |
| title_short | A network of epigenetic modifiers and DNA repair genes controls tissue-specific copy number alteration preference |
| title_sort | network of epigenetic modifiers and dna repair genes controls tissue specific copy number alteration preference |
| topic | cancer genomics copy number alterations tissue-specificity of disease |
| url | https://elifesciences.org/articles/16519 |
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