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Reconstructing evol...
Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig
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- Rubanova, Yulia (författare)
- University of Toronto
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- Shi, Ruian (författare)
- University of Toronto
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- Harrigan, Caitlin F (författare)
- University of Toronto
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- Li, Roujia (författare)
- University of Toronto
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- Wintersinger, Jeff (författare)
- University of Toronto
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- Sahin, Nil (författare)
- Vector Institute for Artificial Intelligence
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- Deshwar, Amit G (författare)
- University of Toronto
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- Morris, Quaid D (författare)
- Vector Institute for Artificial Intelligence
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- Borg, Åke (creator_code:cre_t)
- Lund University,Lunds universitet,Bröstcancer-genetik,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,Familjär bröstcancer,Forskargrupper vid Lunds universitet,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,Breastcancer-genetics,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine,Familial Breast Cancer,Lund University Research Groups,LUCC: Lund University Cancer Centre,Other Strong Research Environments
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- Ringnér, Markus (creator_code:cre_t)
- Lund University,Lunds universitet,Molekylär cellbiologi,Biologiska institutionen,Naturvetenskapliga fakulteten,Molecular Cell Biology,Department of Biology,Faculty of Science
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- Staaf, Johan (creator_code:cre_t)
- Lund University,Lunds universitet,Forskningsgrupp Lungcancer,Forskargrupper vid Lunds universitet,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,Bröst/lungcancer,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,Research Group Lung Cancer,Lund University Research Groups,LUCC: Lund University Cancer Centre,Other Strong Research Environments,Breast/lungcancer,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine
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- 2020-02-05
- 2020
- Engelska 12 s.
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Ingår i: Nature Communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 11
- Relaterad länk:
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http://dx.doi.org/10... (free)
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Abstract
Ämnesord
Stäng
- The type and genomic context of cancer mutations depend on their causes. These causes have been characterized using signatures that represent mutation types that co-occur in the same tumours. However, it remains unclear how mutation processes change during cancer evolution due to the lack of reliable methods to reconstruct evolutionary trajectories of mutational signature activity. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole-genome sequencing data from 2658 cancers across 38 tumour types, we present TrackSig, a new method that reconstructs these trajectories using optimal, joint segmentation and deconvolution of mutation type and allele frequencies from a single tumour sample. In simulations, we find TrackSig has a 3-5% activity reconstruction error, and 12% false detection rate. It outperforms an aggressive baseline in situations with branching evolution, CNA gain, and neutral mutations. Applied to data from 2658 tumours and 38 cancer types, TrackSig permits pan-cancer insight into evolutionary changes in mutational processes.
Ämnesord
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Medicinsk genetik (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Medical Genetics (hsv//eng)
Nyckelord
- Computational Biology/methods
- Computer Simulation
- Evolution, Molecular
- Gene Frequency
- Genome, Human
- Humans
- Mutation
- Neoplasms/genetics
- Polymorphism, Single Nucleotide
- Whole Genome Sequencing
Publikations- och innehållstyp
- art (ämneskategori)
- ref (ämneskategori)
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Till lärosätets databas
- Av författaren/redakt...
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Rubanova, Yulia
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Shi, Ruian
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Harrigan, Caitli ...
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Li, Roujia
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Wintersinger, Je ...
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Sahin, Nil
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visa fler...
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Deshwar, Amit G
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Morris, Quaid D
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Borg, Åke
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Ringnér, Markus
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Staaf, Johan
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visa färre...
- Om ämnet
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- MEDICIN OCH HÄLSOVETENSKAP
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MEDICIN OCH HÄLS ...
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och Medicinska och f ...
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och Medicinsk geneti ...
- Artiklar i publikationen
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Nature Communica ...
- Av lärosätet
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Lunds universitet
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Karolinska Institutet