Project Title: | DETECTING MUTATIONAL SIGNATURES OF ENVIRONMENTAL MUTAGENS IN HEATHY INDIVIDUALS FOR PERSONALIZED CANCER PREVENTION |
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PI: | Alexandrov, Ludmil B |
Institution: | University Of California, San Diego |
Grant Number: | R01ES032547 |
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Publication Title | Authors | Grant Number(s) | Journal (Pub date) | PubMed Link | Pub Year |
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Evaluating topography of mutational signatures with SigProfilerTopography. | Otlu, Burçak; Alexandrov, Ludmil B | R01ES030993, R01ES032547 | bioRxiv (2024 Jan 09) | 38260507 | 2024 |
APOBEC3B regulates R-loops and promotes transcription-associated mutagenesis in cancer. | McCann, Jennifer L; Cristini, Agnese; Law, Emily K; Lee, Seo Yun; Tellier, Michael; Carpenter, ... | R01ES030993, R01ES032547 | Nat Genet (2023 Oct) | 37735199 | 2023 |
Arsenic is a potent co-mutagen of ultraviolet light. | Speer, Rachel M; Nandi, Shuvro P; Cooper, Karen L; Zhou, Xixi; Yu, Hui; Guo, Yan; Hudson, Lau ... | R01ES030993, R01ES032547 | bioRxiv (2023 Feb 23) | 36865271 | 2023 |
Arsenic is a potent co-mutagen of ultraviolet light. | Speer, Rachel M; Nandi, Shuvro P; Cooper, Karen L; Zhou, Xixi; Yu, Hui; Guo, Yan; Hudson, Lau ... | R01ES030993, R01ES032547 | Commun Biol (2023 Dec 16) | 38104187 | 2023 |
Assigning mutational signatures to individual samples and individual somatic mutations with SigProfi ... | Díaz-Gay, Marcos; Vangara, Raviteja; Barnes, Mark; Wang, Xi; Islam, S M Ashiqul; Vermes, Ian; ... | R01ES030993, R01ES032547 | Bioinformatics (2023 Dec 01) | 38096571 | 2023 |
Assigning mutational signatures to individual samples and individual somatic mutations with SigProfi ... | Díaz-Gay, Marcos; Vangara, Raviteja; Barnes, Mark; Wang, Xi; Islam, S M Ashiqul; Vermes, Ian; ... | R01ES030993, R01ES032547 | bioRxiv (2023 Jul 11) | 37502962 | 2023 |
Chromosomal fragile site breakage by EBV-encoded EBNA1 at clustered repeats. | Li, Julia Su Zhou; Abbasi, Ammal; Kim, Dong Hyun; Lippman, Scott M; Alexandrov, Ludmil B; Cleve ... | R01ES030993, R01ES032547 | Nature (2023 Apr) | 37046091 | 2023 |
Comprehensive analysis of mutational signatures reveals distinct patterns and molecular processes ac ... | Thatikonda, Venu; Islam, S M Ashiqul; Autry, Robert J; Jones, Barbara C; Gröbner, Susanne N; Wa ... | R01ES030993, R01ES032547 | Nat Cancer (2023 Feb) | 36702933 | 2023 |
Control-independent mosaic single nucleotide variant detection with DeepMosaic. | Yang, Xiaoxu; Xu, Xin; Breuss, Martin W; Antaki, Danny; Ball, Laurel L; Chung, Changuk; Shen, ... | R01ES032547 | Nat Biotechnol (2023 Jun) | 36593400 | 2023 |
DNA damage and somatic mutations in mammalian cells after irradiation with a nail polish dryer. | Zhivagui, Maria; Hoda, Areebah; Valenzuela, Noelia; Yeh, Yi-Yu; Dai, Jason; He, Yudou; Nandi, ... | R01ES030993, R01ES032547, R35ES031638 | Nat Commun (2023 Jan 17) | 36650165 | 2023 |
Extrachromosomal DNA in the cancerous transformation of Barrett's oesophagus. | Luebeck, Jens; Ng, Alvin Wei Tian; Galipeau, Patricia C; Li, Xiaohong; Sanchez, Carissa A; Katz ... | R01ES032547 | Nature (2023 Apr) | 37046089 | 2023 |
Mitotic tethering enables inheritance of shattered micronuclear chromosomes. | Trivedi, Prasad; Steele, Christopher D; Au, Franco K C; Alexandrov, Ludmil B; Cleveland, Don W | R01ES030993, R01ES032547 | Nature (2023 Jun) | 37316668 | 2023 |
Topography of mutational signatures in human cancer. | Otlu, Burçak; Díaz-Gay, Marcos; Vermes, Ian; Bergstrom, Erik N; Zhivagui, Maria; Barnes, Mark; ... | R01ES030993, R01ES032547 | Cell Rep (2023 Aug 29) | 37540596 | 2023 |
Unraveling the impact of a germline heterozygous POLD1 frameshift variant in serrated polyposis synd ... | Bonjoch, Laia; Soares de Lima, Yasmin; Díaz-Gay, Marcos; Dotti, Isabella; Muñoz, Jenifer; Morei ... | R01ES030993, R01ES032547 | Front Mol Biosci (2023) | 36756361 | 2023 |
Visualizing and exploring patterns of large mutational events with SigProfilerMatrixGenerator. | Khandekar, Azhar; Vangara, Raviteja; Barnes, Mark; Díaz-Gay, Marcos; Abbasi, Ammal; Bergstrom, ... | R01ES030993, R01ES032547 | BMC Genomics (2023 Aug 21) | 37605126 | 2023 |
An overview of mutational and copy number signatures in human cancer. | Steele, Christopher D; Pillay, Nischalan; Alexandrov, Ludmil B | R01ES030993, R01ES032547 | J Pathol (2022 Jul) | 35420163 | 2022 |
Examining clustered somatic mutations with SigProfilerClusters. | Bergstrom, Erik N; Kundu, Mousumy; Tbeileh, Noura; Alexandrov, Ludmil B | R01ES030993, R01ES032547 | Bioinformatics (2022 Jun 27) | 35595234 | 2022 |
Mapping clustered mutations in cancer reveals APOBEC3 mutagenesis of ecDNA. | Bergstrom, Erik N; Luebeck, Jens; Petljak, Mia; Khandekar, Azhar; Barnes, Mark; Zhang, Tongwu; ... | R01ES030993, R01ES032547 | Nature (2022 Feb) | 35140399 | 2022 |
Mechanisms of APOBEC3 mutagenesis in human cancer cells. | Petljak, Mia; Dananberg, Alexandra; Chu, Kevan; Bergstrom, Erik N; Striepen, Josefine; von Morg ... | R01ES030993, R01ES032547 | Nature (2022 Jul) | 35859169 | 2022 |
Signatures of copy number alterations in human cancer. | Steele, Christopher D; Abbasi, Ammal; Islam, S M Ashiqul; Bowes, Amy L; Khandekar, Azhar; Haase ... | R01ES030993, R01ES032547 | Nature (2022 Jun) | 35705804 | 2022 |
Uncovering novel mutational signatures by de novo extraction with SigProfilerExtractor. | Islam, S M Ashiqul; Díaz-Gay, Marcos; Wu, Yang; Barnes, Mark; Vangara, Raviteja; Bergstrom, Er ... | R01ES032547 | Cell Genom (2022 Nov 09) | 36388765 | 2022 |
Genomic and evolutionary classification of lung cancer in never smokers. | Zhang, Tongwu; Joubert, Philippe; Ansari-Pour, Naser; Zhao, Wei; Hoang, Phuc H; Lokanga, Rache ... | R01ES032547 | Nat Genet (2021 Sep) | 34493867 | 2021 |
Significance and limitations of the use of next-generation sequencing technologies for detecting mut ... | Abbasi, Ammal; Alexandrov, Ludmil B | R01ES030993, R01ES032547 | DNA Repair (Amst) (2021 Nov) | 34411908 | 2021 |