| Project Title: | MUTATIONAL SIGNATURES OF A COMBINED ENVIRONMENTAL EXPOSURE: ARSENIC AND ULTRAVIOLET RADIATION |
|---|---|
| PI: | Hudson, Laurie G |
| Institution: | University Of New Mexico Health Scis Ctr |
| Grant Number: | R01ES030993 |
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| Publication Title | Authors | Grant Number(s) | Journal (Pub date) | PubMed Link | Pub Year |
|---|---|---|---|---|---|
| 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 |
| 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
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2023 |
| CoMutDB: the landscape of somatic mutation co-occurrence in cancers. | Jiang, Limin; Yu, Hui; Tang, Jijun; Guo, Yan | R01ES030993 | Bioinformatics (2023 Jan 01) |
36355452
|
2023 |
| Deep neural network based tissue deconvolution of circulating tumor cell RNA. | Yan, Fengyao; Jiang, Limin; Ye, Fei; Ping, Jie; Bowley, Tetiana Y; Ness, Scott A; Li, Chung-I ... | R01ES030993 | J Transl Med (2023 Nov 04) |
37925448
|
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 |
| 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
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2023 |
| Somatic mutation effects diffused over microRNA dysregulation. | Yu, Hui; Jiang, Limin; Li, Chung-I; Ness, Scott; Piccirillo, Sara G M; Guo, Yan | R01ES030993 | Bioinformatics (2023 Sep 02) |
37624931
|
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 |
| 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 |
| Arsenic impairs the lineage commitment of hematopoietic progenitor cells through the attenuation of ... | Medina, Sebastian; Zhang, Haikun; Santos-Medina, Laura V; Wan, Guanghua; Bolt, Alicia M; Zhou, ... | P42ES025589, R01ES029369, R01ES030993 | Toxicol Appl Pharmacol (2022 Oct 01) |
35961411
|
2022 |
| Comprehensive Analysis of Co-Mutations Identifies Cooperating Mechanisms of Tumorigenesis. | Jiang, Limin; Yu, Hui; Ness, Scott; Mao, Peng; Guo, Fei; Tang, Jijun; Guo, Yan | R01ES030993 | Cancers (Basel) (2022 Jan 14) |
35053577
|
2022 |
| Contribution of NADPH oxidase to the retention of UVR-induced DNA damage by arsenic. | Cooper, Karen L; Volk, Lindsay B; Dominguez, Dayna R; Duran, Antonia D; Ke Jian Liu, K J; Hudso ... | P42ES025589, R01ES030993 | Toxicol Appl Pharmacol (2022 Jan 01) |
34798142
|
2022 |
| Examining clustered somatic mutations with SigProfilerClusters. | Bergstrom, Erik N; Kundu, Mousumy; Tbeileh, Noura; Alexandrov, Ludmil B | R01ES030993, R01ES032547 | Bioinformatics (2022 Jun 27) |
35595234
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2022 |
| GTQC: Automated Genotyping Array Quality Control and Report. | Zhao, Shilin; Jiang, Limin; Yu, Hui; Guo, Yan | R01ES030993 | J Genomics (2022) |
35300047
|
2022 |
| Impacts of arsenic on Rad18 and translesion synthesis. | Volk, L B; Cooper, K L; Jiang, T; Paffett, M L; Hudson, L G | P42ES025589, R01ES030993 | Toxicol Appl Pharmacol (2022 Nov 01) |
36087615
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2022 |
| Is it time to reassess variant annotation? | Samuels, David C; Yu, Hui; Guo, Yan | R01ES030993 | Trends Genet (2022 Jun) |
35232614
|
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 |
| SBSA: an online service for somatic binding sequence annotation. | Jiang, Limin; Guo, Fei; Tang, Jijun; Yu, Hui; Ness, Scott; Duan, Mingrui; Mao, Peng; Zhao, Y ... | R01ES030993 | Nucleic Acids Res (2022 01 11) |
34606615
|
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
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2022 |
| Small intestinal metabolomics analysis reveals differentially regulated metabolite profiles in obese ... | Meyer, Rachel K; Bime, Megan A; Duca, Frank A | R01ES030993 | Metabolomics (2022 Jul 23) |
35871176
|
2022 |
| A streamlined solution for processing, elucidating and quality control of cyclobutane pyrimidine dim ... | Sheng, Quanhu; Yu, Hui; Duan, Mingrui; Ness, Scott; He, Jiapeng; Kang, Huining; Jiang, Limin; ... | R01ES030993 | Nat Protoc (2021 04) |
33731963
|
2021 |
| Arsenic co-carcinogenesis: Inhibition of DNA repair and interaction with zinc finger proteins. | Zhou, Xixi; Speer, Rachel M; Volk, Lindsay; Hudson, Laurie G; Liu, Ke Jian | P42ES025589, R01ES029369, R01ES030993 | Semin Cancer Biol (2021 Nov) |
33984503
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2021 |
| EditPredict: Prediction of RNA editable sites with convolutional neural network. | Wang, Jiandong; Ness, Scott; Brown, Roger; Yu, Hui; Oyebamiji, Olufunmilola; Jiang, Limin; She ... | R01ES030993 | Genomics (2021 11) |
34562567
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2021 |
| Predicting MHC class I binder: existing approaches and a novel recurrent neural network solution. | Jiang, Limin; Yu, Hui; Li, Jiawei; Tang, Jijun; Guo, Yan; Guo, Fei | R01ES030993 | Brief Bioinform (2021 11 05) |
34131696
|
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 |
| Transcription-coupled nucleotide excision repair: New insights revealed by genomic approaches. | Duan, Mingrui; Speer, Rachel M; Ulibarri, Jenna; Liu, Ke Jian; Mao, Peng | R01ES030993 | DNA Repair (Amst) (2021 07) |
33894524
|
2021 |
| Uranium directly interacts with the DNA repair protein poly (ADP-ribose) polymerase 1. | Zhou, Xixi; Xue, Bingye; Medina, Sebastian; Burchiel, Scott W; Liu, Ke Jian | P42ES025589, R01ES029369, R01ES030993 | Toxicol Appl Pharmacol (2021 01 01) |
33279515
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2021 |
| Role of Nucleotide Excision Repair in Cisplatin Resistance. | Duan, Mingrui; Ulibarri, Jenna; Liu, Ke Jian; Mao, Peng | R01ES029369, R01ES030993 | Int J Mol Sci (2020 Dec 04) |
33291532
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2020 |