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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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Viewing 42 publications
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Publication Title Authors Grant Number(s) Journal (Pub date) PubMed Link Pub Year
Arsenic and UVR co-exposure results in unique gene expression profile identifying key co-carcinogeni ...   Speer, Rachel M; Yu, Hui; Zhou, Xixi; Nandi, Shuvro; Alexandrov, Ludmil; Guo, Yan; Hudson, La ... P42ES025589, R01ES030993 Toxicol Appl Pharmacol (2024 Jan) 38036231 Exiting the NIEHS site 2024 
Evaluating topography of mutational signatures with SigProfilerTopography.   Otlu, Burçak; Alexandrov, Ludmil B R01ES030993, R01ES032547 bioRxiv (2024 Jan 09) 38260507 Exiting the NIEHS site 2024 
High UV damage and low repair, but not cytosine deamination, stimulate mutation hotspots at ETS bind ...   Duan, Mingrui; Song, Shenghan; Wasserman, Hana; Lee, Po-Hsuen; Liu, Ke Jian; Gordân, Raluca; H ... R01ES030993, R21ES035139 Proc Natl Acad Sci U S A (2024 Jan 23) 38241433 Exiting the NIEHS site 2024 
A tribute to Scott W. Burchiel, PHD.   Hudson, Laurie G; Campen, Matt; Liu, Ke Jian P42ES025589, R01ES030993 Toxicol Appl Pharmacol (2023 Jan 15) 36526070 Exiting the NIEHS site 2023 
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 Exiting the NIEHS site 2023 
Arsenic and cancer: Evidence and mechanisms.   Speer, Rachel M; Zhou, Xixi; Volk, Lindsay B; Liu, Ke Jian; Hudson, Laurie G P42ES025589, R01ES030993 Adv Pharmacol (2023) 36858772 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 2023 
Comprehensive Pan-Cancer Mutation Density Patterns in Enhancer RNA.   Zhang, Troy; Yu, Hui; Jiang, Limin; Bai, Yongsheng; Liu, Xiaoyi; Guo, Yan R01ES030993 Int J Mol Sci (2023 Dec 30) 38203707 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 2023 
Mutation density analyses on long noncoding RNA reveal comparable patterns to protein-coding RNA and ...   Zhang, Troy; Yu, Hui; Bai, Yongsheng; Guo, Yan R01ES030993 Comput Struct Biotechnol J (2023) 37860228 Exiting the NIEHS site 2023 
Pan-cancer mutational signature surveys correlated mutational signature with geospatial environmenta ...   Bai, Judy; Ma, Katherine; Xia, Shangyang; Geng, Richard; Shen, Claire; Jiang, Limin; Gong, Xi ... R01ES030993, R01ES032037 Comput Struct Biotechnol J (2023) 38022689 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 2022 
Examining clustered somatic mutations with SigProfilerClusters.   Bergstrom, Erik N; Kundu, Mousumy; Tbeileh, Noura; Alexandrov, Ludmil B R01ES030993, R01ES032547 Bioinformatics (2022 Jun 27) 35595234 Exiting the NIEHS site 2022 
GTQC: Automated Genotyping Array Quality Control and Report.   Zhao, Shilin; Jiang, Limin; Yu, Hui; Guo, Yan R01ES030993 J Genomics (2022) 35300047 Exiting the NIEHS site 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 Exiting the NIEHS site 2022 
Is it time to reassess variant annotation?   Samuels, David C; Yu, Hui; Guo, Yan R01ES030993 Trends Genet (2022 Jun) 35232614 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 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 Exiting the NIEHS site 2020 
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