Publications
Selected Publications
Discovery of a polymorphic gene fusion via bottom-up chimeric RNA prediction. Nucleic Acids Res. 2024 doi: 10.1093/nar/gkae258. PubMed PMID: 38587197.
DNA fragility at topologically associated domain boundaries is promoted by alternative DNA secondary structure and topoisomerase II activity. Nucleic Acids Res. 2024 doi: 10.1093/nar/gkae164. PubMed PMID: 38452213.
Differential Gene Expression following DHX36/G4R1 Knockout Is Associated with G-Quadruplex Content and Cancer. Int J Mol Sci. 2024 doi: 10.3390/ijms25031753. PubMed PMID: 38339029; PubMed Central PMCID: PMC10855491
Michel N, Young HMR, Atkin ND, Arshad U, Al-Humadi R, Singh S, Manukyan A, Gore L, Burbulis IE, Wang YH, McConnell MJ. Transcription-associated DNA DSBs activate p53 during hiPSC-based neurogenesis. Scientific Reports, 2022, 12:12156. PMID: 35840793
Atkin ND, Raimer HM, Wang Z, Zang C, Wang YH. Assessing acute myeloid leukemia susceptibility in rearrangement-driven patients by DNA breakage at topoisomerase II and CCCTC-binding factor/cohensin binding sites. Genes, Chromosomes and Cancer, 2021 60:808-821. PMID: 34405474.
The RNA helicase DHX36-G4R1 modulates C9orf72 GGGGCC hexanucleotide repeat-associated translation. J Biol Chem. 2021 297(2):100914. PMID: 34174288.
Szlachta K, Manukyan A, Raimer, H, Singh S, Salamon A, Guo W, Lobachev K, Wang YH. Topoisomerase II contributes to DNA secondary structure-mediated double-stranded breaks. Nucleic Acids Research. 2020; 48(12):6654-6671. PMID: 32501506.
Singh S, Szlachta K, Manukyan A, Raimer H, Dinda M, Bekiranov S, Wang YH. Pausing sites of RNA polymerase II on actively transcribed genes are enriched with DNA double-stranded breaks. JBC. 2020; 295(12):3990-4000. PMID: 32029477
*Selected by the editor as the representative ‘Gene Regulation” article for the JBC 2020 retrospective collection (https://www.jbc.org/best-of-2020)
Szlachta K, Raimer H, Comeau L, Wang YH. CNCC: An analysis tool to determine genome-wide DNA break end structure at single-nucleotide resolution. BMC Genomics. 2020; 21(1):25. PMID: 31914926.
Irony-Tur Sinai M, Salamon A, Stanleigh N, Goldberg T, Weiss A, Wang YH, Kerem B, AT-dinucleotide rich sequences drive fragile site formation., 2019; Nucleic Acids Research. 47(18) 9685-9695. PMID: 31410468
Atkin N, Raimer H, Wang YH. Broken by the Cut: A Journey into the Role of Topoisomerase II on DNA Fragility. Genes. 2019; 10(10):791. PMID:31614754.
Huckaby AC, Granum CS, Carey MA, Szlachta K, Al-Barghouthi B, Wang YH, Guler JL, Complex DNA structures trigger copy number variation across the Plasmodium falciparum genome., 2018; Nucleic Acids Research. 47(4) 1615-1627. PMID: 30576466
Szlachta K, Thys R, Atkin N, Pierce L, Bekiranov S, Wang YH. Alternative DNA secondary structure formation affects RNA polymerase II promoter-proximal pausing in human. Genome Biology. 2018; 19(1):89. PMID:30001206.
Lehman C, Dillon L, Nikiforov Y, Wang YH. DNA fragile site breakage as a measure of chemical exposure and predictor of individual susceptibility to form oncogenic rearrangements. Carcinogenesis. 2017; 38(3): 293-301. PMID: 28069693
Chen C, Tsao N, Huang L, Yen Y, Liu X, Lehman C, Wang YH, Tseng M, Chen Y, Ho Y, Chen C, Chang Z. The Impact of dUTPase on Ribonucleotide Reductase-Induced Genome Instability in Cancer Cells. Cell Reports. 2016; 16(5): 1287-99. PMID: 27452458
Thys R, Lehman C, Pierce L, Wang YH. DNA secondary structure at chromosomal fragile sites in human disease. Current Genomics. 2015; 16(1): 60-70. PMID: 25937814 | PMCID: PMC4412965
Thys R, Lehman C, Pierce L, Wang YH. Environmental and chemotherapeutic agents induce breakage at genes involved in leukemia-causing gene rearrangements in human hematopoietic stem/progenitor cells. Mutation Research. 2015; 779 86-95. PMID: 26163765
Thys R, Wang Y. DNA Replication Dynamics of the GGGGCC Repeat of the C9orf72 Gene. JBC. 2015; 290(48): 28953-62. PMID: 26463209 | PMCID: PMC4661408
Reddy K, Schmidt M, Geist J, Thakkar N, Panigrahi G, Wang Y, Pearson C. Processing of double-R-loops in (CAG)·(CTG) and C9orf72 (GGGGCC)·(GGCCCC) repeats causes instability. Nucleic Acids Res. 2014; 42(16): 10473-87. PMID: 25147206
Axford M, Wang YH, Nakamori M, Zannis-Hadjopoulos M, Thornton C, Pearson C. Detection of Slipped-DNAs at the Trinucleotide Repeats of the Myotonic Dystrophy Type I Disease Locus in Patient Tissues. PLoS Genetics. 2013; 9(12): e1003866. PMID: 24367268 | PMCID: PMC3868534
Dillon L, Pierce L, Lehman C, Nikiforov Y, Wang YH. DNA topoisomerases participate in fragility of the oncogene RET. PloS One. 2013; 8(9): e75741. PMID: 24040417 | PMCID: PMC3770543
Dillon L, Pierce L, Ng M, Wang YH. Role of DNA secondary structures in fragile site breakage along human chromosome 10. Human Molecular Genetics. 2013; 22(7): 1443-56. PMID: 23297364 | PMCID: PMC3596854
Dillon L, Lehman C, Wang YH. The role of fragile sites in sporadic papillary thyroid carcinoma. Journal of Thyroid Research. 2012; 2012 927683. PMID: 22762011 | PMCID: PMC3384961
Dillon L, Burrow A, Wang YH. DNA instability at chromosomal fragile sites in cancer. Current Genomics. 2011; 11(5): 326-37. PMID: 21286310 | PMCID: PMC2944998
Burrow A, Marullo A, Holder L, Wang YH. Secondary structure formation and DNA instability at fragile site FRA16B. Nucleic Acids Res. 2010; 38(9): 2865-77. PMID: 20071743 | PMCID: PMC2875025
Gandhi M, Dillon L, Pramanik S, Nikiforov Y, Wang YH. DNA breaks at fragile sites generate oncogenic RET/PTC rearrangements in human thyroid cells. Oncogene. 2010; 29(15): 2272-80. PMID: 20101222 | PMCID: PMC2855398
Wan C, Kulkarni A, Wang YH. ATR preferentially interacts with common fragile site FRA3B and the binding requires its kinase activity in response to aphidicolin treatment. Mutation Research. 2010; 686(1): 39-46. PMID: 20060399 | PMCID: PMC2834799
Burrow A, Williams L, Pierce L, Wang YH. Over half of breakpoints in gene pairs involved in cancer-specific recurrent translocations are mapped to human chromosomal fragile sites. BMC Genomics. 2009; 10 59. PMID: 19183484 | PMCID: PMC2642838