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Ming Xiao - Publications

Affiliations: 
School of Biomedical Engineering, Science and Health Systems Drexel University, Philadelphia, PA, United States 
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46 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Xiao M, Wei R, Yu J, Gao C, Yang F, Zhang L. CpG Island Definition and Methylation Mapping of the T2T-YAO Genome. Genomics, Proteomics & Bioinformatics. 22. PMID 39142816 DOI: 10.1093/gpbjnl/qzae009  0.35
2024 Uppuluri L, Shi CH, Varapula D, Young E, Ehrlich RL, Wang Y, Piazza D, Mell JC, Yip KY, Xiao M. A long-read sequencing strategy with overlapping linkers on adjacent fragments (OLAF-Seq) for targeted resequencing and enrichment. Scientific Reports. 14: 5583. PMID 38448490 DOI: 10.1038/s41598-024-56402-w  0.323
2022 Uppuluri L, Wang Y, Young E, Wong JS, Abid HZ, Xiao M. Multiplex structural variant detection by whole-genome mapping and nanopore sequencing. Scientific Reports. 12: 6512. PMID 35444207 DOI: 10.1038/s41598-022-10483-7  0.35
2021 Uppuluri L, Jadhav T, Wang Y, Xiao M. Multicolor Whole-Genome Mapping in Nanochannels for Genetic Analysis. Analytical Chemistry. PMID 34232611 DOI: 10.1021/acs.analchem.1c01373  0.357
2020 Abid HZ, Young E, McCaffrey J, Raseley K, Varapula D, Wang HY, Piazza D, Mell J, Xiao M. Customized optical mapping by CRISPR-Cas9 mediated DNA labeling with multiple sgRNAs. Nucleic Acids Research. PMID 33231685 DOI: 10.1093/nar/gkaa1088  0.405
2020 Wong KHY, Ma W, Wei CY, Yeh EC, Lin WJ, Wang EHF, Su JP, Hsieh FJ, Kao HJ, Chen HH, Chow SK, Young E, Chu C, Poon A, Yang CF, ... ... Xiao M, et al. Towards a reference genome that captures global genetic diversity. Nature Communications. 11: 5482. PMID 33127893 DOI: 10.1038/s41467-020-19311-w  0.392
2020 Pastor S, Tran O, Jin A, Carrado D, Silva BA, Uppuluri L, Abid HZ, Young E, Crowley TB, Bailey AG, McGinn DE, McDonald-McGinn DM, Zackai EH, Xie M, Taylor D, ... ... Xiao M, et al. Optical mapping of the 22q11.2DS region reveals complex repeat structures and preferred locations for non-allelic homologous recombination (NAHR). Scientific Reports. 10: 12235. PMID 32699385 DOI: 10.1038/S41598-020-69134-4  0.742
2020 Abid HZ, McCaffrey J, Raseley K, Young E, Lassahn K, Varapula D, Riethman H, Xiao M. Single-molecule analysis of subtelomeres and telomeres in Alternative Lengthening of Telomeres (ALT) cells. Bmc Genomics. 21: 485. PMID 32669102 DOI: 10.1186/S12864-020-06901-7  0.38
2020 Young E, Abid HZ, Kwok PY, Riethman H, Xiao M. Comprehensive Analysis of Human Subtelomeres by Whole Genome Mapping. Plos Genetics. 16: e1008347. PMID 31986135 DOI: 10.1371/Journal.Pgen.1008347  0.528
2019 Heft IE, Mostovoy Y, Levy-Sakin M, Ma W, Stevens AJ, Pastor S, McCaffrey J, Boffelli D, Martin DI, Xiao M, Kennedy MA, Kwok PY, Sikela JM. The Driver of Extreme Human-Specific Olduvai Repeat Expansion Remains Highly Active in the Human Genome. Genetics. PMID 31754017 DOI: 10.1534/Genetics.119.302782  0.756
2019 Król JE, Hall DC, Balashov S, Pastor S, Sibert J, McCaffrey J, Lang S, Ehrlich RL, Earl J, Mell JC, Xiao M, Ehrlich GD. Genome rearrangements induce biofilm formation in Escherichia coli C - an old model organism with a new application in biofilm research. Bmc Genomics. 20: 767. PMID 31640553 DOI: 10.1186/S12864-019-6165-4  0.698
2019 Varapula D, LaBouff E, Raseley K, Uppuluri L, Ehrlich GD, Noh M, Xiao M. A micropatterned substrate for on-surface enzymatic labelling of linearized long DNA molecules. Scientific Reports. 9: 15059. PMID 31636335 DOI: 10.1038/S41598-019-51507-Z  0.348
2019 Demaerel W, Mostovoy Y, Yilmaz F, Vervoort L, Pastor S, Hestand MS, Swillen A, Vergaelen E, Geiger EA, Coughlin CR, Chow SK, McDonald-McGinn D, Morrow B, Kwok PY, Xiao M, et al. The 22q11 low copy repeats are characterized by unprecedented size and structural variability. Genome Research. 29: 1389-1401. PMID 31481461 DOI: 10.1101/Gr.248682.119  0.75
2019 Belsare S, Levy-Sakin M, Mostovoy Y, Durinck S, Chaudhuri S, Xiao M, Peterson AS, Kwok PY, Seshagiri S, Wall JD. Evaluating the quality of the 1000 genomes project data. Bmc Genomics. 20: 620. PMID 31416423 DOI: 10.1186/S12864-019-5957-X  0.395
2019 Islam T, Ranjan D, Zubair M, Young E, Xiao M, Riethman H. Analysis of Subtelomeric REXTAL Assemblies Using QUAST. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 31056507 DOI: 10.1109/Tcbb.2019.2913845  0.46
2019 Chaisson MJP, Sanders AD, Zhao X, Malhotra A, Porubsky D, Rausch T, Gardner EJ, Rodriguez OL, Guo L, Collins RL, Fan X, Wen J, Handsaker RE, Fairley S, Kronenberg ZN, ... ... Xiao M, et al. Multi-platform discovery of haplotype-resolved structural variation in human genomes. Nature Communications. 10: 1784. PMID 30992455 DOI: 10.1038/S41467-018-08148-Z  0.495
2019 Levy-Sakin M, Pastor S, Mostovoy Y, Li L, Leung AKY, McCaffrey J, Young E, Lam ET, Hastie AR, Wong KHY, Chung CYL, Ma W, Sibert J, Rajagopalan R, Jin N, ... ... Xiao M, et al. Genome maps across 26 human populations reveal population-specific patterns of structural variation. Nature Communications. 10: 1025. PMID 30833565 DOI: 10.1038/S41467-019-08992-7  0.754
2018 Islam T, Ranjan D, Young E, Xiao M, Zubair M, Riethman H. REXTAL: Regional Extension of Assemblies Using Linked-Reads. Bioinformatics Research and Applications : 14th International Symposium, Isbra 2018, Beijing, China, June 8-11, 2018, Proceedings. Isbra (Conference) (14th : 2018 : Beijing, China). 10847: 63-78. PMID 32016171 DOI: 10.1007/978-3-319-94968-0_6  0.357
2018 Zhang L, Xiao M, Zhou J, Yu J. Lineage-associated Underrepresented Permutations (LAUPs) of Mammalian Genomic Sequences Based on a Jellyfish-based LAUPs analysis application (JBLA). Bioinformatics (Oxford, England). PMID 29762634 DOI: 10.1093/Bioinformatics/Bty392  0.325
2017 Li L, Leung AK, Kwok TP, Lai YYY, Pang IK, Chung GT, Mak ACY, Poon A, Chu C, Li M, Wu JJK, Lam ET, Cao H, Lin C, Sibert J, ... ... Xiao M, et al. OMSV enables accurate and comprehensive identification of large structural variations from nanochannel-based single-molecule optical maps. Genome Biology. 18: 230. PMID 29195502 DOI: 10.1186/S13059-017-1356-2  0.4
2017 McCaffrey J, Young E, Lassahn K, Sibert J, Pastor S, Riethman H, Xiao M. High-throughput single-molecule telomere characterization. Genome Research. PMID 29025896 DOI: 10.1101/Gr.222422.117  0.754
2017 Young E, Pastor S, Rajagopalan R, McCaffrey J, Sibert J, Mak AC, Kwok PY, Riethman H, Xiao M. High-throughput single-molecule mapping links subtelomeric variants and long-range haplotypes with specific telomeres. Nucleic Acids Research. PMID 28180280 DOI: 10.1093/Nar/Gkx017  0.763
2017 Leung AK, Kwok TP, Wan R, Xiao M, Kwok PY, Yip KY, Chan TF. OMBlast: alignment tool for optical mapping using a seed-and-extend approach. Bioinformatics (Oxford, England). 33: 311-319. PMID 28172448 DOI: 10.1093/Bioinformatics/Btw620  0.358
2017 Rajagopalan R, McEldrew D, Vaidiswaran P, Zaykaner M, Jayaraman V, McCaffrey J, Sibert J, Xiao M, Conlin L. Investigating Structural Variation Using Optical Genome Mapping Technology Cancer Genetics and Cytogenetics. 214: 39. DOI: 10.1016/J.Cancergen.2017.04.023  0.4
2015 Mak AC, Lai YY, Lam ET, Kwok TP, Leung AK, Poon A, Mostovoy Y, Hastie AR, Stedman W, Anantharaman T, Andrews W, Zhou X, Pang AW, Dai H, Chu C, ... ... Xiao M, et al. Genome-Wide Structural Variation Detection by Genome Mapping on Nanochannel Arrays. Genetics. PMID 26510793 DOI: 10.1534/Genetics.115.183483  0.52
2015 McCaffrey J, Sibert J, Zhang B, Zhang Y, Hu W, Riethman H, Xiao M. CRISPR-CAS9 D10A nickase target-specific fluorescent labeling of double strand DNA for whole genome mapping and structural variation analysis. Nucleic Acids Research. PMID 26481349 DOI: 10.1093/Nar/Gkv878  0.347
2013 Hastie AR, Dong L, Smith A, Finklestein J, Lam ET, Huo N, Cao H, Kwok PY, Deal KR, Dvorak J, Luo MC, Gu Y, Xiao M. Rapid genome mapping in nanochannel arrays for highly complete and accurate de novo sequence assembly of the complex Aegilops tauschii genome. Plos One. 8: e55864. PMID 23405223 DOI: 10.1371/Journal.Pone.0055864  0.489
2012 Lam ET, Hastie A, Lin C, Ehrlich D, Das SK, Austin MD, Deshpande P, Cao H, Nagarajan N, Xiao M, Kwok PY. Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly. Nature Biotechnology. 30: 771-6. PMID 22797562 DOI: 10.1038/Nbt.2303  0.495
2012 Baday M, Cravens A, Hastie A, Kim H, Kudeki DE, Kwok PY, Xiao M, Selvin PR. Multicolor super-resolution DNA imaging for genetic analysis Nano Letters. 12: 3861-3866. PMID 22698062 DOI: 10.1021/Nl302069Q  0.374
2012 Baday M, Hastie A, Cravens A, Kudeki DE, Xiao M, Selvin P. Advance High Resolution DNA Mapping Technique to Identify Genomic Variations Biophysical Journal. 102: 420a. DOI: 10.1016/J.Bpj.2011.11.2295  0.448
2011 Su T, Das SK, Xiao M, Purohit PK. Transition between two regimes describing internal fluctuation of DNA in a nanochannel. Plos One. 6: e16890. PMID 21423606 DOI: 10.1371/Journal.Pone.0016890  0.323
2010 Das SK, Austin MD, Akana MC, Deshpande P, Cao H, Xiao M. Single molecule linear analysis of DNA in nano-channel labeled with sequence specific fluorescent probes Nucleic Acids Research. 38. PMID 20699272 DOI: 10.1093/Nar/Gkq673  0.368
2009 Xiao M, Wan E, Chu C, Hsueh WC, Cao Y, Kwok PY. Direct determination of haplotypes from single DNA molecules Nature Methods. 6: 199-201. PMID 19198595 DOI: 10.1038/Nmeth.1301  0.425
2007 Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll SA, Gaudet R, Schaffner SF, Lander ES, Frazer KA, Ballinger DG, ... ... Xiao M, et al. Genome-wide detection and characterization of positive selection in human populations. Nature. 449: 913-8. PMID 17943131 DOI: 10.1038/Nature06250  0.398
2007 Frazer KA, Ballinger DG, Cox DR, Hinds DA, Stuve LL, Gibbs RA, Belmont JW, Boudreau A, Hardenbol P, Leal SM, Pasternak S, Wheeler DA, Willis TD, Yu F, ... ... Xiao M, et al. A second generation human haplotype map of over 3.1 million SNPs. Nature. 449: 851-61. PMID 17943122 DOI: 10.1038/Nature06258  0.379
2007 Xiao M, Gordon MP, Phong A, Ha C, Chan TF, Cai D, Selvin PR, Kwok PY. Determination of haplotypes from single DNA molecules: a method for single-molecule barcoding. Human Mutation. 28: 913-21. PMID 17443670 DOI: 10.1002/Humu.20528  0.369
2007 Xiao M, Phong A, Ha C, Chan TF, Cai D, Leung L, Wan E, Kistler AL, DeRisi JL, Selvin PR, Kwok PY. Rapid DNA mapping by fluorescent single molecule detection. Nucleic Acids Research. 35: e16. PMID 17175538 DOI: 10.1093/Nar/Gkl1044  0.426
2006 Chan TF, Ha C, Phong A, Cai D, Wan E, Leung L, Kwok PY, Xiao M. A simple DNA stretching method for fluorescence imaging of single DNA molecules. Nucleic Acids Research. 34: e113. PMID 16971459 DOI: 10.1093/Nar/Gkl593  0.318
2005 Freimuth RR, Xiao M, Marsh S, Minton M, Addleman N, Van Booven DJ, McLeod HL, Kwok PY. Polymorphism discovery in 51 chemotherapy pathway genes. Human Molecular Genetics. 14: 3595-603. PMID 16239245 DOI: 10.1093/Hmg/Ddi387  0.341
2005 Xiao M, Kwok P. Kinetic fluorescence-quenching detection assay for allele frequency estimation. Methods of Molecular Biology. 311: 115-123. PMID 16100403 DOI: 10.1385/1-59259-957-5:115  0.333
2005 Belmont JW, Boudreau A, Leal SM, Hardenbol P, Pasternak S, Wheeler DA, Willis TD, Yu F, Yang H, Gao Y, Hu H, Hu W, Li C, Lin W, Liu S, ... ... Xiao M, et al. A haplotype map of the human genome Nature. 437: 1299-1320. DOI: 10.1038/Nature04226  0.46
2005 Freimuth RR, Marsh S, Xiao M, Kwok P, McLeod HL. Identification of genetic polymorphisms in 40 chemotherapy pathway genes Clinical Pharmacology & Therapeutics. 77. DOI: 10.1016/J.Clpt.2004.12.132  0.322
2004 Marsh S, Xiao M, Yu J, Ahluwalia R, Minton M, Freimuth RR, Kwok PY, McLeod HL. Pharmacogenomic assessment of carboxylesterases 1 and 2. Genomics. 84: 661-8. PMID 15475243 DOI: 10.1016/J.Ygeno.2004.07.008  0.323
2004 Kwok PY, Xiao M. Single-molecule analysis for molecular haplotyping. Human Mutation. 23: 442-6. PMID 15108275 DOI: 10.1002/Humu.20020  0.449
2003 Xiao M, Kwok P. DNA analysis by fluorescence quenching detection. Genome Research. 13: 932-939. PMID 12727909 DOI: 10.1101/Gr.987803  0.345
2003 Belmont JW, Hardenbol P, Willis TD, Yu F, Yang H, Ch'Ang LY, Huang W, Liu B, Shen Y, Tam PKH, Tsui LC, Waye MMY, Wong JTF, Zeng C, Zhang Q, ... ... Xiao M, et al. The international HapMap project Nature. 426: 789-796. DOI: 10.1038/Nature02168  0.448
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