• Reference Citation Analysis
  • v
  • v
  • Find an Article
Find an Article PDF (4640408)   Today's Articles (208)   Subscriber (50364)
For: De Coster W, De Rijk P, De Roeck A, De Pooter T, D'Hert S, Strazisar M, Sleegers K, Van Broeckhoven C. Structural variants identified by Oxford Nanopore PromethION sequencing of the human genome. Genome Res 2019;29:1178-1187. [PMID: 31186302 PMCID: PMC6633254 DOI: 10.1101/gr.244939.118] [Citation(s) in RCA: 89] [Impact Index Per Article: 17.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2018] [Accepted: 06/06/2019] [Indexed: 01/17/2023]
Number Cited by Other Article(s)
51
Quan C, Li Y, Liu X, Wang Y, Ping J, Lu Y, Zhou G. Characterization of structural variation in Tibetans reveals new evidence of high-altitude adaptation and introgression. Genome Biol 2021;22:159. [PMID: 34034800 PMCID: PMC8146648 DOI: 10.1186/s13059-021-02382-3] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Accepted: 05/14/2021] [Indexed: 01/09/2023]  Open
52
Valle-Inclan JE, Stangl C, de Jong AC, van Dessel LF, van Roosmalen MJ, Helmijr JCA, Renkens I, Janssen R, de Blank S, de Witte CJ, Martens JWM, Jansen MPHM, Lolkema MP, Kloosterman WP. Optimizing Nanopore sequencing-based detection of structural variants enables individualized circulating tumor DNA-based disease monitoring in cancer patients. Genome Med 2021;13:86. [PMID: 34006333 PMCID: PMC8130429 DOI: 10.1186/s13073-021-00899-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2020] [Accepted: 04/27/2021] [Indexed: 12/18/2022]  Open
53
Long-read sequencing of 3,622 Icelanders provides insight into the role of structural variants in human diseases and other traits. Nat Genet 2021;53:779-786. [PMID: 33972781 DOI: 10.1038/s41588-021-00865-4] [Citation(s) in RCA: 123] [Impact Index Per Article: 41.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2019] [Accepted: 04/05/2021] [Indexed: 01/05/2023]
54
Fujimoto A, Wong JH, Yoshii Y, Akiyama S, Tanaka A, Yagi H, Shigemizu D, Nakagawa H, Mizokami M, Shimada M. Whole-genome sequencing with long reads reveals complex structure and origin of structural variation in human genetic variations and somatic mutations in cancer. Genome Med 2021;13:65. [PMID: 33910608 PMCID: PMC8082928 DOI: 10.1186/s13073-021-00883-1] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Accepted: 04/06/2021] [Indexed: 02/06/2023]  Open
55
Vollrath P, Chawla HS, Schiessl SV, Gabur I, Lee H, Snowdon RJ, Obermeier C. A novel deletion in FLOWERING LOCUS T modulates flowering time in winter oilseed rape. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2021;134:1217-1231. [PMID: 33471161 PMCID: PMC7973412 DOI: 10.1007/s00122-021-03768-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2020] [Accepted: 01/06/2021] [Indexed: 05/05/2023]
56
Sailer S, Coassin S, Lackner K, Fischer C, McNeill E, Streiter G, Kremser C, Maglione M, Green CM, Moralli D, Moschen AR, Keller MA, Golderer G, Werner-Felmayer G, Tegeder I, Channon KM, Davies B, Werner ER, Watschinger K. When the genome bluffs: a tandem duplication event during generation of a novel Agmo knockout mouse model fools routine genotyping. Cell Biosci 2021;11:54. [PMID: 33726865 PMCID: PMC7962373 DOI: 10.1186/s13578-021-00566-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Accepted: 02/25/2021] [Indexed: 12/12/2022]  Open
57
van Belzen IAEM, Schönhuth A, Kemmeren P, Hehir-Kwa JY. Structural variant detection in cancer genomes: computational challenges and perspectives for precision oncology. NPJ Precis Oncol 2021;5:15. [PMID: 33654267 PMCID: PMC7925608 DOI: 10.1038/s41698-021-00155-6] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Accepted: 01/12/2021] [Indexed: 01/31/2023]  Open
58
Mariani M, Zimmerman C, Rodriguez P, Hasenohr E, Aimola G, Gerrard DL, Richman A, Dest A, Flamand L, Kaufer B, Frietze S. Higher-Order Chromatin Structures of Chromosomally Integrated HHV-6A Predict Integration Sites. Front Cell Infect Microbiol 2021;11:612656. [PMID: 33718266 PMCID: PMC7953476 DOI: 10.3389/fcimb.2021.612656] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Accepted: 01/20/2021] [Indexed: 12/31/2022]  Open
59
Akbari V, Garant JM, O'Neill K, Pandoh P, Moore R, Marra MA, Hirst M, Jones SJM. Megabase-scale methylation phasing using nanopore long reads and NanoMethPhase. Genome Biol 2021;22:68. [PMID: 33618748 PMCID: PMC7898412 DOI: 10.1186/s13059-021-02283-5] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Accepted: 01/29/2021] [Indexed: 02/08/2023]  Open
60
Zhou X, Zhang L, Weng Z, Dill DL, Sidow A. Aquila enables reference-assisted diploid personal genome assembly and comprehensive variant detection based on linked reads. Nat Commun 2021;12:1077. [PMID: 33597536 PMCID: PMC7889865 DOI: 10.1038/s41467-021-21395-x] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Accepted: 01/20/2021] [Indexed: 01/19/2023]  Open
61
Mitsuhashi S, Frith MC, Matsumoto N. Genome-wide survey of tandem repeats by nanopore sequencing shows that disease-associated repeats are more polymorphic in the general population. BMC Med Genomics 2021;14:17. [PMID: 33413375 PMCID: PMC7791882 DOI: 10.1186/s12920-020-00853-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2020] [Accepted: 12/08/2020] [Indexed: 12/13/2022]  Open
62
lamassemble: Multiple Alignment and Consensus Sequence of Long Reads. Methods Mol Biol 2021;2231:135-145. [PMID: 33289891 DOI: 10.1007/978-1-0716-1036-7_9] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/07/2022]
63
Joshi D, Mao S, Kannan S, Diggavi S. QAlign: aligning nanopore reads accurately using current-level modeling. Bioinformatics 2020;37:625-633. [PMID: 33051648 PMCID: PMC8097683 DOI: 10.1093/bioinformatics/btaa875] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2020] [Revised: 07/17/2020] [Accepted: 09/29/2020] [Indexed: 02/04/2023]  Open
64
Xie Y, Zhong Y, Chang J, Kwan HS. Chromosome-level de novo assembly of Coprinopsis cinerea A43mut B43mut pab1-1 #326 and genetic variant identification of mutants using Nanopore MinION sequencing. Fungal Genet Biol 2020;146:103485. [PMID: 33253902 DOI: 10.1016/j.fgb.2020.103485] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Revised: 10/22/2020] [Accepted: 11/13/2020] [Indexed: 11/26/2022]
65
Fatima N, Petri A, Gyllensten U, Feuk L, Ameur A. Evaluation of Single-Molecule Sequencing Technologies for Structural Variant Detection in Two Swedish Human Genomes. Genes (Basel) 2020;11:E1444. [PMID: 33266238 PMCID: PMC7760597 DOI: 10.3390/genes11121444] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Revised: 11/24/2020] [Accepted: 11/26/2020] [Indexed: 01/23/2023]  Open
66
Lecompte L, Peterlongo P, Lavenier D, Lemaitre C. SVJedi: genotyping structural variations with long reads. Bioinformatics 2020;36:4568-4575. [PMID: 32437523 DOI: 10.1093/bioinformatics/btaa527] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2019] [Revised: 03/27/2020] [Accepted: 05/18/2020] [Indexed: 12/19/2022]  Open
67
Ma X, Fan J, Wu Y, Zhao S, Zheng X, Sun C, Tan L. Whole-genome de novo assemblies reveal extensive structural variations and dynamic organelle-to-nucleus DNA transfers in African and Asian rice. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2020;104:596-612. [PMID: 32748498 PMCID: PMC7693357 DOI: 10.1111/tpj.14946] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Revised: 07/17/2020] [Accepted: 07/22/2020] [Indexed: 05/05/2023]
68
Xu Y, Yang-Turner F, Volk D, Crook D. NanoSPC: a scalable, portable, cloud compatible viral nanopore metagenomic data processing pipeline. Nucleic Acids Res 2020;48:W366-W371. [PMID: 32442274 PMCID: PMC7319573 DOI: 10.1093/nar/gkaa413] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Revised: 04/22/2020] [Accepted: 05/11/2020] [Indexed: 01/30/2023]  Open
69
Zhao H, Chen Y, Shen C, Li L, Li Q, Tan K, Huang H, Hu G. Breakpoint mapping of a t(9;22;12) chronic myeloid leukaemia patient with e14a3 BCR-ABL1 transcript using Nanopore sequencing. J Gene Med 2020;23:e3276. [PMID: 32949441 DOI: 10.1002/jgm.3276] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2020] [Revised: 09/03/2020] [Accepted: 09/14/2020] [Indexed: 01/01/2023]  Open
70
Yanagishita T, Imaizumi T, Yamamoto-Shimojima K, Yano T, Okamoto N, Nagata S, Yamamoto T. Breakpoint junction analysis for complex genomic rearrangements with the caldera volcano-like pattern. Hum Mutat 2020;41:2119-2127. [PMID: 32906213 DOI: 10.1002/humu.24108] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2020] [Revised: 08/25/2020] [Accepted: 09/06/2020] [Indexed: 12/16/2022]
71
Spealman P, Burrell J, Gresham D. Inverted duplicate DNA sequences increase translocation rates through sequencing nanopores resulting in reduced base calling accuracy. Nucleic Acids Res 2020;48:4940-4945. [PMID: 32255181 PMCID: PMC7229812 DOI: 10.1093/nar/gkaa206] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Revised: 03/14/2020] [Accepted: 04/03/2020] [Indexed: 12/27/2022]  Open
72
Aganezov S, Goodwin S, Sherman RM, Sedlazeck FJ, Arun G, Bhatia S, Lee I, Kirsche M, Wappel R, Kramer M, Kostroff K, Spector DL, Timp W, McCombie WR, Schatz MC. Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing. Genome Res 2020;30:1258-1273. [PMID: 32887686 PMCID: PMC7545150 DOI: 10.1101/gr.260497.119] [Citation(s) in RCA: 53] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2019] [Accepted: 08/07/2020] [Indexed: 12/14/2022]
73
Yang L. A Practical Guide for Structural Variation Detection in the Human Genome. CURRENT PROTOCOLS IN HUMAN GENETICS 2020;107:e103. [PMID: 32813322 PMCID: PMC7738216 DOI: 10.1002/cphg.103] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
74
Perumal S, Koh CS, Jin L, Buchwaldt M, Higgins EE, Zheng C, Sankoff D, Robinson SJ, Kagale S, Navabi ZK, Tang L, Horner KN, He Z, Bancroft I, Chalhoub B, Sharpe AG, Parkin IAP. A high-contiguity Brassica nigra genome localizes active centromeres and defines the ancestral Brassica genome. NATURE PLANTS 2020;6:929-941. [PMID: 32782408 PMCID: PMC7419231 DOI: 10.1038/s41477-020-0735-y] [Citation(s) in RCA: 60] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2020] [Accepted: 06/28/2020] [Indexed: 05/19/2023]
75
Yano Y, Chiba T, Asahara H. Analysis of the Mouse Y Chromosome by Single-Molecule Sequencing With Y Chromosome Enrichment. Front Genet 2020;11:406. [PMID: 32457799 PMCID: PMC7221202 DOI: 10.3389/fgene.2020.00406] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2019] [Accepted: 03/31/2020] [Indexed: 02/02/2023]  Open
76
De Coster W, Stovner EB, Strazisar M. Methplotlib: analysis of modified nucleotides from nanopore sequencing. Bioinformatics 2020;36:3236-3238. [PMID: 32053166 PMCID: PMC7214038 DOI: 10.1093/bioinformatics/btaa093] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Revised: 01/03/2020] [Accepted: 02/05/2020] [Indexed: 02/06/2023]  Open
77
Tham CY, Tirado-Magallanes R, Goh Y, Fullwood MJ, Koh BTH, Wang W, Ng CH, Chng WJ, Thiery A, Tenen DG, Benoukraf T. NanoVar: accurate characterization of patients' genomic structural variants using low-depth nanopore sequencing. Genome Biol 2020;21:56. [PMID: 32127024 PMCID: PMC7055087 DOI: 10.1186/s13059-020-01968-7] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2019] [Accepted: 02/21/2020] [Indexed: 12/19/2022]  Open
78
De Coster W, Strazisar M, De Rijk P. Critical length in long-read resequencing. NAR Genom Bioinform 2020;2:lqz027. [PMID: 33575574 PMCID: PMC7671308 DOI: 10.1093/nargab/lqz027] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2019] [Revised: 12/06/2019] [Accepted: 01/02/2020] [Indexed: 12/25/2022]  Open
79
Ho SS, Urban AE, Mills RE. Structural variation in the sequencing era. Nat Rev Genet 2020;21:171-189. [PMID: 31729472 PMCID: PMC7402362 DOI: 10.1038/s41576-019-0180-9] [Citation(s) in RCA: 280] [Impact Index Per Article: 70.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/26/2019] [Indexed: 12/13/2022]
80
Minervini CF, Cumbo C, Orsini P, Anelli L, Zagaria A, Specchia G, Albano F. Nanopore Sequencing in Blood Diseases: A Wide Range of Opportunities. Front Genet 2020;11:76. [PMID: 32140171 PMCID: PMC7043087 DOI: 10.3389/fgene.2020.00076] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2019] [Accepted: 01/23/2020] [Indexed: 12/20/2022]  Open
81
Simon R, Lischer HEL, Pieńkowska-Schelling A, Keller I, Häfliger IM, Letko A, Schelling C, Lühken G, Drögemüller C. New genomic features of the polled intersex syndrome variant in goats unraveled by long-read whole-genome sequencing. Anim Genet 2020;51:439-448. [PMID: 32060960 DOI: 10.1111/age.12918] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Revised: 01/23/2020] [Accepted: 01/23/2020] [Indexed: 01/19/2023]
82
Amarasinghe SL, Su S, Dong X, Zappia L, Ritchie ME, Gouil Q. Opportunities and challenges in long-read sequencing data analysis. Genome Biol 2020;21:30. [PMID: 32033565 PMCID: PMC7006217 DOI: 10.1186/s13059-020-1935-5] [Citation(s) in RCA: 768] [Impact Index Per Article: 192.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2019] [Accepted: 01/15/2020] [Indexed: 12/11/2022]  Open
83
Ruan J, Li H. Fast and accurate long-read assembly with wtdbg2. Nat Methods 2020;17:155-158. [PMID: 31819265 PMCID: PMC7004874 DOI: 10.1038/s41592-019-0669-3] [Citation(s) in RCA: 734] [Impact Index Per Article: 183.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2019] [Accepted: 11/05/2019] [Indexed: 12/26/2022]
84
Guan DL, Hao XQ, Mi D, Peng J, Li Y, Xie JY, Huang H, Xu SQ. Draft Genome of a Blister Beetle Mylabris aulica. Front Genet 2020;10:1281. [PMID: 32010178 PMCID: PMC6972506 DOI: 10.3389/fgene.2019.01281] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Accepted: 11/21/2019] [Indexed: 11/13/2022]  Open
85
Pereira R, Oliveira J, Sousa M. Bioinformatics and Computational Tools for Next-Generation Sequencing Analysis in Clinical Genetics. J Clin Med 2020;9:E132. [PMID: 31947757 PMCID: PMC7019349 DOI: 10.3390/jcm9010132] [Citation(s) in RCA: 94] [Impact Index Per Article: 23.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2019] [Revised: 12/15/2019] [Accepted: 12/30/2019] [Indexed: 12/13/2022]  Open
86
Jenko Bizjan B, Katsila T, Tesovnik T, Šket R, Debeljak M, Matsoukas MT, Kovač J. Challenges in identifying large germline structural variants for clinical use by long read sequencing. Comput Struct Biotechnol J 2019;18:83-92. [PMID: 32099591 PMCID: PMC7026727 DOI: 10.1016/j.csbj.2019.11.008] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2019] [Revised: 11/07/2019] [Accepted: 11/21/2019] [Indexed: 12/30/2022]  Open
87
De Roeck A, De Coster W, Bossaerts L, Cacace R, De Pooter T, Van Dongen J, D’Hert S, De Rijk P, Strazisar M, Van Broeckhoven C, Sleegers K. NanoSatellite: accurate characterization of expanded tandem repeat length and sequence through whole genome long-read sequencing on PromethION. Genome Biol 2019;20:239. [PMID: 31727106 PMCID: PMC6857246 DOI: 10.1186/s13059-019-1856-3] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2019] [Accepted: 10/10/2019] [Indexed: 12/13/2022]  Open
88
Zhou A, Lin T, Xing J. Evaluating nanopore sequencing data processing pipelines for structural variation identification. Genome Biol 2019;20:237. [PMID: 31727126 PMCID: PMC6857234 DOI: 10.1186/s13059-019-1858-1] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2019] [Accepted: 10/10/2019] [Indexed: 11/10/2022]  Open
89
Wijfjes RY, Smit S, de Ridder D. Hecaton: reliably detecting copy number variation in plant genomes using short read sequencing data. BMC Genomics 2019;20:818. [PMID: 31699036 PMCID: PMC6836508 DOI: 10.1186/s12864-019-6153-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Accepted: 09/30/2019] [Indexed: 01/27/2023]  Open
90
Playing a long game. Nat Methods 2019;16:683-686. [DOI: 10.1038/s41592-019-0507-7] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
91
Sone J, Mitsuhashi S, Fujita A, Mizuguchi T, Hamanaka K, Mori K, Koike H, Hashiguchi A, Takashima H, Sugiyama H, Kohno Y, Takiyama Y, Maeda K, Doi H, Koyano S, Takeuchi H, Kawamoto M, Kohara N, Ando T, Ieda T, Kita Y, Kokubun N, Tsuboi Y, Katoh K, Kino Y, Katsuno M, Iwasaki Y, Yoshida M, Tanaka F, Suzuki IK, Frith MC, Matsumoto N, Sobue G. Long-read sequencing identifies GGC repeat expansions in NOTCH2NLC associated with neuronal intranuclear inclusion disease. Nat Genet 2019;51:1215-1221. [PMID: 31332381 DOI: 10.1038/s41588-019-0459-y] [Citation(s) in RCA: 295] [Impact Index Per Article: 59.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2019] [Accepted: 05/29/2019] [Indexed: 12/20/2022]
92
Ping Z, Ma D, Huang X, Chen S, Liu L, Guo F, Zhu SJ, Shen Y. Carbon-based archiving: current progress and future prospects of DNA-based data storage. Gigascience 2019;8:giz075. [PMID: 31220251 PMCID: PMC6586197 DOI: 10.1093/gigascience/giz075] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2018] [Revised: 12/09/2018] [Accepted: 06/03/2019] [Indexed: 01/23/2023]  Open
PrevPage 2 of 2 12Next
© 2004-2024 Baishideng Publishing Group Inc. All rights reserved. 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA