• Reference Citation Analysis
  • v
  • v
  • Find an Article
Find an Article PDF (5073403)   Today's Articles (130)
For: Denti L, Khorsand P, Bonizzoni P, Hormozdiari F, Chikhi R. SVDSS: structural variation discovery in hard-to-call genomic regions using sample-specific strings from accurate long reads. Nat Methods 2023;20:550-558. [PMID: 36550274 DOI: 10.1038/s41592-022-01674-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2022] [Accepted: 10/08/2022] [Indexed: 12/24/2022]
Number Cited by Other Article(s)
1
Jayakodi M, Shim H, Mascher M. What Are We Learning from Plant Pangenomes? ANNUAL REVIEW OF PLANT BIOLOGY 2025;76:663-686. [PMID: 39621536 DOI: 10.1146/annurev-arplant-090823-015358] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2025]
2
Keskus AG, Bryant A, Ahmad T, Yoo B, Aganezov S, Goretsky A, Donmez A, Lansdon LA, Rodriguez I, Park J, Liu Y, Cui X, Gardner J, McNulty B, Sacco S, Shetty J, Zhao Y, Tran B, Narzisi G, Helland A, Cook DE, Chang PC, Kolesnikov A, Carroll A, Molloy EK, Bi C, Walter A, Gibson M, Pushel I, Guest E, Pastinen T, Shafin K, Miga KH, Malikic S, Day CP, Robine N, Sahinalp C, Dean M, Farooqi MS, Paten B, Kolmogorov M. Severus detects somatic structural variation and complex rearrangements in cancer genomes using long-read sequencing. Nat Biotechnol 2025:10.1038/s41587-025-02618-8. [PMID: 40185952 DOI: 10.1038/s41587-025-02618-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2024] [Accepted: 02/26/2025] [Indexed: 04/07/2025]
3
Wang S, Lin J, Jia P, Xu T, Li X, Liu Y, Xu D, Bush SJ, Meng D, Ye K. De novo and somatic structural variant discovery with SVision-pro. Nat Biotechnol 2025;43:181-185. [PMID: 38519720 PMCID: PMC11825360 DOI: 10.1038/s41587-024-02190-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2023] [Accepted: 02/27/2024] [Indexed: 03/25/2024]
4
Zhang Z, Zhang J, Kang L, Qiu X, Xu S, Xu J, Guo Y, Niu Z, Niu B, Bi A, Zhao X, Xu D, Wang J, Yin C, Lu F. Structural variation discovery in wheat using PacBio high-fidelity sequencing. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024;120:687-698. [PMID: 39239888 DOI: 10.1111/tpj.17011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2024] [Revised: 08/09/2024] [Accepted: 08/22/2024] [Indexed: 09/07/2024]
5
Luo C, Liu YH, Zhou XM. VolcanoSV enables accurate and robust structural variant calling in diploid genomes from single-molecule long read sequencing. Nat Commun 2024;15:6956. [PMID: 39138168 PMCID: PMC11322167 DOI: 10.1038/s41467-024-51282-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Accepted: 07/31/2024] [Indexed: 08/15/2024]  Open
6
Hu H, Gao R, Gao W, Gao B, Jiang Z, Zhou M, Wang G, Jiang T. SVDF: enhancing structural variation detect from long-read sequencing via automatic filtering strategies. Brief Bioinform 2024;25:bbae336. [PMID: 38980375 PMCID: PMC11232458 DOI: 10.1093/bib/bbae336] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2024] [Revised: 06/03/2024] [Accepted: 06/27/2024] [Indexed: 07/10/2024]  Open
7
Kosugi S, Terao C. Comparative evaluation of SNVs, indels, and structural variations detected with short- and long-read sequencing data. Hum Genome Var 2024;11:18. [PMID: 38632226 PMCID: PMC11024196 DOI: 10.1038/s41439-024-00276-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Revised: 03/12/2024] [Accepted: 03/20/2024] [Indexed: 04/19/2024]  Open
8
Helal AA, Saad BT, Saad MT, Mosaad GS, Aboshanab KM. Benchmarking long-read aligners and SV callers for structural variation detection in Oxford nanopore sequencing data. Sci Rep 2024;14:6160. [PMID: 38486064 PMCID: PMC10940726 DOI: 10.1038/s41598-024-56604-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Accepted: 03/08/2024] [Indexed: 03/18/2024]  Open
9
Ahsan MU, Liu Q, Perdomo JE, Fang L, Wang K. A survey of algorithms for the detection of genomic structural variants from long-read sequencing data. Nat Methods 2023;20:1143-1158. [PMID: 37386186 PMCID: PMC11208083 DOI: 10.1038/s41592-023-01932-w] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Accepted: 05/31/2023] [Indexed: 07/01/2023]
10
Yu J, Chen N, Zheng Z, Gao M, Liang N, Wong KC. Chromothripsis detection with multiple myeloma patients based on deep graph learning. Bioinformatics 2023;39:btad422. [PMID: 37399092 PMCID: PMC10343948 DOI: 10.1093/bioinformatics/btad422] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2023] [Revised: 06/20/2023] [Accepted: 06/30/2023] [Indexed: 07/05/2023]  Open
11
Sikic M. Facilitating genome structural variation analysis. Nat Methods 2023;20:491-492. [PMID: 36959321 DOI: 10.1038/s41592-023-01767-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/25/2023]
PrevPage 1 of 1 1Next
© 2004-2025 Baishideng Publishing Group Inc. All rights reserved. 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA