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For: Alachiotis N, Pavlidis P. Scalable linkage-disequilibrium-based selective sweep detection: a performance guide. Gigascience 2016;5:7. [PMID: 26862394 PMCID: PMC4746822 DOI: 10.1186/s13742-016-0114-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2015] [Accepted: 01/20/2016] [Indexed: 01/09/2023]  Open
Number Cited by Other Article(s)
1
Lukaszewicz M, Salia OI, Hohenlohe PA, Buzbas EO. Approximate Bayesian computational methods to estimate the strength of divergent selection in population genomics models. JOURNAL OF COMPUTATIONAL MATHEMATICS AND DATA SCIENCE 2024;10:100091. [PMID: 38616846 PMCID: PMC11014422 DOI: 10.1016/j.jcmds.2024.100091] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 04/16/2024]
2
Korfmann K, Abu Awad D, Tellier A. Weak seed banks influence the signature and detectability of selective sweeps. J Evol Biol 2023;36:1282-1294. [PMID: 37551039 DOI: 10.1111/jeb.14204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2023] [Revised: 06/20/2023] [Accepted: 06/27/2023] [Indexed: 08/09/2023]
3
Kumar H, Panigrahi M, Panwar A, Rajawat D, Nayak SS, Saravanan KA, Kaisa K, Parida S, Bhushan B, Dutt T. Machine-Learning Prospects for Detecting Selection Signatures Using Population Genomics Data. J Comput Biol 2022;29:943-960. [PMID: 35639362 DOI: 10.1089/cmb.2021.0447] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]  Open
4
Semagn K, Iqbal M, Alachiotis N, N'Diaye A, Pozniak C, Spaner D. Genetic diversity and selective sweeps in historical and modern Canadian spring wheat cultivars using the 90K SNP array. Sci Rep 2021;11:23773. [PMID: 34893626 PMCID: PMC8664822 DOI: 10.1038/s41598-021-02666-5] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Accepted: 11/22/2021] [Indexed: 12/14/2022]  Open
5
Horscroft C, Ennis S, Pengelly RJ, Sluckin TJ, Collins A. Sequencing era methods for identifying signatures of selection in the genome. Brief Bioinform 2020;20:1997-2008. [PMID: 30053138 DOI: 10.1093/bib/bby064] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Revised: 05/16/2018] [Indexed: 12/12/2022]  Open
6
Koropoulis A, Alachiotis N, Pavlidis P. Detecting Positive Selection in Populations Using Genetic Data. Methods Mol Biol 2020;2090:87-123. [PMID: 31975165 DOI: 10.1007/978-1-0716-0199-0_5] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
7
Wegary D, Teklewold A, Prasanna BM, Ertiro BT, Alachiotis N, Negera D, Awas G, Abakemal D, Ogugo V, Gowda M, Semagn K. Molecular diversity and selective sweeps in maize inbred lines adapted to African highlands. Sci Rep 2019;9:13490. [PMID: 31530852 PMCID: PMC6748982 DOI: 10.1038/s41598-019-49861-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Accepted: 08/28/2019] [Indexed: 11/08/2022]  Open
8
Ndjiondjop MN, Alachiotis N, Pavlidis P, Goungoulou A, Kpeki SB, Zhao D, Semagn K. Comparisons of molecular diversity indices, selective sweeps and population structure of African rice with its wild progenitor and Asian rice. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019;132:1145-1158. [PMID: 30578434 PMCID: PMC6449321 DOI: 10.1007/s00122-018-3268-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/11/2018] [Accepted: 12/11/2018] [Indexed: 05/20/2023]
9
Zhou M, Pan Z, Cao X, Guo X, He X, Sun Q, Di R, Hu W, Wang X, Zhang X, Zhang J, Zhang C, Liu Q, Chu M. Single Nucleotide Polymorphisms in the HIRA Gene Affect Litter Size in Small Tail Han Sheep. Animals (Basel) 2018;8:ani8050071. [PMID: 29734691 PMCID: PMC5981282 DOI: 10.3390/ani8050071] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2018] [Revised: 04/28/2018] [Accepted: 04/28/2018] [Indexed: 12/19/2022]  Open
10
Weigand H, Leese F. Detecting signatures of positive selection in non-model species using genomic data. Zool J Linn Soc 2018. [DOI: 10.1093/zoolinnean/zly007] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
11
Li X, Yang S, Dong K, Tang Z, Li K, Fan B, Wang Z, Liu B. Identification of positive selection signatures in pigs by comparing linkage disequilibrium variances. Anim Genet 2017;48:600-605. [DOI: 10.1111/age.12574] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 05/11/2017] [Indexed: 11/26/2022]
12
Pavlidis P, Alachiotis N. A survey of methods and tools to detect recent and strong positive selection. ACTA ACUST UNITED AC 2017;24:7. [PMID: 28405579 PMCID: PMC5385031 DOI: 10.1186/s40709-017-0064-0] [Citation(s) in RCA: 58] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2016] [Accepted: 03/29/2017] [Indexed: 01/25/2023]
13
Alachiotis N, Pavlidis P. Scalable linkage-disequilibrium-based selective sweep detection: a performance guide. Gigascience 2016;5:7. [PMID: 26862394 PMCID: PMC4746822 DOI: 10.1186/s13742-016-0114-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2015] [Accepted: 01/20/2016] [Indexed: 01/09/2023]  Open
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