194 related articles for article (PubMed ID: 23202421)
1. QColors: an algorithm for conservative viral quasispecies reconstruction from short and non-contiguous next generation sequencing reads.
Huang A; Kantor R; DeLong A; Schreier L; Istrail S
In Silico Biol; 2011-2012; 11(5-6):193-201. PubMed ID: 23202421
[TBL] [Abstract][Full Text] [Related]
2. Streamlined Subpopulation, Subtype, and Recombination Analysis of HIV-1 Half-Genome Sequences Generated by High-Throughput Sequencing.
Hora B; Gulzar N; Chen Y; Karagiannis K; Cai F; Su C; Smith K; Simonyan V; Shah SA; Ahmed M; Sanchez AM; Stone M; Cohen MS; Denny TN; Mazumder R; Gao F
mSphere; 2020 Oct; 5(5):. PubMed ID: 33055255
[TBL] [Abstract][Full Text] [Related]
3. aBayesQR: A Bayesian Method for Reconstruction of Viral Populations Characterized by Low Diversity.
Ahn S; Vikalo H
J Comput Biol; 2018 Jul; 25(7):637-648. PubMed ID: 29480740
[TBL] [Abstract][Full Text] [Related]
4. Viral quasispecies reconstruction via tensor factorization with successive read removal.
Ahn S; Ke Z; Vikalo H
Bioinformatics; 2018 Jul; 34(13):i23-i31. PubMed ID: 29949976
[TBL] [Abstract][Full Text] [Related]
5. QSdpR: Viral quasispecies reconstruction via correlation clustering.
Barik S; Das S; Vikalo H
Genomics; 2018 Nov; 110(6):375-381. PubMed ID: 29268961
[TBL] [Abstract][Full Text] [Related]
6. An efficient and scalable graph modeling approach for capturing information at different levels in next generation sequencing reads.
Warnke JD; Ali HH
BMC Bioinformatics; 2013; 14 Suppl 11(Suppl 11):S7. PubMed ID: 24564333
[TBL] [Abstract][Full Text] [Related]
7. Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows.
Skums P; Mancuso N; Artyomenko A; Tork B; Mandoiu I; Khudyakov Y; Zelikovsky A
BMC Bioinformatics; 2013; 14 Suppl 9(Suppl 9):S2. PubMed ID: 23902469
[TBL] [Abstract][Full Text] [Related]
8. HIV-1 quasispecies delineation by tag linkage deep sequencing.
Wu NC; De La Cruz J; Al-Mawsawi LQ; Olson CA; Qi H; Luan HH; Nguyen N; Du Y; Le S; Wu TT; Li X; Lewis MJ; Yang OO; Sun R
PLoS One; 2014; 9(5):e97505. PubMed ID: 24842159
[TBL] [Abstract][Full Text] [Related]
9. Combinatorial analysis and algorithms for quasispecies reconstruction using next-generation sequencing.
Prosperi MC; Prosperi L; Bruselles A; Abbate I; Rozera G; Vincenti D; Solmone MC; Capobianchi MR; Ulivi G
BMC Bioinformatics; 2011 Jan; 12():5. PubMed ID: 21208435
[TBL] [Abstract][Full Text] [Related]
10. Applying next-generation sequencing to unravel the mutational landscape in viral quasispecies.
Lu IN; Muller CP; He FQ
Virus Res; 2020 Jul; 283():197963. PubMed ID: 32278821
[TBL] [Abstract][Full Text] [Related]
11. Inference of viral quasispecies with a paired de Bruijn graph.
Freire B; Ladra S; Paramá JR; Salmela L
Bioinformatics; 2021 May; 37(4):473-481. PubMed ID: 32926162
[TBL] [Abstract][Full Text] [Related]
12. Viral quasispecies inference from 454 pyrosequencing.
Poh WT; Xia E; Chin-Inmanu K; Wong LP; Cheng AY; Malasit P; Suriyaphol P; Teo YY; Ong RT
BMC Bioinformatics; 2013 Dec; 14():355. PubMed ID: 24308284
[TBL] [Abstract][Full Text] [Related]
13. ViQuaS: an improved reconstruction pipeline for viral quasispecies spectra generated by next-generation sequencing.
Jayasundara D; Saeed I; Maheswararajah S; Chang BC; Tang SL; Halgamuge SK
Bioinformatics; 2015 Mar; 31(6):886-96. PubMed ID: 25398613
[TBL] [Abstract][Full Text] [Related]
14. Inferring viral quasispecies spectra from 454 pyrosequencing reads.
Astrovskaya I; Tork B; Mangul S; Westbrooks K; Măndoiu I; Balfe P; Zelikovsky A
BMC Bioinformatics; 2011; 12 Suppl 6(Suppl 6):S1. PubMed ID: 21989211
[TBL] [Abstract][Full Text] [Related]
15. De novo haplotype reconstruction in viral quasispecies using paired-end read guided path finding.
Chen J; Zhao Y; Sun Y
Bioinformatics; 2018 Sep; 34(17):2927-2935. PubMed ID: 29617936
[TBL] [Abstract][Full Text] [Related]
16. ViPRA-Haplo: De Novo Reconstruction of Viral Populations Using Paired End Sequencing Data.
Li W; Malhotra R; Wu S; Jha M; Rodrigo A; Poss M; Acharya R
IEEE/ACM Trans Comput Biol Bioinform; 2024; 21(3):492-500. PubMed ID: 38451771
[TBL] [Abstract][Full Text] [Related]
17. Probabilistic inference of viral quasispecies subject to recombination.
Töpfer A; Zagordi O; Prabhakaran S; Roth V; Halperin E; Beerenwinkel N
J Comput Biol; 2013 Feb; 20(2):113-23. PubMed ID: 23383997
[TBL] [Abstract][Full Text] [Related]
18. Reconstructing viral quasispecies from NGS amplicon reads.
Mancuso N; Tork B; Skums P; Ganova-Raeva L; Măndoiu I; Zelikovsky A
In Silico Biol; 2011-2012; 11(5-6):237-49. PubMed ID: 23202425
[TBL] [Abstract][Full Text] [Related]
19. Evaluation of haplotype callers for next-generation sequencing of viruses.
Eliseev A; Gibson KM; Avdeyev P; Novik D; Bendall ML; Pérez-Losada M; Alexeev N; Crandall KA
Infect Genet Evol; 2020 Aug; 82():104277. PubMed ID: 32151775
[TBL] [Abstract][Full Text] [Related]
20. QuRe: software for viral quasispecies reconstruction from next-generation sequencing data.
Prosperi MC; Salemi M
Bioinformatics; 2012 Jan; 28(1):132-3. PubMed ID: 22088846
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
