168 related articles for article (PubMed ID: 32938926)
1. Improved haplotype inference by exploiting long-range linking and allelic imbalance in RNA-seq datasets.
Berger E; Yorukoglu D; Zhang L; Nyquist SK; Shalek AK; Kellis M; Numanagić I; Berger B
Nat Commun; 2020 Sep; 11(1):4662. PubMed ID: 32938926
[TBL] [Abstract][Full Text] [Related]
2. HapTree: a novel Bayesian framework for single individual polyplotyping using NGS data.
Berger E; Yorukoglu D; Peng J; Berger B
PLoS Comput Biol; 2014 Mar; 10(3):e1003502. PubMed ID: 24675685
[TBL] [Abstract][Full Text] [Related]
3. flopp: Extremely Fast Long-Read Polyploid Haplotype Phasing by Uniform Tree Partitioning.
Shaw J; Yu YW
J Comput Biol; 2022 Feb; 29(2):195-211. PubMed ID: 35041529
[TBL] [Abstract][Full Text] [Related]
4. Sparse Tensor Decomposition for Haplotype Assembly of Diploids and Polyploids.
Hashemi A; Zhu B; Vikalo H
BMC Genomics; 2018 Mar; 19(Suppl 4):191. PubMed ID: 29589554
[TBL] [Abstract][Full Text] [Related]
5. Hap10: reconstructing accurate and long polyploid haplotypes using linked reads.
Majidian S; Kahaei MH; de Ridder D
BMC Bioinformatics; 2020 Jun; 21(1):253. PubMed ID: 32552661
[TBL] [Abstract][Full Text] [Related]
6. On the Minimum Error Correction Problem for Haplotype Assembly in Diploid and Polyploid Genomes.
Bonizzoni P; Dondi R; Klau GW; Pirola Y; Pisanti N; Zaccaria S
J Comput Biol; 2016 Sep; 23(9):718-36. PubMed ID: 27280382
[TBL] [Abstract][Full Text] [Related]
7. Haplotype and isoform specific expression estimation using multi-mapping RNA-seq reads.
Turro E; Su SY; Gonçalves Â; Coin LJ; Richardson S; Lewin A
Genome Biol; 2011; 12(2):R13. PubMed ID: 21310039
[TBL] [Abstract][Full Text] [Related]
8. Leveraging reads that span multiple single nucleotide polymorphisms for haplotype inference from sequencing data.
Yang WY; Hormozdiari F; Wang Z; He D; Pasaniuc B; Eskin E
Bioinformatics; 2013 Sep; 29(18):2245-52. PubMed ID: 23825370
[TBL] [Abstract][Full Text] [Related]
9. SHEsisPlus, a toolset for genetic studies on polyploid species.
Shen J; Li Z; Chen J; Song Z; Zhou Z; Shi Y
Sci Rep; 2016 Apr; 6():24095. PubMed ID: 27048905
[TBL] [Abstract][Full Text] [Related]
10. Exploiting next-generation sequencing to solve the haplotyping puzzle in polyploids: a simulation study.
Motazedi E; Finkers R; Maliepaard C; de Ridder D
Brief Bioinform; 2018 May; 19(3):387-403. PubMed ID: 28065918
[TBL] [Abstract][Full Text] [Related]
11. SDhaP: haplotype assembly for diploids and polyploids via semi-definite programming.
Das S; Vikalo H
BMC Genomics; 2015 Apr; 16(1):260. PubMed ID: 25885901
[TBL] [Abstract][Full Text] [Related]
12. Comprehensive evaluation of RNA-seq analysis pipelines in diploid and polyploid species.
Payá-Milans M; Olmstead JW; Nunez G; Rinehart TA; Staton M
Gigascience; 2018 Dec; 7(12):. PubMed ID: 30418578
[TBL] [Abstract][Full Text] [Related]
13. Read-Based Phasing and Analysis of Phased Variants with WhatsHap.
Martin M; Ebert P; Marschall T
Methods Mol Biol; 2023; 2590():127-138. PubMed ID: 36335496
[TBL] [Abstract][Full Text] [Related]
14. Haplotype phasing in single-cell DNA-sequencing data.
Satas G; Raphael BJ
Bioinformatics; 2018 Jul; 34(13):i211-i217. PubMed ID: 29950014
[TBL] [Abstract][Full Text] [Related]
15. Ranbow: A fast and accurate method for polyploid haplotype reconstruction.
Moeinzadeh MH; Yang J; Muzychenko E; Gallone G; Heller D; Reinert K; Haas S; Vingron M
PLoS Comput Biol; 2020 May; 16(5):e1007843. PubMed ID: 32469863
[TBL] [Abstract][Full Text] [Related]
16. Computational methods for chromosome-scale haplotype reconstruction.
Garg S
Genome Biol; 2021 Apr; 22(1):101. PubMed ID: 33845884
[TBL] [Abstract][Full Text] [Related]
17. ComHapDet: a spatial community detection algorithm for haplotype assembly.
Sankararaman A; Vikalo H; Baccelli F
BMC Genomics; 2020 Sep; 21(Suppl 9):586. PubMed ID: 32900369
[TBL] [Abstract][Full Text] [Related]
18. PolyCluster: Minimum Fragment Disagreement Clustering for Polyploid Phasing.
Mazrouee S; Wang W
IEEE/ACM Trans Comput Biol Bioinform; 2020; 17(1):264-277. PubMed ID: 30040655
[TBL] [Abstract][Full Text] [Related]
19. Integrating read-based and population-based phasing for dense and accurate haplotyping of individual genomes.
Bansal V
Bioinformatics; 2019 Jul; 35(14):i242-i248. PubMed ID: 31510646
[TBL] [Abstract][Full Text] [Related]
20. Longshot enables accurate variant calling in diploid genomes from single-molecule long read sequencing.
Edge P; Bansal V
Nat Commun; 2019 Oct; 10(1):4660. PubMed ID: 31604920
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]