421 related articles for article (PubMed ID: 28361665)
1. A computational method for estimating the PCR duplication rate in DNA and RNA-seq experiments.
Bansal V
BMC Bioinformatics; 2017 Mar; 18(Suppl 3):43. PubMed ID: 28361665
[TBL] [Abstract][Full Text] [Related]
2. dupRadar: a Bioconductor package for the assessment of PCR artifacts in RNA-Seq data.
Sayols S; Scherzinger D; Klein H
BMC Bioinformatics; 2016 Oct; 17(1):428. PubMed ID: 27769170
[TBL] [Abstract][Full Text] [Related]
3. Improving RNA-Seq expression estimation by modeling isoform- and exon-specific read sequencing rate.
Liu X; Shi X; Chen C; Zhang L
BMC Bioinformatics; 2015 Oct; 16():332. PubMed ID: 26475308
[TBL] [Abstract][Full Text] [Related]
4. Bias from removing read duplication in ultra-deep sequencing experiments.
Zhou W; Chen T; Zhao H; Eterovic AK; Meric-Bernstam F; Mills GB; Chen K
Bioinformatics; 2014 Apr; 30(8):1073-1080. PubMed ID: 24389657
[TBL] [Abstract][Full Text] [Related]
5. Elimination of PCR duplicates in RNA-seq and small RNA-seq using unique molecular identifiers.
Fu Y; Wu PH; Beane T; Zamore PD; Weng Z
BMC Genomics; 2018 Jul; 19(1):531. PubMed ID: 30001700
[TBL] [Abstract][Full Text] [Related]
6. Degenerate adaptor sequences for detecting PCR duplicates in reduced representation sequencing data improve genotype calling accuracy.
Tin MM; Rheindt FE; Cros E; Mikheyev AS
Mol Ecol Resour; 2015 Mar; 15(2):329-36. PubMed ID: 25132578
[TBL] [Abstract][Full Text] [Related]
7. ChimPipe: accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data.
Rodríguez-Martín B; Palumbo E; Marco-Sola S; Griebel T; Ribeca P; Alonso G; Rastrojo A; Aguado B; Guigó R; Djebali S
BMC Genomics; 2017 Jan; 18(1):7. PubMed ID: 28049418
[TBL] [Abstract][Full Text] [Related]
8. The impact of amplification on differential expression analyses by RNA-seq.
Parekh S; Ziegenhain C; Vieth B; Enard W; Hellmann I
Sci Rep; 2016 May; 6():25533. PubMed ID: 27156886
[TBL] [Abstract][Full Text] [Related]
9. Removing duplicate reads using graphics processing units.
Manconi A; Moscatelli M; Armano G; Gnocchi M; Orro A; Milanesi L
BMC Bioinformatics; 2016 Nov; 17(Suppl 12):346. PubMed ID: 28185553
[TBL] [Abstract][Full Text] [Related]
10. A multitask clustering approach for single-cell RNA-seq analysis in Recessive Dystrophic Epidermolysis Bullosa.
Zhang H; Lee CAA; Li Z; Garbe JR; Eide CR; Petegrosso R; Kuang R; Tolar J
PLoS Comput Biol; 2018 Apr; 14(4):e1006053. PubMed ID: 29630593
[TBL] [Abstract][Full Text] [Related]
11. SEXCMD: Development and validation of sex marker sequences for whole-exome/genome and RNA sequencing.
Jeong S; Kim J; Park W; Jeon H; Kim N
PLoS One; 2017; 12(9):e0184087. PubMed ID: 28886064
[TBL] [Abstract][Full Text] [Related]
12. tarSVM: Improving the accuracy of variant calls derived from microfluidic PCR-based targeted next generation sequencing using a support vector machine.
Gillies CE; Otto EA; Vega-Warner V; Robertson CC; Sanna-Cherchi S; Gharavi A; Crawford B; Bhimma R; Winkler C; ; ; Kang HM; Sampson MG
BMC Bioinformatics; 2016 Jun; 17(1):233. PubMed ID: 27287006
[TBL] [Abstract][Full Text] [Related]
13. Alignment-free clustering of UMI tagged DNA molecules.
Orabi B; Erhan E; McConeghy B; Volik SV; Le Bihan S; Bell R; Collins CC; Chauve C; Hach F
Bioinformatics; 2019 Jun; 35(11):1829-1836. PubMed ID: 30351359
[TBL] [Abstract][Full Text] [Related]
14. Joint estimation of isoform expression and isoform-specific read distribution using multisample RNA-Seq data.
Suo C; Calza S; Salim A; Pawitan Y
Bioinformatics; 2014 Feb; 30(4):506-13. PubMed ID: 24307704
[TBL] [Abstract][Full Text] [Related]
15. On the causes, consequences, and avoidance of PCR duplicates: Towards a theory of library complexity.
Rochette NC; Rivera-Colón AG; Walsh J; Sanger TJ; Campbell-Staton SC; Catchen JM
Mol Ecol Resour; 2023 Aug; 23(6):1299-1318. PubMed ID: 37062860
[TBL] [Abstract][Full Text] [Related]
16. UNDR ROVER - a fast and accurate variant caller for targeted DNA sequencing.
Park DJ; Li R; Lau E; Georgeson P; Nguyen-Dumont T; Pope BJ
BMC Bioinformatics; 2016 Apr; 17():165. PubMed ID: 27083325
[TBL] [Abstract][Full Text] [Related]
17. A computational approach to distinguish somatic vs. germline origin of genomic alterations from deep sequencing of cancer specimens without a matched normal.
Sun JX; He Y; Sanford E; Montesion M; Frampton GM; Vignot S; Soria JC; Ross JS; Miller VA; Stephens PJ; Lipson D; Yelensky R
PLoS Comput Biol; 2018 Feb; 14(2):e1005965. PubMed ID: 29415044
[TBL] [Abstract][Full Text] [Related]
18. Read-Split-Run: an improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data.
Bai Y; Kinne J; Donham B; Jiang F; Ding L; Hassler JR; Kaufman RJ
BMC Genomics; 2016 Aug; 17 Suppl 7(Suppl 7):503. PubMed ID: 27556805
[TBL] [Abstract][Full Text] [Related]
19. Single read and paired end mRNA-Seq Illumina libraries from 10 nanograms total RNA.
Sengupta S; Bolin JM; Ruotti V; Nguyen BK; Thomson JA; Elwell AL; Stewart R
J Vis Exp; 2011 Oct; (56):e3340. PubMed ID: 22064688
[TBL] [Abstract][Full Text] [Related]
20. Identification of factors associated with duplicate rate in ChIP-seq data.
Tian S; Peng S; Kalmbach M; Gaonkar KS; Bhagwate A; Ding W; Eckel-Passow J; Yan H; Slager SL
PLoS One; 2019; 14(4):e0214723. PubMed ID: 30943272
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]