BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

164 related articles for article (PubMed ID: 37432342)

  • 1. Counting pseudoalignments to novel splicing events.
    Borozan L; Rojas Ringeling F; Kao SY; Nikonova E; Monteagudo-Mesas P; Matijević D; Spletter ML; Canzar S
    Bioinformatics; 2023 Jul; 39(7):. PubMed ID: 37432342
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Intron-centric estimation of alternative splicing from RNA-seq data.
    Pervouchine DD; Knowles DG; Guigó R
    Bioinformatics; 2013 Jan; 29(2):273-4. PubMed ID: 23172860
    [TBL] [Abstract][Full Text] [Related]  

  • 3. SpliceJumper: a classification-based approach for calling splicing junctions from RNA-seq data.
    Chu C; Li X; Wu Y
    BMC Bioinformatics; 2015; 16 Suppl 17(Suppl 17):S10. PubMed ID: 26678515
    [TBL] [Abstract][Full Text] [Related]  

  • 4. ASGAL: aligning RNA-Seq data to a splicing graph to detect novel alternative splicing events.
    Denti L; Rizzi R; Beretta S; Vedova GD; Previtali M; Bonizzoni P
    BMC Bioinformatics; 2018 Nov; 19(1):444. PubMed ID: 30458725
    [TBL] [Abstract][Full Text] [Related]  

  • 5. 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]  

  • 6. DeepBound: accurate identification of transcript boundaries via deep convolutional neural fields.
    Shao M; Ma J; Wang S
    Bioinformatics; 2017 Jul; 33(14):i267-i273. PubMed ID: 28881999
    [TBL] [Abstract][Full Text] [Related]  

  • 7. TopHat: discovering splice junctions with RNA-Seq.
    Trapnell C; Pachter L; Salzberg SL
    Bioinformatics; 2009 May; 25(9):1105-11. PubMed ID: 19289445
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Discover hidden splicing variations by mapping personal transcriptomes to personal genomes.
    Stein S; Lu ZX; Bahrami-Samani E; Park JW; Xing Y
    Nucleic Acids Res; 2015 Dec; 43(22):10612-22. PubMed ID: 26578562
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Detection of splicing events and multiread locations from RNA-seq data based on a geometric-tail (GT) distribution of intron length.
    Lou SK; Li JW; Qin H; Yim AK; Lo LY; Ni B; Leung KS; Tsui SK; Chan TF
    BMC Bioinformatics; 2011; 12 Suppl 5(Suppl 5):S2. PubMed ID: 21988959
    [TBL] [Abstract][Full Text] [Related]  

  • 10. McSplicer: a probabilistic model for estimating splice site usage from RNA-seq data.
    Alqassem I; Sonthalia Y; Klitzke-Feser E; Shim H; Canzar S
    Bioinformatics; 2021 Jan; 37(14):2004-11. PubMed ID: 33515239
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Using RNA-Seq to Discover Genetic Polymorphisms That Produce Hidden Splice Variants.
    Stein S; Bahrami-Samani E; Xing Y
    Methods Mol Biol; 2017; 1648():129-142. PubMed ID: 28766294
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Hierarchical analysis of RNA-seq reads improves the accuracy of allele-specific expression.
    Raghupathy N; Choi K; Vincent MJ; Beane GL; Sheppard KS; Munger SC; Korstanje R; Pardo-Manual de Villena F; Churchill GA
    Bioinformatics; 2018 Jul; 34(13):2177-2184. PubMed ID: 29444201
    [TBL] [Abstract][Full Text] [Related]  

  • 13. PASSion: a pattern growth algorithm-based pipeline for splice junction detection in paired-end RNA-Seq data.
    Zhang Y; Lameijer EW; 't Hoen PA; Ning Z; Slagboom PE; Ye K
    Bioinformatics; 2012 Feb; 28(4):479-86. PubMed ID: 22219203
    [TBL] [Abstract][Full Text] [Related]  

  • 14. SplicePie: a novel analytical approach for the detection of alternative, non-sequential and recursive splicing.
    Pulyakhina I; Gazzoli I; 't Hoen PA; Verwey N; den Dunnen JT; Aartsma-Rus A; Laros JF
    Nucleic Acids Res; 2015 Jul; 43(12):e80. PubMed ID: 25800735
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Prediction and Quantification of Splice Events from RNA-Seq Data.
    Goldstein LD; Cao Y; Pau G; Lawrence M; Wu TD; Seshagiri S; Gentleman R
    PLoS One; 2016; 11(5):e0156132. PubMed ID: 27218464
    [TBL] [Abstract][Full Text] [Related]  

  • 16. ORMAN: optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoforms.
    Dao P; Numanagić I; Lin YY; Hach F; Karakoc E; Donmez N; Collins C; Eichler EE; Sahinalp SC
    Bioinformatics; 2014 Mar; 30(5):644-51. PubMed ID: 24130305
    [TBL] [Abstract][Full Text] [Related]  

  • 17. PennDiff: detecting differential alternative splicing and transcription by RNA sequencing.
    Hu Y; Lin J; Hu J; Hu G; Wang K; Zhang H; Reilly MP; Li M
    Bioinformatics; 2018 Jul; 34(14):2384-2391. PubMed ID: 29474557
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Design of RNA splicing analysis null models for post hoc filtering of Drosophila head RNA-Seq data with the splicing analysis kit (Spanki).
    Sturgill D; Malone JH; Sun X; Smith HE; Rabinow L; Samson ML; Oliver B
    BMC Bioinformatics; 2013 Nov; 14():320. PubMed ID: 24209455
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Jutils: a visualization toolkit for differential alternative splicing events.
    Yang G; Cope L; He Z; Florea L
    Bioinformatics; 2021 Nov; 37(22):4272-4274. PubMed ID: 34021745
    [TBL] [Abstract][Full Text] [Related]  

  • 20. ScanExitronLR: characterization and quantification of exitron splicing events in long-read RNA-seq data.
    Fry J; Li Y; Yang R
    Bioinformatics; 2022 Oct; 38(21):4966-4968. PubMed ID: 36099042
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.