These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

155 related articles for article (PubMed ID: 27302131)

  • 1. The exon quantification pipeline (EQP): a comprehensive approach to the quantification of gene, exon and junction expression from RNA-seq data.
    Schuierer S; Roma G
    Nucleic Acids Res; 2016 Sep; 44(16):e132. PubMed ID: 27302131
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Simulation-based comprehensive benchmarking of RNA-seq aligners.
    Baruzzo G; Hayer KE; Kim EJ; Di Camillo B; FitzGerald GA; Grant GR
    Nat Methods; 2017 Feb; 14(2):135-139. PubMed ID: 27941783
    [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. Discerning novel splice junctions derived from RNA-seq alignment: a deep learning approach.
    Zhang Y; Liu X; MacLeod J; Liu J
    BMC Genomics; 2018 Dec; 19(1):971. PubMed ID: 30591034
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Union Exon Based Approach for RNA-Seq Gene Quantification: To Be or Not to Be?
    Zhao S; Xi L; Zhang B
    PLoS One; 2015; 10(11):e0141910. PubMed ID: 26559532
    [TBL] [Abstract][Full Text] [Related]  

  • 6. The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads.
    Liao Y; Smyth GK; Shi W
    Nucleic Acids Res; 2019 May; 47(8):e47. PubMed ID: 30783653
    [TBL] [Abstract][Full Text] [Related]  

  • 7. A comprehensive evaluation of ensembl, RefSeq, and UCSC annotations in the context of RNA-seq read mapping and gene quantification.
    Zhao S; Zhang B
    BMC Genomics; 2015 Feb; 16(1):97. PubMed ID: 25765860
    [TBL] [Abstract][Full Text] [Related]  

  • 8. MAP-RSeq: Mayo Analysis Pipeline for RNA sequencing.
    Kalari KR; Nair AA; Bhavsar JD; O'Brien DR; Davila JI; Bockol MA; Nie J; Tang X; Baheti S; Doughty JB; Middha S; Sicotte H; Thompson AE; Asmann YW; Kocher JP
    BMC Bioinformatics; 2014 Jun; 15():224. PubMed ID: 24972667
    [TBL] [Abstract][Full Text] [Related]  

  • 9. 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]  

  • 10. Analysis of intronic and exonic reads in RNA-seq data characterizes transcriptional and post-transcriptional regulation.
    Gaidatzis D; Burger L; Florescu M; Stadler MB
    Nat Biotechnol; 2015 Jul; 33(7):722-9. PubMed ID: 26098447
    [TBL] [Abstract][Full Text] [Related]  

  • 11. FineSplice, enhanced splice junction detection and quantification: a novel pipeline based on the assessment of diverse RNA-Seq alignment solutions.
    Gatto A; Torroja-Fungairiño C; Mazzarotto F; Cook SA; Barton PJ; Sánchez-Cabo F; Lara-Pezzi E
    Nucleic Acids Res; 2014 Apr; 42(8):e71. PubMed ID: 24574529
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Coordinated analysis of exon and intron data reveals novel differential gene expression changes.
    Eghbalnia HR; Wilfinger WW; Mackey K; Chomczynski P
    Sci Rep; 2020 Sep; 10(1):15669. PubMed ID: 32973253
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Identifying differentially spliced genes from two groups of RNA-seq samples.
    Wang W; Qin Z; Feng Z; Wang X; Zhang X
    Gene; 2013 Apr; 518(1):164-70. PubMed ID: 23228854
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis.
    Carrara M; Lum J; Cordero F; Beccuti M; Poidinger M; Donatelli S; Calogero RA; Zolezzi F
    BMC Bioinformatics; 2015; 16 Suppl 9(Suppl 9):S2. PubMed ID: 26050971
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Strawberry: Fast and accurate genome-guided transcript reconstruction and quantification from RNA-Seq.
    Liu R; Dickerson J
    PLoS Comput Biol; 2017 Nov; 13(11):e1005851. PubMed ID: 29176847
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments.
    Richard H; Schulz MH; Sultan M; Nürnberger A; Schrinner S; Balzereit D; Dagand E; Rasche A; Lehrach H; Vingron M; Haas SA; Yaspo ML
    Nucleic Acids Res; 2010 Jun; 38(10):e112. PubMed ID: 20150413
    [TBL] [Abstract][Full Text] [Related]  

  • 17. TPMCalculator: one-step software to quantify mRNA abundance of genomic features.
    Vera Alvarez R; Pongor LS; Mariño-Ramírez L; Landsman D
    Bioinformatics; 2019 Jun; 35(11):1960-1962. PubMed ID: 30379987
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Modeling Exon-Specific Bias Distribution Improves the Analysis of RNA-Seq Data.
    Liu X; Zhang L; Chen S
    PLoS One; 2015; 10(10):e0140032. PubMed ID: 26448625
    [TBL] [Abstract][Full Text] [Related]  

  • 19. The human Nramp2 gene: characterization of the gene structure, alternative splicing, promoter region and polymorphisms.
    Lee PL; Gelbart T; West C; Halloran C; Beutler E
    Blood Cells Mol Dis; 1998 Jun; 24(2):199-215. PubMed ID: 9642100
    [TBL] [Abstract][Full Text] [Related]  

  • 20. WemIQ: an accurate and robust isoform quantification method for RNA-seq data.
    Zhang J; Kuo CC; Chen L
    Bioinformatics; 2015 Mar; 31(6):878-85. PubMed ID: 25406327
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 8.