BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

345 related articles for article (PubMed ID: 24227674)

  • 1. MEDIPS: genome-wide differential coverage analysis of sequencing data derived from DNA enrichment experiments.
    Lienhard M; Grimm C; Morkel M; Herwig R; Chavez L
    Bioinformatics; 2014 Jan; 30(2):284-6. PubMed ID: 24227674
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Quantitative Comparison of Large-Scale DNA Enrichment Sequencing Data.
    Lienhard M; Chavez L
    Methods Mol Biol; 2016; 1418():191-208. PubMed ID: 27008016
    [TBL] [Abstract][Full Text] [Related]  

  • 3. MeDEStrand: an improved method to infer genome-wide absolute methylation levels from DNA enrichment data.
    Xu J; Liu S; Yin P; Bulun S; Dai Y
    BMC Bioinformatics; 2018 Dec; 19(1):540. PubMed ID: 30577750
    [TBL] [Abstract][Full Text] [Related]  

  • 4. MBDDiff: an R package designed specifically for processing MBDcap-seq datasets.
    Liu Y; Wilson D; Leach RJ; Chen Y
    BMC Genomics; 2016 Aug; 17 Suppl 4(Suppl 4):432. PubMed ID: 27556923
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Genome-wide quantitative analysis of DNA methylation from bisulfite sequencing data.
    Akman K; Haaf T; Gravina S; Vijg J; Tresch A
    Bioinformatics; 2014 Jul; 30(13):1933-4. PubMed ID: 24618468
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Combining MeDIP-seq and MRE-seq to investigate genome-wide CpG methylation.
    Li D; Zhang B; Xing X; Wang T
    Methods; 2015 Jan; 72():29-40. PubMed ID: 25448294
    [TBL] [Abstract][Full Text] [Related]  

  • 7. QSEA-modelling of genome-wide DNA methylation from sequencing enrichment experiments.
    Lienhard M; Grasse S; Rolff J; Frese S; Schirmer U; Becker M; Börno S; Timmermann B; Chavez L; Sültmann H; Leschber G; Fichtner I; Schweiger MR; Herwig R
    Nucleic Acids Res; 2017 Apr; 45(6):e44. PubMed ID: 27913729
    [TBL] [Abstract][Full Text] [Related]  

  • 8. DMRcaller: a versatile R/Bioconductor package for detection and visualization of differentially methylated regions in CpG and non-CpG contexts.
    Catoni M; Tsang JM; Greco AP; Zabet NR
    Nucleic Acids Res; 2018 Nov; 46(19):e114. PubMed ID: 29986099
    [TBL] [Abstract][Full Text] [Related]  

  • 9. NanoMethViz: An R/Bioconductor package for visualizing long-read methylation data.
    Su S; Gouil Q; Blewitt ME; Cook D; Hickey PF; Ritchie ME
    PLoS Comput Biol; 2021 Oct; 17(10):e1009524. PubMed ID: 34695109
    [TBL] [Abstract][Full Text] [Related]  

  • 10. LOLA: enrichment analysis for genomic region sets and regulatory elements in R and Bioconductor.
    Sheffield NC; Bock C
    Bioinformatics; 2016 Feb; 32(4):587-9. PubMed ID: 26508757
    [TBL] [Abstract][Full Text] [Related]  

  • 11. regioneReloaded: evaluating the association of multiple genomic region sets.
    Malinverni R; Corujo D; Gel B; Buschbeck M
    Bioinformatics; 2023 Nov; 39(11):. PubMed ID: 37988135
    [TBL] [Abstract][Full Text] [Related]  

  • 12. methylPipe and compEpiTools: a suite of R packages for the integrative analysis of epigenomics data.
    Kishore K; de Pretis S; Lister R; Morelli MJ; Bianchi V; Amati B; Ecker JR; Pelizzola M
    BMC Bioinformatics; 2015 Sep; 16():313. PubMed ID: 26415965
    [TBL] [Abstract][Full Text] [Related]  

  • 13. fCCAC: functional canonical correlation analysis to evaluate covariance between nucleic acid sequencing datasets.
    Madrigal P
    Bioinformatics; 2017 Mar; 33(5):746-748. PubMed ID: 27993776
    [TBL] [Abstract][Full Text] [Related]  

  • 14. diffloop: a computational framework for identifying and analyzing differential DNA loops from sequencing data.
    Lareau CA; Aryee MJ
    Bioinformatics; 2018 Feb; 34(4):672-674. PubMed ID: 29028898
    [TBL] [Abstract][Full Text] [Related]  

  • 15. MethylSig: a whole genome DNA methylation analysis pipeline.
    Park Y; Figueroa ME; Rozek LS; Sartor MA
    Bioinformatics; 2014 Sep; 30(17):2414-22. PubMed ID: 24836530
    [TBL] [Abstract][Full Text] [Related]  

  • 16. FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology.
    Fejes AP; Robertson G; Bilenky M; Varhol R; Bainbridge M; Jones SJ
    Bioinformatics; 2008 Aug; 24(15):1729-30. PubMed ID: 18599518
    [TBL] [Abstract][Full Text] [Related]  

  • 17. RnBeads 2.0: comprehensive analysis of DNA methylation data.
    Müller F; Scherer M; Assenov Y; Lutsik P; Walter J; Lengauer T; Bock C
    Genome Biol; 2019 Mar; 20(1):55. PubMed ID: 30871603
    [TBL] [Abstract][Full Text] [Related]  

  • 18. DMAP: differential methylation analysis package for RRBS and WGBS data.
    Stockwell PA; Chatterjee A; Rodger EJ; Morison IM
    Bioinformatics; 2014 Jul; 30(13):1814-22. PubMed ID: 24608764
    [TBL] [Abstract][Full Text] [Related]  

  • 19. SAAP-RRBS: streamlined analysis and annotation pipeline for reduced representation bisulfite sequencing.
    Sun Z; Baheti S; Middha S; Kanwar R; Zhang Y; Li X; Beutler AS; Klee E; Asmann YW; Thompson EA; Kocher JP
    Bioinformatics; 2012 Aug; 28(16):2180-1. PubMed ID: 22689387
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Software updates in the Illumina HiSeq platform affect whole-genome bisulfite sequencing.
    Toh H; Shirane K; Miura F; Kubo N; Ichiyanagi K; Hayashi K; Saitou M; Suyama M; Ito T; Sasaki H
    BMC Genomics; 2017 Jan; 18(1):31. PubMed ID: 28056787
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 18.