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 *

409 related articles for article (PubMed ID: 28789639)

  • 1. CIPHER: a flexible and extensive workflow platform for integrative next-generation sequencing data analysis and genomic regulatory element prediction.
    Guzman C; D'Orso I
    BMC Bioinformatics; 2017 Aug; 18(1):363. PubMed ID: 28789639
    [TBL] [Abstract][Full Text] [Related]  

  • 2. HiChIP: a high-throughput pipeline for integrative analysis of ChIP-Seq data.
    Yan H; Evans J; Kalmbach M; Moore R; Middha S; Luban S; Wang L; Bhagwate A; Li Y; Sun Z; Chen X; Kocher JP
    BMC Bioinformatics; 2014 Aug; 15(1):280. PubMed ID: 25128017
    [TBL] [Abstract][Full Text] [Related]  

  • 3. ChiLin: a comprehensive ChIP-seq and DNase-seq quality control and analysis pipeline.
    Qin Q; Mei S; Wu Q; Sun H; Li L; Taing L; Chen S; Li F; Liu T; Zang C; Xu H; Chen Y; Meyer CA; Zhang Y; Brown M; Long HW; Liu XS
    BMC Bioinformatics; 2016 Oct; 17(1):404. PubMed ID: 27716038
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Systems Biology Analyses in Chicken: Workflow for Transcriptome and ChIP-Seq Analyses Using the Chicken Skin Paradigm.
    Lai YC; Widelitz RB; Chuong CM
    Methods Mol Biol; 2017; 1650():87-100. PubMed ID: 28809015
    [TBL] [Abstract][Full Text] [Related]  

  • 5. NGS-QC Generator: A Quality Control System for ChIP-Seq and Related Deep Sequencing-Generated Datasets.
    Mendoza-Parra MA; Saleem MA; Blum M; Cholley PE; Gronemeyer H
    Methods Mol Biol; 2016; 1418():243-65. PubMed ID: 27008019
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Dynamic transcriptional control of macrophage miRNA signature via inflammation responsive enhancers revealed using a combination of next generation sequencing-based approaches.
    Czimmerer Z; Horvath A; Daniel B; Nagy G; Cuaranta-Monroy I; Kiss M; Kolostyak Z; Poliska S; Steiner L; Giannakis N; Varga T; Nagy L
    Biochim Biophys Acta Gene Regul Mech; 2018 Jan; 1861(1):14-28. PubMed ID: 29133016
    [TBL] [Abstract][Full Text] [Related]  

  • 7. CoBRA: Containerized Bioinformatics Workflow for Reproducible ChIP/ATAC-seq Analysis.
    Qiu X; Feit AS; Feiglin A; Xie Y; Kesten N; Taing L; Perkins J; Gu S; Li Y; Cejas P; Zhou N; Jeselsohn R; Brown M; Shirley Liu X; Long HW
    Genomics Proteomics Bioinformatics; 2021 Aug; 19(4):652-661. PubMed ID: 34284136
    [TBL] [Abstract][Full Text] [Related]  

  • 8. An integrated ChIP-seq analysis platform with customizable workflows.
    Giannopoulou EG; Elemento O
    BMC Bioinformatics; 2011 Jul; 12():277. PubMed ID: 21736739
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Reusable, extensible, and modifiable R scripts and Kepler workflows for comprehensive single set ChIP-seq analysis.
    Cormier N; Kolisnik T; Bieda M
    BMC Bioinformatics; 2016 Jul; 17(1):270. PubMed ID: 27377783
    [TBL] [Abstract][Full Text] [Related]  

  • 10. DolphinNext: a distributed data processing platform for high throughput genomics.
    Yukselen O; Turkyilmaz O; Ozturk AR; Garber M; Kucukural A
    BMC Genomics; 2020 Apr; 21(1):310. PubMed ID: 32306927
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Integrative Analysis of CUT&Tag and RNA-Seq Data Through Bioinformatics: A Unified Workflow for Enhanced Insights.
    Liorni N; Napoli A; Adinolfi M; Vinciguerra M; Mazza T
    Methods Mol Biol; 2024; 2846():191-213. PubMed ID: 39141238
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq.
    Grbesa I; Tannenbaum M; Sarusi-Portuguez A; Schwartz M; Hakim O
    J Vis Exp; 2017 Nov; (129):. PubMed ID: 29155775
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Hydrop enables droplet-based single-cell ATAC-seq and single-cell RNA-seq using dissolvable hydrogel beads.
    De Rop FV; Ismail JN; Bravo González-Blas C; Hulselmans GJ; Flerin CC; Janssens J; Theunis K; Christiaens VM; Wouters J; Marcassa G; de Wit J; Poovathingal S; Aerts S
    Elife; 2022 Feb; 11():. PubMed ID: 35195064
    [TBL] [Abstract][Full Text] [Related]  

  • 14. iMir: an integrated pipeline for high-throughput analysis of small non-coding RNA data obtained by smallRNA-Seq.
    Giurato G; De Filippo MR; Rinaldi A; Hashim A; Nassa G; Ravo M; Rizzo F; Tarallo R; Weisz A
    BMC Bioinformatics; 2013 Dec; 14():362. PubMed ID: 24330401
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Sequence deeper without sequencing more: Bayesian resolution of ambiguously mapped reads.
    Shah RN; Ruthenburg AJ
    PLoS Comput Biol; 2021 Apr; 17(4):e1008926. PubMed ID: 33872311
    [TBL] [Abstract][Full Text] [Related]  

  • 16. ATACgraph: Profiling Genome-Wide Chromatin Accessibility From ATAC-seq.
    Lu RJ; Liu YT; Huang CW; Yen MR; Lin CY; Chen PY
    Front Genet; 2020; 11():618478. PubMed ID: 33584814
    [TBL] [Abstract][Full Text] [Related]  

  • 17. NucTools: analysis of chromatin feature occupancy profiles from high-throughput sequencing data.
    Vainshtein Y; Rippe K; Teif VB
    BMC Genomics; 2017 Feb; 18(1):158. PubMed ID: 28196481
    [TBL] [Abstract][Full Text] [Related]  

  • 18. TRlnc: a comprehensive database for human transcriptional regulatory information of lncRNAs.
    Li Y; Li X; Yang Y; Li M; Qian F; Tang Z; Zhao J; Zhang J; Bai X; Jiang Y; Zhou J; Zhang Y; Zhou L; Xie J; Li E; Wang Q; Li C
    Brief Bioinform; 2021 Mar; 22(2):1929-1939. PubMed ID: 32047897
    [TBL] [Abstract][Full Text] [Related]  

  • 19. ATAC2GRN: optimized ATAC-seq and DNase1-seq pipelines for rapid and accurate genome regulatory network inference.
    Pranzatelli TJF; Michael DG; Chiorini JA
    BMC Genomics; 2018 Jul; 19(1):563. PubMed ID: 30064353
    [TBL] [Abstract][Full Text] [Related]  

  • 20. ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data.
    Ou J; Liu H; Yu J; Kelliher MA; Castilla LH; Lawson ND; Zhu LJ
    BMC Genomics; 2018 Mar; 19(1):169. PubMed ID: 29490630
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 21.