HTSstation: A Web Application and Open-Access Libraries for High-Throughput Sequencing Data Analysis

被引：60
|
作者：
David, Fabrice P. A. [1 ,2 ]
Delafontaine, Julien [1 ,2 ]
Carat, Solenne [1 ,2 ]
Ross, Frederick J. [1 ,2 ]
Lefebvre, Gregory [1 ,2 ]
Jarosz, Yohan [1 ,2 ]
Sinclair, Lucas [1 ,2 ]
Noordermeer, Daan [1 ,3 ]
Rougemont, Jacques [1 ,2 ]
Leleu, Marion [1 ,2 ,3 ]
机构：
[1] Ecole Polytech Fed Lausanne, Sch Life Sci, CH-1015 Lausanne, Switzerland
[2] SIB, Lausanne, Switzerland
[3] ISREC, Lausanne, Switzerland
来源：
PLOS ONE | 2014年 / 9卷 / 01期
基金：
瑞士国家科学基金会;
关键词：
CHIP-SEQ DATA; CONFORMATION; GENOME; TOOLS; SUITE;
D O I：
10.1371/journal.pone.0085879
中图分类号：
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号：
07 ; 0710 ; 09 ;
摘要：
The HTSstation analysis portal is a suite of simple web forms coupled to modular analysis pipelines for various applications of High-Throughput Sequencing including ChIP-seq, RNA-seq, 4C-seq and re-sequencing. HTSstation offers biologists the possibility to rapidly investigate their HTS data using an intuitive web application with heuristically pre-defined parameters. A number of open-source software components have been implemented and can be used to build, configure and run HTS analysis pipelines reactively. Besides, our programming framework empowers developers with the possibility to design their own workflows and integrate additional third-party software. The HTSstation web application is accessible at http://htsstation.epfl.ch.
引用
收藏
页数：9
相关论文
共 50 条
  • [21] Application of high-throughput gene sequencing in lymphoma
    Lv, Xiao
    Wang, Qian
    Ge, Xueling
    Xue, Chao
    Liu, Xin
    EXPERIMENTAL AND MOLECULAR PATHOLOGY, 2021, 119
  • [22] Application of High-Throughput DNA Sequencing in Phytopathology
    Studholme, David J.
    Glover, Rachel H.
    Boonham, Neil
    ANNUAL REVIEW OF PHYTOPATHOLOGY, VOL 49, 2011, 49 : 87 - 105
  • [23] High-throughput Sequencing Technology and Its Application
    Zhu Qiang-long
    Liu Shi
    Gao Peng
    Luan Fei-shi
    Journal of Northeast Agricultural University(English Edition), 2014, 21 (03) : 84 - 96
  • [24] Tools for mapping high-throughput sequencing data
    Fonseca, Nuno A.
    Rung, Johan
    Brazma, Alvis
    Marioni, John C.
    BIOINFORMATICS, 2012, 28 (24) : 3169 - 3177
  • [25] Genome reassembly with high-throughput sequencing data
    Parrish, Nathaniel
    Sudakov, Benjamin
    Eskin, Eleazar
    BMC GENOMICS, 2013, 14
  • [26] Genome reassembly with high-throughput sequencing data
    Nathaniel Parrish
    Benjamin Sudakov
    Eleazar Eskin
    BMC Genomics, 14
  • [27] Compression of Structured High-Throughput Sequencing Data
    Campagne, Fabien
    Dorff, Kevin C.
    Chambwe, Nyasha
    Robinson, James T.
    Mesirov, Jill P.
    PLOS ONE, 2013, 8 (11):
  • [28] A Primer on the Analysis of High-Throughput Sequencing Data for Detection of Plant Viruses
    Kutnjak, Denis
    Tamisier, Lucie
    Adams, Ian
    Boonham, Neil
    Candresse, Thierry
    Chiumenti, Michela
    De Jonghe, Kris
    Kreuze, Jan F.
    Lefebvre, Marie
    Silva, Goncalo
    Malapi-Wight, Martha
    Margaria, Paolo
    Plesko, Irena Mavriric
    McGreig, Sam
    Miozzi, Laura
    Remenant, Benoit
    Reynard, Jean-Sebastien
    Rollin, Johan
    Rott, Mike
    Schumpp, Olivier
    Massart, Sebastien
    Haegeman, Annelies
    MICROORGANISMS, 2021, 9 (04)
  • [29] TriageTools: tools for partitioning and prioritizing analysis of high-throughput sequencing data
    Fimereli, Danai
    Detours, Vincent
    Konopka, Tomasz
    NUCLEIC ACIDS RESEARCH, 2013, 41 (07)
  • [30] An efficient population genetic analysis method for high-throughput sequencing data
    Li, Jie
    Qian, Jiating
    Ding, Xi
    Ling, Yayue
    BASIC & CLINICAL PHARMACOLOGY & TOXICOLOGY, 2020, 127 : 48 - 49
12345