Metabox: A Toolbox for Metabolomic Data Analysis, Interpretation and Integrative Exploration

被引：68
|
作者：
Wanichthanarak, Kwanjeera [1 ]
Fan, Sili [1 ]
Grapov, Dmitry [1 ]
Barupal, Dinesh Kumar [1 ]
Fiehn, Oliver [1 ,2 ]
机构：
[1] Univ Calif Davis, Genome Ctr, West Coast Metab Ctr, Davis, CA 95616 USA
[2] King Abdulaziz Univ, Dept Biochem, Jeddah, Saudi Arabia
来源：
PLOS ONE | 2017年 / 12卷 / 01期
基金：
美国国家卫生研究院;
关键词：
GENE-EXPRESSION; O-GLCNAC; VISUALIZATION; INFORMATION; NETWORKS;
D O I：
10.1371/journal.pone.0171046
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：
Similar to genomic and proteomic platforms, metabolomic data acquisition and analysis is becoming a routine approach for investigating biological systems. However, computational approaches for metabolomic data analysis and integration are still maturing. Metabox is a bioinformatics toolbox for deep phenotyping analytics that combines data processing, statistical analysis, functional analysis and integrative exploration of metabolomic data within proteomic and transcriptomic contexts. With the number of options provided in each analysis module, it also supports data analysis of other `omic' families. The toolbox is an R-based web application, and it is freely available at http://kvvanjeeraw.gthub.io/metabox/undertheGPL-3 license.
引用
收藏
页数：14
相关论文
共 50 条
  • [21] Integrative analysis of miRNA expression data reveals a minimal signature for tumour cells classification
    Napoletano, Sabrina
    Dannhauser, David
    Netti, Paolo Antonio
    Causa, Filippo
    COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL, 2025, 27 : 233 - 242
  • [22] Analysis of metabolomic data: tools, current strategies and future challenges for omics data integration
    Cambiaghi, Alice
    Ferrario, Manuela
    Masseroli, Marco
    BRIEFINGS IN BIOINFORMATICS, 2017, 18 (03) : 498 - 510
  • [23] WEADE: A workflow for enrichment analysis and data exploration
    Trost, Nils
    Rempel, Eugen
    Ermakova, Olga
    Tamirisa, Srividya
    Parcalabescu, Letitia
    Boutros, Michael
    Lohmann, Jan U.
    Lohmann, Ingrid
    PLOS ONE, 2018, 13 (09):
  • [24] Interactive Exploration and Analysis of Pathlines in Flow Data
    Lez, Alan
    Zajic, Andreas
    Matkovic, Kresimir
    Pobitzer, Armin
    Mayer, Michael
    Hauser, Helwig
    WSCG 2011: FULL PAPERS PROCEEDINGS, 2011, : 17 - +
  • [25] An Interactive Analysis and Exploration Tool for Epigenomic Data
    Younesy, H.
    Nielsen, C. B.
    Moeller, T.
    Alder, O.
    Cullum, R.
    Lorincz, M. C.
    Karimi, M. M.
    Jones, S. J. M.
    COMPUTER GRAPHICS FORUM, 2013, 32 (03) : 91 - 100
  • [26] Survey of the Visual Exploration and Analysis of Perfusion Data
    Preim, Bernhard
    Oeltze, Steffen
    Mlejnek, Matej
    Groeller, Eduard
    Hennemuth, Anja
    Behrens, Sarah
    IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS, 2009, 15 (02) : 205 - 220
  • [27] GeneAnalytics: An Integrative Gene Set Analysis Tool for Next Generation Sequencing, RNAseq and Microarray Data
    Ben-Ari Fuchs, Shani
    Lieder, Iris
    Stelzer, Gil
    Mazor, Yaron
    Buzhor, Ella
    Kaplan, Sergey
    Bogoch, Yoel
    Plaschkes, Inbar
    Shitrit, Alina
    Rappaport, Noa
    Kohn, Asher
    Edgar, Ron
    Shenhav, Liraz
    Safran, Marilyn
    Lancet, Doron
    Guan-Golan, Yaron
    Warshawsky, David
    Shtrichman, Ronit
    OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 2016, 20 (03) : 139 - 151
  • [28] MarVis-Pathway: integrative and exploratory pathway analysis of non-targeted metabolomics data
    Kaever, Alexander
    Landesfeind, Manuel
    Feussner, Kirstin
    Mosblech, Alina
    Heilmann, Ingo
    Morgenstern, Burkhard
    Feussner, Ivo
    Meinicke, Peter
    METABOLOMICS, 2015, 11 (03) : 764 - 777
  • [29] NetworkAnalyst - integrative approaches for protein-protein interaction network analysis and visual exploration
    Xia, Jianguo
    Benner, Maia J.
    Hancock, Robert E. W.
    NUCLEIC ACIDS RESEARCH, 2014, 42 (W1) : W167 - W174
  • [30] BioMet Toolbox 2.0: genome-wide analysis of metabolism and omics data
    Garcia-Albornoz, Manuel
    Thankaswamy-Kosalai, Subazini
    Nilsson, Avlant
    Varemo, Leif
    Nookaew, Intawat
    Nielsen, Jens
    NUCLEIC ACIDS RESEARCH, 2014, 42 (W1) : W175 - W181
12345