Literature DB >> 25839106

Integrating -Omics: Systems Biology as Explored Through C. elegans Research.

Roel Van Assche1, Valérie Broeckx1, Kurt Boonen1, Evelyne Maes2, Wouter De Haes1, Liliane Schoofs1, Liesbet Temmerman3.   

Abstract

-Omics data have become indispensable to systems biology, which aims to describe the full complexity of functional cells, tissues, organs and organisms. Generating vast amounts of data via such methods, researchers have invested in ways of handling and interpreting these. From the large volumes of -omics data that have been gathered over the years, it is clear that the information derived from one -ome is usually far from complete. Now, individual techniques and methods for integration are maturing to the point that researchers can focus on network-based integration rather than simply interpreting single -ome studies. This review evaluates the application of integrated -omics approaches with a focus on Caenorhabditis elegans studies, intending to direct researchers in this field to useful databases and inspiring examples.
Copyright © 2015 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  -omics; C. elegans; integrating -omics; systems biology

Mesh:

Year:  2015        PMID: 25839106     DOI: 10.1016/j.jmb.2015.03.015

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  15 in total

Review 1.  A synopsis on aging-Theories, mechanisms and future prospects.

Authors:  João Pinto da Costa; Rui Vitorino; Gustavo M Silva; Christine Vogel; Armando C Duarte; Teresa Rocha-Santos
Journal:  Ageing Res Rev       Date:  2016-06-25       Impact factor: 10.895

2.  Integrated Metabolomics, Transcriptomics and Proteomics Identifies Metabolic Pathways Affected by Anaplasma phagocytophilum Infection in Tick Cells.

Authors:  Margarita Villar; Nieves Ayllón; Pilar Alberdi; Andrés Moreno; María Moreno; Raquel Tobes; Lourdes Mateos-Hernández; Sabine Weisheit; Lesley Bell-Sakyi; José de la Fuente
Journal:  Mol Cell Proteomics       Date:  2015-09-30       Impact factor: 5.911

3.  Interpretation of network-based integration from multi-omics longitudinal data.

Authors:  Antoine Bodein; Marie-Pier Scott-Boyer; Olivier Perin; Kim-Anh Lê Cao; Arnaud Droit
Journal:  Nucleic Acids Res       Date:  2022-03-21       Impact factor: 16.971

4.  Direct profiling of the phospholipid composition of adult Caenorhabditis elegans using whole-body imaging mass spectrometry.

Authors:  Saira Hameed; Koji Ikegami; Eiji Sugiyama; Shoko Matsushita; Yoshishige Kimura; Takahiro Hayasaka; Yuki Sugiura; Noritaka Masaki; Michihiko Waki; Isao Ohta; Md Amir Hossen; Mitsutoshi Setou
Journal:  Anal Bioanal Chem       Date:  2015-08-27       Impact factor: 4.142

5.  Integration of metabolomics and transcriptomics in nanotoxicity studies.

Authors:  Tae Hwan Shin; Da Yeon Lee; Hyeon-Seong Lee; Hyung Jin Park; Moon Suk Jin; Man-Jeong Paik; Balachandran Manavalan; Jung-Soon Mo; Gwang Lee
Journal:  BMB Rep       Date:  2018-01       Impact factor: 4.778

6.  In vitro aggregating β-lactamase-polyQ chimeras do not induce toxic effects in an in vivo Caenorhabditis elegans model.

Authors:  Roel Van Assche; Charline Borghgraef; Jonathan Vaneyck; Mireille Dumoulin; Liliane Schoofs; Liesbet Temmerman
Journal:  J Negat Results Biomed       Date:  2017-08-22

Review 7.  From protein-protein interactions to protein co-expression networks: a new perspective to evaluate large-scale proteomic data.

Authors:  Danila Vella; Italo Zoppis; Giancarlo Mauri; Pierluigi Mauri; Dario Di Silvestre
Journal:  EURASIP J Bioinform Syst Biol       Date:  2017-03-20

8.  A multi-omics analysis of the grapevine pathogen Lasiodiplodia theobromae reveals that temperature affects the expression of virulence- and pathogenicity-related genes.

Authors:  Carina Félix; Rodrigo Meneses; Micael F M Gonçalves; Laurentijn Tilleman; Ana S Duarte; Jesus V Jorrín-Novo; Yves Van de Peer; Dieter Deforce; Filip Van Nieuwerburgh; Ana C Esteves; Artur Alves
Journal:  Sci Rep       Date:  2019-09-11       Impact factor: 4.379

9.  Combined Analysis of the Metabolome and Transcriptome Identified Candidate Genes Involved in Phenolic Acid Biosynthesis in the Leaves of Cyclocarya paliurus.

Authors:  Weida Lin; Yueling Li; Qiuwei Lu; Hongfei Lu; Junmin Li
Journal:  Int J Mol Sci       Date:  2020-02-17       Impact factor: 5.923

10.  Predicted functional interactome of Caenorhabditis elegans and a web tool for the functional interpretation of differentially expressed genes.

Authors:  Peng-Cheng Chen; Li Ruan; Jie Jin; Yu-Tian Tao; Xiao-Bao Ding; Hai-Bo Zhang; Wen-Ping Guo; Qiao-Lei Yang; Heng Yao; Xin Chen
Journal:  Biol Direct       Date:  2020-10-19       Impact factor: 4.540

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