Literature DB >> 20444302

Graph methods for the investigation of metabolic networks in parasitology.

Ludovic Cottret1, Fabien Jourdan.   

Abstract

Recently, a way was opened with the development of many mathematical methods to model and analyze genome-scale metabolic networks. Among them, methods based on graph models enable to us quickly perform large-scale analyses on large metabolic networks. However, it could be difficult for parasitologists to select the graph model and methods adapted to their biological questions. In this review, after briefly addressing the problem of the metabolic network reconstruction, we propose an overview of the graph-based approaches used in whole metabolic network analyses. Applications highlight the usefulness of this kind of approach in the field of parasitology, especially by suggesting metabolic targets for new drugs. Their development still represents a major challenge to fight against the numerous diseases caused by parasites.

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Year:  2010        PMID: 20444302     DOI: 10.1017/S0031182010000363

Source DB:  PubMed          Journal:  Parasitology        ISSN: 0031-1820            Impact factor:   3.234


  8 in total

1.  Modelling and analysis of the dynamics of adaptive temporal-causal network models for evolving social interactions.

Authors:  Jan Treur
Journal:  Comput Soc Netw       Date:  2017-06-12

2.  Exploration of the core metabolism of symbiotic bacteria.

Authors:  Cecilia Coimbra Klein; Ludovic Cottret; Janice Kielbassa; Hubert Charles; Christian Gautier; Ana Tereza Ribeiro de Vasconcelos; Vincent Lacroix; Marie-France Sagot
Journal:  BMC Genomics       Date:  2012-08-31       Impact factor: 3.969

3.  MetaboCraft: building a Minecraft plugin for metabolomics.

Authors:  Anargyros Megalios; Rónán Daly; Karl Burgess
Journal:  Bioinformatics       Date:  2018-08-01       Impact factor: 6.937

Review 4.  Networks and Graphs Discovery in Metabolomics Data Analysis and Interpretation.

Authors:  Adam Amara; Clément Frainay; Fabien Jourdan; Thomas Naake; Steffen Neumann; Elva María Novoa-Del-Toro; Reza M Salek; Liesa Salzer; Sarah Scharfenberg; Michael Witting
Journal:  Front Mol Biosci       Date:  2022-03-08

5.  Pathway Driven Target Selection in Klebsiella pneumoniae: Insights Into Carbapenem Exposure.

Authors:  Federico Serral; Agustin M Pardo; Ezequiel Sosa; María Mercedes Palomino; Marisa F Nicolás; Adrian G Turjanski; Pablo Ivan P Ramos; Darío Fernández Do Porto
Journal:  Front Cell Infect Microbiol       Date:  2022-01-31       Impact factor: 5.293

Review 6.  From Genome to Drugs: New Approaches in Antimicrobial Discovery.

Authors:  Federico Serral; Florencia A Castello; Ezequiel J Sosa; Agustín M Pardo; Miranda Clara Palumbo; Carlos Modenutti; María Mercedes Palomino; Alberto Lazarowski; Jerónimo Auzmendi; Pablo Ivan P Ramos; Marisa F Nicolás; Adrián G Turjanski; Marcelo A Martí; Darío Fernández Do Porto
Journal:  Front Pharmacol       Date:  2021-06-09       Impact factor: 5.810

Review 7.  Leveraging User-Friendly Network Approaches to Extract Knowledge From High-Throughput Omics Datasets.

Authors:  Pablo Ivan Pereira Ramos; Luis Willian Pacheco Arge; Nicholas Costa Barroso Lima; Kiyoshi F Fukutani; Artur Trancoso L de Queiroz
Journal:  Front Genet       Date:  2019-11-13       Impact factor: 4.599

8.  TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei.

Authors:  Sanu Shameer; Flora J Logan-Klumpler; Florence Vinson; Ludovic Cottret; Benjamin Merlet; Fiona Achcar; Michael Boshart; Matthew Berriman; Rainer Breitling; Frédéric Bringaud; Peter Bütikofer; Amy M Cattanach; Bridget Bannerman-Chukualim; Darren J Creek; Kathryn Crouch; Harry P de Koning; Hubert Denise; Charles Ebikeme; Alan H Fairlamb; Michael A J Ferguson; Michael L Ginger; Christiane Hertz-Fowler; Eduard J Kerkhoven; Pascal Mäser; Paul A M Michels; Archana Nayak; David W Nes; Derek P Nolan; Christian Olsen; Fatima Silva-Franco; Terry K Smith; Martin C Taylor; Aloysius G M Tielens; Michael D Urbaniak; Jaap J van Hellemond; Isabel M Vincent; Shane R Wilkinson; Susan Wyllie; Fred R Opperdoes; Michael P Barrett; Fabien Jourdan
Journal:  Nucleic Acids Res       Date:  2014-10-09       Impact factor: 16.971

  8 in total

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