Literature DB >> 31014954

Network Medicine in Pathobiology.

Laurel Yong-Hwa Lee1, Joseph Loscalzo2.   

Abstract

The past decade has witnessed exponential growth in the generation of high-throughput human data across almost all known dimensions of biological systems. The discipline of network medicine has rapidly evolved in parallel, providing an unbiased, comprehensive biological framework through which to interrogate and integrate systematically these large-scale, multi-omic data to enhance our understanding of disease mechanisms and to design drugs that reflect a deep knowledge of molecular pathobiology. In this review, we discuss the key principles of network medicine and the human disease network and explore the latest applications of network medicine in this multi-omic era. We also highlight the current conceptual and technological challenges, which serve as exciting opportunities by which to improve and expand the network-based applications beyond the artificial boundaries of the current state of human pathobiology.
Copyright © 2019 American Society for Investigative Pathology. Published by Elsevier Inc. All rights reserved.

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Year:  2019        PMID: 31014954      PMCID: PMC6616999          DOI: 10.1016/j.ajpath.2019.03.009

Source DB:  PubMed          Journal:  Am J Pathol        ISSN: 0002-9440            Impact factor:   4.307


  132 in total

1.  Emergence of scaling in random networks

Authors: 
Journal:  Science       Date:  1999-10-15       Impact factor: 47.728

2.  Learning the parts of objects by non-negative matrix factorization.

Authors:  D D Lee; H S Seung
Journal:  Nature       Date:  1999-10-21       Impact factor: 49.962

3.  Error and attack tolerance of complex networks

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Journal:  Nature       Date:  2000-07-27       Impact factor: 49.962

4.  Hierarchical organization of modularity in metabolic networks.

Authors:  E Ravasz; A L Somera; D A Mongru; Z N Oltvai; A L Barabási
Journal:  Science       Date:  2002-08-30       Impact factor: 47.728

5.  The common PPARgamma Pro12Ala polymorphism is associated with decreased risk of type 2 diabetes.

Authors:  D Altshuler; J N Hirschhorn; M Klannemark; C M Lindgren; M C Vohl; J Nemesh; C R Lane; S F Schaffner; S Bolk; C Brewer; T Tuomi; D Gaudet; T J Hudson; M Daly; L Groop; E S Lander
Journal:  Nat Genet       Date:  2000-09       Impact factor: 38.330

6.  METLIN: a metabolite mass spectral database.

Authors:  Colin A Smith; Grace O'Maille; Elizabeth J Want; Chuan Qin; Sunia A Trauger; Theodore R Brandon; Darlene E Custodio; Ruben Abagyan; Gary Siuzdak
Journal:  Ther Drug Monit       Date:  2005-12       Impact factor: 3.681

7.  A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration.

Authors:  Janghoo Lim; Tong Hao; Chad Shaw; Akash J Patel; Gábor Szabó; Jean-François Rual; C Joseph Fisk; Ning Li; Alex Smolyar; David E Hill; Albert-László Barabási; Marc Vidal; Huda Y Zoghbi
Journal:  Cell       Date:  2006-05-19       Impact factor: 41.582

8.  Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles.

Authors:  Jeremiah J Faith; Boris Hayete; Joshua T Thaden; Ilaria Mogno; Jamey Wierzbowski; Guillaume Cottarel; Simon Kasif; James J Collins; Timothy S Gardner
Journal:  PLoS Biol       Date:  2007-01       Impact factor: 8.029

9.  ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context.

Authors:  Adam A Margolin; Ilya Nemenman; Katia Basso; Chris Wiggins; Gustavo Stolovitzky; Riccardo Dalla Favera; Andrea Califano
Journal:  BMC Bioinformatics       Date:  2006-03-20       Impact factor: 3.169

10.  HMDB: the Human Metabolome Database.

Authors:  David S Wishart; Dan Tzur; Craig Knox; Roman Eisner; An Chi Guo; Nelson Young; Dean Cheng; Kevin Jewell; David Arndt; Summit Sawhney; Chris Fung; Lisa Nikolai; Mike Lewis; Marie-Aude Coutouly; Ian Forsythe; Peter Tang; Savita Shrivastava; Kevin Jeroncic; Paul Stothard; Godwin Amegbey; David Block; David D Hau; James Wagner; Jessica Miniaci; Melisa Clements; Mulu Gebremedhin; Natalie Guo; Ying Zhang; Gavin E Duggan; Glen D Macinnis; Alim M Weljie; Reza Dowlatabadi; Fiona Bamforth; Derrick Clive; Russ Greiner; Liang Li; Tom Marrie; Brian D Sykes; Hans J Vogel; Lori Querengesser
Journal:  Nucleic Acids Res       Date:  2007-01       Impact factor: 16.971

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  15 in total

Review 1.  Molecular networks in Network Medicine: Development and applications.

Authors:  Edwin K Silverman; Harald H H W Schmidt; Eleni Anastasiadou; Lucia Altucci; Marco Angelini; Lina Badimon; Jean-Luc Balligand; Giuditta Benincasa; Giovambattista Capasso; Federica Conte; Antonella Di Costanzo; Lorenzo Farina; Giulia Fiscon; Laurent Gatto; Michele Gentili; Joseph Loscalzo; Cinzia Marchese; Claudio Napoli; Paola Paci; Manuela Petti; John Quackenbush; Paolo Tieri; Davide Viggiano; Gemma Vilahur; Kimberly Glass; Jan Baumbach
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2020-04-19

Review 2.  Construction and contextualization approaches for protein-protein interaction networks.

Authors:  Apurva Badkas; Sébastien De Landtsheer; Thomas Sauter
Journal:  Comput Struct Biotechnol J       Date:  2022-06-18       Impact factor: 6.155

3.  A proposal for the addressing the needs of the pediatric pulmonary work force.

Authors:  Benjamin Gaston; Theresa A Laguna; Terry L Noah; James Hagood; Judith Voynow; Thomas Ferkol; Marc Hershenson; Katie Boyne; Angela Delecaris; Kristie Ross; David Gozal; Juan C Celedón; Steven H Abman; Paul Moore; Stephanie Davis; David N Cornfield; Thomas Murphy
Journal:  Pediatr Pulmonol       Date:  2020-06-12

Review 4.  The application of big data to cardiovascular disease: paths to precision medicine.

Authors:  Jane A Leopold; Bradley A Maron; Joseph Loscalzo
Journal:  J Clin Invest       Date:  2020-01-02       Impact factor: 14.808

Review 5.  Network medicine in Cardiovascular Research.

Authors:  Laurel Y Lee; Arvind K Pandey; Bradley A Maron; Joseph Loscalzo
Journal:  Cardiovasc Res       Date:  2021-08-29       Impact factor: 10.787

Review 6.  NHLBI-CMREF Workshop Report on Pulmonary Vascular Disease Classification: JACC State-of-the-Art Review.

Authors:  William M Oldham; Anna R Hemnes; Micheala A Aldred; John Barnard; Evan L Brittain; Stephen Y Chan; Feixiong Cheng; Michael H Cho; Ankit A Desai; Joe G N Garcia; Mark W Geraci; Susan D Ghiassian; Kathryn T Hall; Evelyn M Horn; Mohit Jain; Rachel S Kelly; Jane A Leopold; Sara Lindstrom; Brian D Modena; William C Nichols; Christopher J Rhodes; Wei Sun; Andrew J Sweatt; Rebecca R Vanderpool; Martin R Wilkins; Beth Wilmot; Roham T Zamanian; Joshua P Fessel; Neil R Aggarwal; Joseph Loscalzo; Lei Xiao
Journal:  J Am Coll Cardiol       Date:  2021-04-27       Impact factor: 27.203

Review 7.  Network Medicine: A Clinical Approach for Precision Medicine and Personalized Therapy in Coronary Heart Disease.

Authors:  Teresa Infante; Luca Del Viscovo; Maria Luisa De Rimini; Sergio Padula; Pio Caso; Claudio Napoli
Journal:  J Atheroscler Thromb       Date:  2019-11-12       Impact factor: 4.928

8.  Individualized interactomes for network-based precision medicine in hypertrophic cardiomyopathy with implications for other clinical pathophenotypes.

Authors:  Bradley A Maron; Rui-Sheng Wang; Sergei Shevtsov; Stavros G Drakos; Elena Arons; Omar Wever-Pinzon; Gordon S Huggins; Andriy O Samokhin; William M Oldham; Yasmine Aguib; Magdi H Yacoub; Ethan J Rowin; Barry J Maron; Martin S Maron; Joseph Loscalzo
Journal:  Nat Commun       Date:  2021-02-08       Impact factor: 14.919

9.  A global network for network medicine.

Authors:  Bradley A Maron; Lucia Altucci; Jean-Luc Balligand; Jan Baumbach; Peter Ferdinandy; Sebastiano Filetti; Paolo Parini; Enrico Petrillo; Edwin K Silverman; Albert-László Barabási; Joseph Loscalzo
Journal:  NPJ Syst Biol Appl       Date:  2020-08-31

10.  Network-Based Analysis Reveals Association of FOXE1 Gene Polymorphisms in Thyroid Cancer Patients; A Case-Control Study in Southeast of Iran.

Authors:  Ahmad Mehrazin; Hossein Safarpour; Seyedeh Tahmineh Davoudi; Negin Parsamanesh; Farhad Saeedi; Ebrahim Miri-Moghaddam
Journal:  Asian Pac J Cancer Prev       Date:  2020-09-01
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