Literature DB >> 19501190

Explorative data analysis techniques and unsupervised clustering methods to support clinical assessment of Chronic Obstructive Pulmonary Disease (COPD) phenotypes.

Matteo Paoletti1, Gianna Camiciottoli, Eleonora Meoni, Francesca Bigazzi, Lucia Cestelli, Massimo Pistolesi, Carlo Marchesi.   

Abstract

Chronic Obstructive Pulmonary Disease (COPD) is the fourth leading cause of death worldwide and represents one of the major causes of chronic morbidity. Cigarette smoking is the most important risk factor for COPD. In these patients, the airflow limitation is caused by a mixture of small airways disease and parenchyma destruction, the relative contribution of which varies from person to person. The twofold nature of the pathology has been studied in the past and according to some authors each patient should be classified as presenting a predominantly bronchial or emphysematous phenotype. In this study we applied various explorative analysis techniques (PCA, MCA, MDS) and recent unsupervised clustering methods (KHM) to study a large dataset, acquired from 415 COPD patients, to assess the presence of hidden structures in data corresponding to the different COPD phenotypes observed in clinical practice. In order to validate our methods, we compared the results obtained from a training set of 415 patients with lung density data acquired in a test set of 93 patients who underwent HRCT (High Resolution Computerized Tomography).

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Year:  2009        PMID: 19501190     DOI: 10.1016/j.jbi.2009.05.008

Source DB:  PubMed          Journal:  J Biomed Inform        ISSN: 1532-0464            Impact factor:   6.317


  13 in total

1.  Do COPD subtypes really exist? COPD heterogeneity and clustering in 10 independent cohorts.

Authors:  Peter J Castaldi; Marta Benet; Hans Petersen; Nicholas Rafaels; James Finigan; Matteo Paoletti; H Marike Boezen; Judith M Vonk; Russell Bowler; Massimo Pistolesi; Milo A Puhan; Josep Anto; Els Wauters; Diether Lambrechts; Wim Janssens; Francesca Bigazzi; Gianna Camiciottoli; Michael H Cho; Craig P Hersh; Kathleen Barnes; Stephen Rennard; Meher Preethi Boorgula; Jennifer Dy; Nadia N Hansel; James D Crapo; Yohannes Tesfaigzi; Alvar Agusti; Edwin K Silverman; Judith Garcia-Aymerich
Journal:  Thorax       Date:  2017-06-21       Impact factor: 9.139

2.  Cluster analysis in the COPDGene study identifies subtypes of smokers with distinct patterns of airway disease and emphysema.

Authors:  Peter J Castaldi; Jennifer Dy; James Ross; Yale Chang; George R Washko; Douglas Curran-Everett; Andre Williams; David A Lynch; Barry J Make; James D Crapo; Russ P Bowler; Elizabeth A Regan; John E Hokanson; Greg L Kinney; Meilan K Han; Xavier Soler; Joseph W Ramsdell; R Graham Barr; Marilyn Foreman; Edwin van Beek; Richard Casaburi; Gerald J Criner; Sharon M Lutz; Steven I Rennard; Stephanie Santorico; Frank C Sciurba; Dawn L DeMeo; Craig P Hersh; Edwin K Silverman; Michael H Cho
Journal:  Thorax       Date:  2014-02-21       Impact factor: 9.139

3.  Discretization of continuous features in clinical datasets.

Authors:  David M Maslove; Tanya Podchiyska; Henry J Lowe
Journal:  J Am Med Inform Assoc       Date:  2012-10-11       Impact factor: 4.497

4.  Chronic obstructive pulmonary disease phenotypes: the future of COPD.

Authors:  MeiLan K Han; Alvar Agusti; Peter M Calverley; Bartolome R Celli; Gerard Criner; Jeffrey L Curtis; Leonardo M Fabbri; Jonathan G Goldin; Paul W Jones; William Macnee; Barry J Make; Klaus F Rabe; Stephen I Rennard; Frank C Sciurba; Edwin K Silverman; Jørgen Vestbo; George R Washko; Emiel F M Wouters; Fernando J Martinez
Journal:  Am J Respir Crit Care Med       Date:  2010-06-03       Impact factor: 21.405

Review 5.  Informatics and machine learning to define the phenotype.

Authors:  Anna Okula Basile; Marylyn DeRiggi Ritchie
Journal:  Expert Rev Mol Diagn       Date:  2018-02-16       Impact factor: 5.225

6.  Cluster analysis in severe emphysema subjects using phenotype and genotype data: an exploratory investigation.

Authors:  Michael H Cho; George R Washko; Thomas J Hoffmann; Gerard J Criner; Eric A Hoffman; Fernando J Martinez; Nan Laird; John J Reilly; Edwin K Silverman
Journal:  Respir Res       Date:  2010-03-16

7.  Significance of bioinformatics in research of chronic obstructive pulmonary disease.

Authors:  Hong Chen; Xiangdong Wang
Journal:  J Clin Bioinforma       Date:  2011-12-20

Review 8.  Derivation and validation of clinical phenotypes for COPD: a systematic review.

Authors:  Lancelot M Pinto; Majed Alghamdi; Andrea Benedetti; Tasneem Zaihra; Tara Landry; Jean Bourbeau
Journal:  Respir Res       Date:  2015-04-18

Review 9.  Identification of clinical phenotypes using cluster analyses in COPD patients with multiple comorbidities.

Authors:  Pierre-Régis Burgel; Jean-Louis Paillasseur; Nicolas Roche
Journal:  Biomed Res Int       Date:  2014-02-10       Impact factor: 3.411

10.  A Systemic Inflammatory Endotype of Asthma With More Severe Disease Identified by Unbiased Clustering of the Serum Cytokine Profile.

Authors:  Zhenyu Liang; Laiyu Liu; Haijin Zhao; Yang Xia; Weizhen Zhang; Yanmei Ye; Mei Jiang; Shaoxi Cai
Journal:  Medicine (Baltimore)       Date:  2016-06       Impact factor: 1.889

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