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Network analysis and COPD

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https://www.readbyqxmd.com/read/29470502/chronic-obstructive-pulmonary-disease-copd-as-a-disease-of-early-aging-evidence-from-the-epichron-cohort
#1
Miguel J Divo, Bartolome R Celli, Beatriz Poblador-Plou, Amaia Calderón-Larrañaga, Juan Pablo de-Torres, Luis A Gimeno-Feliu, Juan Bertó, Javier J Zulueta, Ciro Casanova, Victor M Pinto-Plata, Carlos Cabrera-Lopez, Francesca Polverino, Jonás Carmona Píréz, Alexandra Prados-Torres, Jose M Marin
BACKGROUND: Aging is an important risk factor for most chronic diseases. Patients with COPD develop more comorbidities than non-COPD subjects. We hypothesized that the development of comorbidities characteristically affecting the elderly occur at an earlier age in subjects with the diagnosis of COPD. METHODS AND FINDINGS: We included all subjects carrying the diagnosis of COPD (n = 27,617), and a similar number of age and sex matched individuals without the diagnosis, extracted from the 727,241 records of individuals 40 years and older included in the EpiChron Cohort (Aragon, Spain)...
2018: PloS One
https://www.readbyqxmd.com/read/29393428/integration-of-transcriptomics-proteomics-metabolomics-and-systems-pharmacology-data-to-reveal-the-therapeutic-mechanism-underlying-chinese-herbal-bufei-yishen-formula-for-the-treatment-of-chronic-obstructive-pulmonary-disease
#2
Peng Zhao, Jiansheng Li, Liping Yang, Ya Li, Yange Tian, Suyun Li
Bufei Yishen formula (BYF) is a traditional Chinese medicine formula, which has long been used as a therapeutic agent for the treatment of chronic obstructive pulmonary disease (COPD). Systems pharmacology has previously been used to identify the potential targets of BYF, and an experimental study has demonstrated that BYF is able to prevent COPD. In addition, the transcriptomic and metabolomic profiles of lung tissues from rats with COPD and BYF‑treated rats have been characterized. The present study aimed to determine the therapeutic mechanisms underlying the effects of BYF on COPD treatment by integrating transcriptomics, proteomics and metabolomics, together with systems pharmacology datasets...
January 25, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29351331/the-association-between-previous-and-future-severe-exacerbations-of-chronic-obstructive-pulmonary-disease-updating-the-literature-using-robust-statistical-methodology
#3
Mohsen Sadatsafavi, Hui Xie, Mahyar Etminan, Kate Johnson, J Mark FitzGerald
BACKGROUND: There is minimal evidence on the extent to which the occurrence of a severe acute exacerbation of COPD that results in hospitalization affects the subsequent disease course. Previous studies on this topic did not generate causally-interpretable estimates. Our aim was to use corrected methodology to update previously reported estimates of the associations between previous and future exacerbations in these patients. METHODS: Using administrative health data in British Columbia, Canada (1997-2012), we constructed a cohort of patients with at least one severe exacerbation, defined as an episode of inpatient care with the main diagnosis of COPD based on international classification of diseases (ICD) codes...
2018: PloS One
https://www.readbyqxmd.com/read/29335020/ensemble-genomic-analysis-in-human-lung-tissue-identifies-novel-genes-for-chronic-obstructive-pulmonary-disease
#4
Jarrett D Morrow, Michael H Cho, John Platig, Xiaobo Zhou, Dawn L DeMeo, Weiliang Qiu, Bartholome Celli, Nathaniel Marchetti, Gerard J Criner, Raphael Bueno, George R Washko, Kimberly Glass, John Quackenbush, Edwin K Silverman, Craig P Hersh
BACKGROUND: Genome-wide association studies (GWAS) have identified single nucleotide polymorphisms (SNPs) significantly associated with chronic obstructive pulmonary disease (COPD). However, many genetic variants show suggestive evidence for association but do not meet the strict threshold for genome-wide significance. Integrative analysis of multiple omics datasets has the potential to identify novel genes involved in disease pathogenesis by leveraging these variants in a functional, regulatory context...
January 15, 2018: Human Genomics
https://www.readbyqxmd.com/read/29186145/respective-impact-of-implementation-of-prevention-strategies-colonization-with-multiresistant-bacteria-and-antimicrobial-use-on-the-risk-of-early-and-late-onset-vap-an-analysis-of-the-outcomerea-network
#5
Wafa Ibn Saied, Bertrand Souweine, Maité Garrouste-Orgeas, Stéphane Ruckly, Michael Darmon, Sébastien Bailly, Yves Cohen, Elie Azoulay, Carole Schwebel, Aguila Radjou, Hatem Kallel, Christophe Adrie, Anne-Sylvie Dumenil, Laurent Argaud, Guillaume Marcotte, Samir Jamali, Laurent Papazian, Dany Goldgran-Toledano, Lila Bouadma, Jean-Francois Timsit
RATIONALE: The impact of prevention strategies and risk factors for early-onset (EOP) versus late-onset (LOP) ventilator-associated pneumonia (VAP) are still debated. OBJECTIVES: To evaluate, in a multicenter cohort, the risk factors for EOP and LOP, as the evolution of prevention strategies. METHODS: 7,784 patients with mechanical ventilation (MV) for at least 48 hours were selected into the multicenter prospective OUTCOMEREA database (1997-2016)...
2017: PloS One
https://www.readbyqxmd.com/read/29176802/assessment-of-automated-analysis-of-portable-oximetry-as-a-screening-test-for-moderate-to-severe-sleep-apnea-in-patients-with-chronic-obstructive-pulmonary-disease
#6
Ana M Andrés-Blanco, Daniel Álvarez, Andrea Crespo, C Ainhoa Arroyo, Ana Cerezo-Hernández, Gonzalo C Gutiérrez-Tobal, Roberto Hornero, Félix Del Campo
BACKGROUND: The coexistence of obstructive sleep apnea syndrome (OSAS) and chronic obstructive pulmonary disease (COPD) leads to increased morbidity and mortality. The development of home-based screening tests is essential to expedite diagnosis. Nevertheless, there is still very limited evidence on the effectiveness of portable monitoring to diagnose OSAS in patients with pulmonary comorbidities. OBJECTIVE: To assess the influence of suffering from COPD in the performance of an oximetry-based screening test for moderate-to-severe OSAS, both in the hospital and at home...
2017: PloS One
https://www.readbyqxmd.com/read/29066881/entropy-change-of-biological-dynamics-in-copd
#7
REVIEW
Yu Jin, Chang Chen, Zhixin Cao, Baoqing Sun, Iek Long Lo, Tzu-Ming Liu, Jun Zheng, Shixue Sun, Yan Shi, Xiaohua Douglas Zhang
In this century, the rapid development of large data storage technologies, mobile network technology, and portable medical devices makes it possible to measure, record, store, and track analysis of large amount of data in human physiological signals. Entropy is a key metric for quantifying the irregularity contained in physiological signals. In this review, we focus on how entropy changes in various physiological signals in COPD. Our review concludes that the entropy change relies on the types of physiological signals under investigation...
2017: International Journal of Chronic Obstructive Pulmonary Disease
https://www.readbyqxmd.com/read/29054348/survival-of-lung-transplant-candidates-with-copd-bode-score-reconsidered
#8
Robert M Reed, Howard J Cabral, Mark T Dransfield, Michael Eberlein, Christian A Merlo, Matthew J Mulligan, Giora Netzer, Pablo G Sanchez, Steven M Scharf, Don D Sin, Bartholome R Celli
BACKGROUND: The BMI, obstruction, dyspnea, and exercise capacity (BODE) score is used to inform prognostic considerations for lung transplantation for COPD, but it has not been validated in this context. A large proportion of mortality in COPD is attributable to comorbidities that could preclude transplant candidacy. We hypothesized that patients with COPD who are selected as transplant candidates experience better survival than traditional interpretation of BODE scores might indicate...
October 17, 2017: Chest
https://www.readbyqxmd.com/read/29051040/on-the-potential-role-of-mri-biomarkers-of-copd-to-guide-bronchoscopic-lung-volume-reduction
#9
Colin J Adams, Dante P I Capaldi, Robert Di Cesare, David G McCormack, Grace Parraga
RATIONALE AND OBJECTIVES: In patients with severe emphysema and poor quality of life, bronchoscopic lung volume reduction (BLVR) may be considered and guided based on lobar emphysema severity. In particular, x-ray computed tomography (CT) emphysema measurements are used to identify the most diseased and the second-most diseased lobes as BLVR targets. Inhaled gas magnetic resonance imaging (MRI) also provides chronic obstructive pulmonary disease (COPD) biomarkers of lobar emphysema and ventilation abnormalities...
October 16, 2017: Academic Radiology
https://www.readbyqxmd.com/read/29021576/the-recording-and-characteristics-of-pulmonary-rehabilitation-in-patients-with-copd-using-the-health-information-network-thin-primary-care-database
#10
Ali Hakamy, Tricia M McKeever, Jack E Gibson, Charlotte E Bolton
Pulmonary rehabilitation is recommended for patients with COPD to improve physical function, breathlessness and quality of life. Using The Health Information Network (THIN) primary care database in UK, we compared the demographic and clinical parameters of patients with COPD in relation to coding of pulmonary rehabilitation, and to investigate whether there is a survival benefit from pulmonary rehabilitation. We identified patients with COPD, diagnosed from 2004 and extracted information on demographics, pulmonary rehabilitation and clinical parameters using the relevant Read codes...
October 11, 2017: NPJ Primary Care Respiratory Medicine
https://www.readbyqxmd.com/read/29020824/biomarkers-of-oxidative-stress-and-protein-protein-interaction-in-chronic-obstructive-pulmonary-disease
#11
Taru Aggarwal, Ridhima Wadhwa, Vishwajeet Rohil, Pawan Kumar Maurya
CONTENT: The increased oxidative stress in chronic obstructive pulmonary disease (COPD) patients is the result of increased inhaled oxidants, generated by various cells of the airways. OBJECTIVE: The investigation included measurements of malondiadehyde (MDA), uric acid, ascorbic acid, and matrix metalloproteinase-12 (MMP-12) in COPD patient. We also performed genetic analysis for protein-protein interaction (PPI) network. MATERIALS AND METHODS: The study was conducted on healthy subjects with normal lung function (NS, 14 subjects) and 28 patients (Global Initiative for Chronic Obstructive Lung Disease (Gold) 1 and Gold 2) with COPD...
October 11, 2017: Archives of Physiology and Biochemistry
https://www.readbyqxmd.com/read/29016655/meta-analysis-of-peripheral-blood-gene-expression-modules-for-copd-phenotypes
#12
Dominik Reinhold, Jarrett D Morrow, Sean Jacobson, Junxiao Hu, Benjamin Ringel, Max A Seibold, Craig P Hersh, Katerina J Kechris, Russell P Bowler
Chronic obstructive pulmonary disease (COPD) occurs typically in current or former smokers, but only a minority of people with smoking history develops the disease. Besides environmental factors, genetics is an important risk factor for COPD. However, the relationship between genetics, environment and phenotypes is not well understood. Sample sizes for genome-wide expression studies based on lung tissue have been small due to the invasive nature of sample collection. Increasing evidence for the systemic nature of the disease makes blood a good alternative source to study the disease, but there have also been few large-scale blood genomic studies in COPD...
2017: PloS One
https://www.readbyqxmd.com/read/28976774/proteomic-analysis-of-extracellular-hmgb1-identifies-binding-partners-and-exposes-its-potential-role-in-airway-epithelial-cell-homeostasis
#13
Sharon L Wong, Joyce To, Jerran Santos, Venkata Sita Rama Raju Allam, John P Dalton, Steven P Djordjevic, Sheila Donnelly, Matthew P Padula, Maria B Sukkar
The release of damage-associated molecular patterns (DAMPs) by airway epithelial cells is believed to play a crucial role in the initiation and development of chronic airway conditions such as asthma and chronic obstructive pulmonary disease (COPD). Intriguingly, the classic DAMP high-mobility group box-1 (HMGB1) is detected in the culture supernatant of airway epithelial cells under basal conditions, indicating a role for HMGB1 in the regulation of epithelial cellular and immune homeostasis. To gain contextual insight into the potential role of HMGB1 in airway epithelial cell homeostasis, we used the orthogonal and complementary methods of high-resolution clear native electrophoresis, immunoprecipitation, and pull-downs coupled to liquid chromatography-tandem mass spectrometry (LC-MS/MS) to profile HMGB1 and its binding partners in the culture supernatant of unstimulated airway epithelial cells...
November 14, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28954781/multi-level-differential-network-analysis-of-copd-exacerbations
#14
Guillaume Noell, Borja G Cosío, Rosa Faner, Eduard Monsó, German Peces-Barba, Alfredo de Diego, Cristobal Esteban, Joaquim Gea, Robert Rodriguez-Roisin, Marian Garcia-Nuñez, Francisco Pozo-Rodriguez, Susana G Kalko, Alvar Agustí
Patients with chronic obstructive pulmonary disease (COPD) often suffer episodes of exacerbation (ECOPD) that impact negatively the course of their disease. ECOPD are heterogeneous events of unclear pathobiology and non-specific diagnosis. Network analysis is a novel research approach that can help unravelling complex biological systems. We hypothesised that the comparison of multi-level (i.e., clinical, physiological, biological, imaging and microbiological) correlation networks determined during ECOPD and convalescence can yield novel patho-biologic information...
September 2017: European Respiratory Journal: Official Journal of the European Society for Clinical Respiratory Physiology
https://www.readbyqxmd.com/read/28943559/early-detection-of-chronic-obstructive-pulmonary-disease-in-primary-care
#15
Seiichi Kobayashi, Masakazu Hanagama, Masaru Yanai
Objective To evaluate the effectiveness of an early detection program for chronic obstructive pulmonary disease (COPD) in a primary care setting in Japan. Methods Participants of ≥40 years of age who regularly visited a general practitioner's clinic due to chronic disease were asked to complete a COPD screening questionnaire (COPD Population Screener; COPD-PS) and undergo simplified spirometry using a handheld spirometric device. Patients who showed possible COPD were referred to a respiratory specialist and underwent a detailed examination that included spirometry and chest radiography...
December 1, 2017: Internal Medicine
https://www.readbyqxmd.com/read/28892454/disease-staging-and-prognosis-in-smokers-using-deep-learning-in-chest-computed-tomography
#16
Germán González, Samuel Y Ash, Gonzalo Vegas-Sánchez-Ferrero, Jorge Onieva Onieva, Farbod N Rahaghi, James C Ross, Alejandro Díaz, Raúl San José Estépar, George R Washko
RATIONALE: Deep learning is a powerful tool that may allow for improved outcome prediction. OBJECTIVES: To determine if deep learning, specifically convolutional neural network (CNN) analysis, could detect and stage chronic obstructive pulmonary disease (COPD) and predict acute respiratory disease (ARD) events and mortality in smokers. METHODS: A CNN was trained using computed tomography scans from 7,983 COPDGene participants and evaluated using 1,000 nonoverlapping COPDGene participants and 1,672 ECLIPSE participants...
January 15, 2018: American Journal of Respiratory and Critical Care Medicine
https://www.readbyqxmd.com/read/28886252/total-airway-count-on-computed-tomography-and-the-risk-of-chronic-obstructive-pulmonary-disease-progression-findings-from-a-population-based-study
#17
Miranda Kirby, Naoya Tanabe, Wan C Tan, Guohai Zhou, Ma'en Obeidat, Cameron J Hague, Jonathon Leipsic, Jean Bourbeau, Don D Sin, James C Hogg, Harvey O Coxson
RATIONALE: Studies of excised lungs show that significant airway attrition in the "quiet" zone occurs early in chronic obstructive pulmonary disease (COPD). OBJECTIVES: To determine if the total number of airways quantified in vivo using computed tomography (CT) reflects early airway-related disease changes and is associated with lung function decline independent of emphysema in COPD. METHODS: Participants in the multicenter, population-based, longitudinal CanCOLD (Canadian Chronic Obstructive Lung Disease) study underwent inspiratory/expiratory CT at visit 1; spirometry was performed at four visits over 6 years...
January 1, 2018: American Journal of Respiratory and Critical Care Medicine
https://www.readbyqxmd.com/read/28873096/chronic-obstructive-pulmonary-disease-candidate-gene-prioritization-based-on-metabolic-networks-and-functional-information
#18
Xinyan Wang, Wan Li, Yihua Zhang, Yuyan Feng, Xilei Zhao, Yuehan He, Jun Zhang, Lina Chen
Chronic obstructive pulmonary disease (COPD) is a multi-factor disease, in which metabolic disturbances played important roles. In this paper, functional information was integrated into a COPD-related metabolic network to assess similarity between genes. Then a gene prioritization method was applied to the COPD-related metabolic network to prioritize COPD candidate genes. The gene prioritization method was superior to ToppGene and ToppNet in both literature validation and functional enrichment analysis. Top-ranked genes prioritized from the metabolic perspective with functional information could promote the better understanding about the molecular mechanism of this disease...
2017: PloS One
https://www.readbyqxmd.com/read/28753070/impact-of-mucolytic-agents-on-copd-exacerbations-a-pair-wise-and-network-meta-analysis
#19
Mario Cazzola, Paola Rogliani, Luigino Calzetta, Nicola A Hanania, Maria Gabriella Matera
Mucolytics are potentially useful for the management of chronic obstructive pulmonary disease (COPD), although there is conflicting advice on their use in different guideline documents. Furthermore, there is paucity of data comparing the efficacy of the different mucolytic agents in reducing the odds of COPD exacerbations. We performed pair-wise and network meta-analyses to evaluate the impact of mucoly-tics in COPD. Randomized clinical trials lasting at least 3 months and investigating the effects of mucolytics on COPD exacerbations were identified from published studies and repository databases...
October 2017: COPD
https://www.readbyqxmd.com/read/28750556/the-quebec-respiratory-health-education-network-integrating-a-model-of-self-management-education-in-copd-primary-care
#20
Jean Bourbeau, Raquel Farias, Pei Zhi Li, Guylaine Gauthier, Livia Battisti, Valérie Chabot, Marie-France Beauchesne, Denis Villeneuve, Patricia Côté, Louis-Philippe Boulet
The objective of this study is to evaluate whether a chronic obstructive pulmonary disease (COPD) self-management education program with coaching of a case manager improves patient-related outcomes and leads to practice changes in primary care. COPD patients from six family medicine clinics (FMCs) participated in a 1-year educational program offered by trained case managers who focused on treatment adherence, inhaler techniques, smoking cessation, and the use of an action plan for exacerbations. Health-care utilization, health-related quality of life (HRQL), treatment adherence, inhaler technique, and COPD knowledge were assessed at each visit with validated questionnaires...
January 1, 2017: Chronic Respiratory Disease
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