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Links from GEO DataSets

Items: 20

1.
Full record GDS4265

Chronic obstructive pulmonary disease in ex-smokers: sputum

Analysis of sputum from ex-smokers with moderate (stage 2) or severe (stages 3, 4) chronic obstructive pulmonary disease (COPD). Induced sputum contains inflammatory cells, predominantly neutrophils and macrophages. Results provide insight into molecular mechanisms underlying COPD progression.
Organism:
Homo sapiens
Type:
Expression profiling by array, count, 3 disease state sets
Platform:
GPL570
Series:
GSE22148
143 Samples
Download data: CEL
DataSet
Accession:
GDS4265
ID:
4265
2.

Induced Sputum Genes Associated With Spirometroc and Radiological Disease Severity in COPD Ex-smokers

(Submitter supplied) Induced sputum is used to sample inflammatory cells, predominantly neutrophils and macrophages, from the airways of COPD patients. Our aim was to identify candidate genes associated with the degree of airflow obstruction and the extent of emphysema by expression profiling, and then to confirm these findings for selected candidates using specific PCR and protein analysis.
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS4265
Platform:
GPL570
143 Samples
Download data: CEL
Series
Accession:
GSE22148
ID:
200022148
3.

Whole-genome gene expression profiles of non-tumorous human lung tissues

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10379
1349 Samples
Download data: CEL
Series
Accession:
GSE23546
ID:
200023546
4.

Whole-genome gene expression profiles of non-tumorous human lung tissues: GRNG set

(Submitter supplied) We profiled genome-wide gene expression in non-tumorous human lung tissues. The overall goal of this project is to improve our molecular understanding of various lung diseases including lung cancer and chronic obstructive pulmonary disease (COPD).
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10379
445 Samples
Download data: CEL
Series
Accession:
GSE23545
ID:
200023545
5.

Whole-genome gene expression profiles of non-tumorous human lung tissues: UBC set

(Submitter supplied) We profiled genome-wide gene expression in non-tumorous human lung tissues. The overall goal of this project is to improve our molecular understanding of various lung diseases including lung cancer and chronic obstructive pulmonary disease (COPD).
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10379
405 Samples
Download data: CEL
Series
Accession:
GSE23529
ID:
200023529
6.

Whole-genome gene expression profiles of non-tumorous human lung tissues: Laval set

(Submitter supplied) We profiled genome-wide gene expression in non-tumorous human lung tissues. The overall goal of this project is to improve our molecular understanding of various lung diseases including lung cancer and chronic obstructive pulmonary disease (COPD).
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10379
499 Samples
Download data: CEL
Series
Accession:
GSE23352
ID:
200023352
7.

RNA-sequencing across three matched tissues highlights gene expression signatures in COPD

(Submitter supplied) Multiple gene expression studies have been performed separately in peripheral blood, lung, and airway tissues to study COPD. We performed RNA-sequencing gene expression profiling of large-airway epithelium, alveolar macrophage and peripheral blood samples from the same set of COPD cases and controls from the COPDGene study who underwent bronchoscopy at a single center. Using statistical and gene set enrichment approaches, we sought to improve the understanding of COPD by studying gene sets and pathways across these tissues, beyond the individual genomic determinants.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
63 Samples
Download data: TSV
Series
Accession:
GSE124180
ID:
200124180
8.

Gene expression networks in COPD: microRNA and mRNA regulation

(Submitter supplied) 70 miRNAs and 2667 mRNAs were differentially expressed between lung tissue from subjects with COPD and smokers without COPD. miRNA and mRNA expression profiles enriched for biological pathways that may be relevant to the pathogenesis of COPD including the transforming growth factor b, Wnt and focal adhesion pathways. miR-223 and miR-1274a were the most affected miRNAs in subjects with COPD compared with smokers without obstruction. more...
Organism:
Human alphaherpesvirus 1; Macaca mulatta polyomavirus 1; Rattus norvegicus; JC polyomavirus; Murid gammaherpesvirus 4; Mus musculus; Human gammaherpesvirus 4; Human gammaherpesvirus 8; Human polyomavirus 1; Homo sapiens; Human betaherpesvirus 5; Murid betaherpesvirus 1; Human immunodeficiency virus 1
Type:
Expression profiling by array; Non-coding RNA profiling by array
Platforms:
GPL4133 GPL7723
59 Samples
Download data
Series
Accession:
GSE38974
ID:
200038974
9.

Analysis of sputum gene expression data in Asthma and COPD

(Submitter supplied) In addition to analyzing whole-genome methylation, we concomitantly evaluated sputum cell gene expression in the context of chronic inflammatory lung disease. Nucleic acids were purified from sputum samples of subjects with Asthma, COPD as well as healthy controls. Gene expression was analyzed on the Agilent Human GE 4x44k v2 platform.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL13497
25 Samples
Download data: TXT
Series
Accession:
GSE148004
ID:
200148004
10.

Analysis of sputum methylation data in Asthma and COPD

(Submitter supplied) We evaluated the applicability and usability of whole-genome methylomics of sputum samples in molecular profiling of chronic inflammatory lung diseases. Genomic DNA was purified from sputum samples of subjects with Asthma, COPD as well as healthy controls and analyzed on the Illumina Infinium HumanMethylation 450k platform.
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL13534
26 Samples
Download data: IDAT, TXT
Series
Accession:
GSE148000
ID:
200148000
11.

Expression Profiling Identifies Genes Involved in Emphysema

(Submitter supplied) Chronic obstructive pulmonary disease (COPD) is a major public health problem. The aim of this study was to identify genes involved in emphysema severity in COPD patients. Gene expression profiling was performed on total RNA extracted from non-tumor lung tissue from 30 smokers with emphysema. Class comparison analysis based on gas transfer measurement was performed to identify differentially expressed genes. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL3877
30 Samples
Download data
Series
Accession:
GSE17770
ID:
200017770
12.

Altered gene expression in blood and sputum from COPD patients with frequent exacerbations

(Submitter supplied) Investigation of gene expression profiles among patients with COPD frequent exacerbations and to find gene targets as predictors of exacerbations
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
226 Samples
Download data: CEL
Series
Accession:
GSE54837
ID:
200054837
13.

Functional interactors of genomewide association study genes are differentially expressed in severe chronic obstructive pulmonary disease lung tissue

(Submitter supplied) Multiple gene expression studies have been performed in lung or airway tissues from subjects with chronic obstructive pulmonary disease (COPD). However, in comparison to genome-wide association studies (GWAS), there has been poor replication across these studies. We sought to perform gene expression profiling on a large sample of severe COPD cases and control smokers and use network methods to identify interacting genes and pathways. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
151 Samples
Download data: TXT
Series
Accession:
GSE76925
ID:
200076925
14.

Gene expression in alveolar macrophages from phenotypically normal smokers compared to non-smokers

(Submitter supplied) Cigarette smoking is the leading cause of the respiratory diseases collectively known as chronic obstructive pulmonary disease (COPD). While the pathogenesis of COPD is complex, there is abundant evidence that alveolar macrophages (AM) play an important role. Based on the concept that COPD is a slow-progressing disorder likely involving multiple mediators released by AM activated by cigarette smoke, the present study focuses on the identification of previously unrecognized genes that may be linked to early events in the molecular pathogenesis of COPD, as opposed to factors associated with the presence of disease. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS1436
Platform:
GPL80
10 Samples
Download data: CEL, EXP
Series
Accession:
GSE3212
ID:
200003212
15.
Full record GDS1436

Cigarette smoking effect on alveolar macrophages

Anlaysis of alveolar macrophages of 5 phenotypically normal smokers who consume ~20 packs cigarettes/year. Smoking is the leading cause of respiratory diseases collectively known as chronic obstructive pulmonary disease (COPD). Provides insight into early events in molecular pathogenesis of COPD.
Organism:
Homo sapiens
Type:
Expression profiling by array, count, 2 stress sets
Platform:
GPL80
Series:
GSE3212
10 Samples
Download data: CEL, EXP
DataSet
Accession:
GDS1436
ID:
1436
16.

COPD lung tissue expression

(Submitter supplied) Comparison of emphysema vs non emphysema COPD lung tissue expression
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL13667
70 Samples
Download data: CEL
Series
Accession:
GSE69818
ID:
200069818
17.

Genes related to emphysema are enriched for ubiquitination pathways

(Submitter supplied) Increased small airway resistance and decreased lung elasticity contribute to the airflow limitation in chronic obstructive pulmonary disease (COPD). The lesion that corresponds to loss of lung elasticity is emphysema; the small airway obstruction is due to inflammatory narrowing and obliteration. Despite their convergence in altered physiology, different mechanisms contribute to these processes. The relationships between gene expression and these specific phenotypes may be more revealing than comparison with lung function. We measured the ratio of alveolar surface area to lung volume (SA/V) in lung tissue from 43 smokers. Two samples from 21 subjects, in which SA/V differed by > 49 cm2/mL were profiled to select genes whose expression correlated with SA/V. The level of expression of 181 transcripts was related to SA/V ( p< 0.05). The relationship between expression of these transcripts and SA/V was tested in the 22 remaining subjects as a replication. Thirty of the 181 genes remained significantly associated with SA/V (P<0.05) and the direction of association was the same in 164/181. Pathway and network analysis revealed enrichment of genes involved in protein ubiquitination, and western blotting showed altered expression of genes involved in protein ubiquitination in obstructed individuals. These data implicate modified protein ubiquitination and degradation as a potentially important pathway in the pathogenesis of emphysema. Raw data not available for this study
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL3991
42 Samples
Download data: TXT
Series
Accession:
GSE63073
ID:
200063073
18.

Complex Disease Subtypes Identified by Network-Based Clustering of Gene Expression Data: Application to COPD

(Submitter supplied) One of the most common smoking-related diseases, chronic obstructive pulmonary disease (COPD), results from a dysregulated, multi-tissue inflammatory response to cigarette smoke. We hypothesized that systemic inflammatory signals in genome-wide blood gene expression can identify clinically important COPD-related disease subtypes, and we leveraged pre-existing gene interaction networks to guide unsupervised clustering of blood microarray expression data. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Third-party reanalysis
Platform:
GPL570
229 Samples
Download data: CEL, TXT
Series
Accession:
GSE76705
ID:
200076705
19.

Genetic characterization of macrophages from induced sputum of asthma and COPD patients

(Submitter supplied) Background: Macrophages are important cells in pathogenesis of obstructive lung diseases including asthma and chronic obstructive pulmonary disease (COPD). The aim of the study was a multivariate, genetic, comparative analysis of macrophages from patients with asthma and COPD. Methods: Macrophages were isolated from induced sputum (IS) by magnetic bead separation. Transcriptomic measurements were carried out using Affymetrix Human Gene 2.1 ST ArrayStrip in 17 samples: 8 asthma (4 ICS naive , 4 ICS treated), 4 COPD and 5 control samples. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL22067
16 Samples
Download data: CEL
Series
Accession:
GSE112260
ID:
200112260
20.

Homo sapiens whole genome expression microarray of peripheral blood monocytes obtained from Control Smokers, Control Never Smokers, COPD Smokers and COPD ExSmokers.

(Submitter supplied) Differential profiles from whole genome human expression arrays on monocytes obtained from peripheral blood in COPD was studied and compared with controls. Monocytes were isolated from Controls (Group 1) which included Control Smokers (Group 1A) and Control Never Smokers (Group 1B) and COPD (Group 2) which included COPD Smokers (Group 2A) and COPD ExSmokers (Group 2B). Differential transcriptomic expression associated with (i) Smoking, (ii) COPD, and (iii) cessation of smoking were identified.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6480
16 Samples
Download data: TXT
Series
Accession:
GSE146560
ID:
200146560
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