MDM from COPD patients and healthy subjects after treatment with LPS or fine and ultrafine particles

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PubMed ID: none
Contact: Thomas Hofer

Image:email_GSE8608.png
GSF National Research Center for Environment and Health

Species: Homo sapiens
Platform: Affymetrix GeneChip Human Genome U133 Plus 2.0 Array
Number of Samples: 6
Date Range: 02/16/2005 - 02/16/2005
Experiment Quality: UF: 83.97
AC: 13.91 %
85.03
Link to Repository: GSE8608
Original Intensity Data: Download
Clean Intensity Data: Download
Original PLIER Data: Download
Clean PLIER Data: Download
Clean CEL Files:
Data Rank:

In this study gene expression of monocyte-derived macrophages (MDM) from chronic obstructive pulmonary disease (COPD) patients and healthy subjects was investigated. MDM were treated with LPS, a combination of fine TiO2 and ultrafine Printex90 particles, or remained untreated.

Design: MDM of 13 COPD patients and 13 healthy subjects were incubated for four hours with LPS (10ng/ml), a combination of fine TiO2 and ultrafine Printex90 (32ug/ml each) or remained untreated. Cells were harvested, counted, and total RNA was isolated (phenol-chloroform extraction) for each subject individually. Total RNA of the 13 individuals from each group (COPD, healthy) and incubation (untreated, LPS, particles) were pooled and hybridized on a seperate array.

Type: disease state analysis


Contents

[edit] Contributors

  • Thomas Hofer
  • Marion Frankenberger
  • Joerg Mages
  • Roland Lang
  • Reinhard Hoffmann
  • Loems Ziegler-Heitbrock

[edit] Protocols

[edit] References

[edit] Links

GEO Accession for this experiment: GSE8608. (Public on Aug 01 2007)

RAW data: tar file.

[edit] Analysis

Gel Plots

Before Normalization

After Normalization & Cleaning

[edit] Samples/Quality Control

Sample Date Scanned Source Link Probe Variance Data Artifact Mask Quality Score
humanMDM_COPD_untreated 02/16/2005 12:24:06 GSM213464 Probe variance for humanMDM_COPD_untreated Artifact mask for humanMDM_COPD_untreated UF: 89.7311
AC: 0.03 %
94.85
humanMDM_COPD_LPS 02/16/2005 12:40:16 GSM213465 Probe variance for humanMDM_COPD_LPS Artifact mask for humanMDM_COPD_LPS UF: 88.4864
AC: 0.06 %
94.21
humanMDM_COPD_Particles 02/16/2005 12:55:39 GSM213466 Probe variance for humanMDM_COPD_Particles Artifact mask for humanMDM_COPD_Particles UF: 90.0883
AC: 0.01 %
94.55
humanMDM_Healthy_untreated 02/16/2005 13:11:40 GSM213500 Probe variance for humanMDM_Healthy_untreated Artifact mask for humanMDM_Healthy_untreated UF: 89.7060
AC: 0.03 %
94.84
humanMDM_Healthy_LPS 02/16/2005 14:51:50 GSM213511 Probe variance for humanMDM_Healthy_LPS Artifact mask for humanMDM_Healthy_LPS UF: 55.6976
AC: 83.34 %
36.18
humanMDM_Healthy_Particles 02/16/2005 15:09:56 GSM213512 Probe variance for humanMDM_Healthy_Particles Artifact mask for humanMDM_Healthy_Particles UF: 90.0819
AC: 0.01 %
95.04
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