Transcript profiling of normal and transformed buccal keratinocytes
From ArrayWiki
| PubMed ID: | 17696463 |
|---|---|
| Contact: | Roland Grafström no email given |
| Species: | Homo sapiens |
| Platform: | Affymetrix GeneChip Human HG-Focus Target Array |
| Number of Samples: | 6 |
| Date Range: | 11/12/2002 - 11/19/2002 |
| Experiment Quality: | 93.06 6.22 % |
| Link to Repository: | GSE7862 |
| Original Intensity Data: | Download |
| Clean Intensity Data: | Download |
| Original PLIER Data: | Download |
| Clean PLIER Data: | Download |
| Clean CEL Files: | |
| Data Rank: | 
|
Normal and two transformed buccal keratinocyte lines were cultured under a standardized condition to explore mechanisms of carcinogenesis and tumor marker expression at transcript and protein level. An approach combining three bioinformatic programs allowed coupling of abundant proteins and large-scale transcript data to low-abundance transcriptional regulators. The analysis identified previously proposed, and suggested novel, protein biomarkers, Gene Ontology categories and molecular networks including functionally impaired key regulator genes for buccal/oral carcinoma.
Design: Array
Type: Cell type comparison
Contents |
[edit] Contributors
- Claudia A Staab
- Rebecca Ceder
- Theres Jägerbrink
- Jan-Anders Nilsson
- Karin Roberg
- Hans Jörnvall
- Jan-Olov Höög
- Roland C Grafström
[edit] Protocols
[edit] References
[edit] Links
GEO Accession for this experiment: GSE7862. (Public on Aug 21 2007)
PubMed abstract: 17696463
RAW data: tar file.
[edit] Analysis
 Before Normalization |
 After Normalization & Cleaning |
[edit] Samples/Quality Control
| Sample | Date Scanned | Source Link | Probe Variance Data | Artifact Mask | Quality Score |
|---|---|---|---|---|---|
| Normal buccal keratinocytes (NBK), Sample A | 11/12/02 10:09:17 | GSM190617 | 
| 
| 93.3241 2.92 % |
| Normal buccal keratinocytes (NBK), sample B | 11/19/02 10:06:32 | GSM190618 | 
| 
| 95.0276 0.68 % |
| SV40 T-antigen transfected buccal keratinocyte line (SVpgC2a), Sample A | 11/13/02 10:27:04 | GSM190619 | 
| 
| 90.5704 0.32 % |
| SV40 T-antigen transfected buccal keratinocyte line (SVpgC2a), Sample B | 11/13/02 10:37:21 | GSM190620 | 
| 
| 95.209 0.76 % |
| Buccal carcinoma cell line (SqCC/Y1), Sample A | 11/13/02 10:02:54 | GSM190621 | 
| 
| 91.7096 32.56 % |
| Buccal carcinoma cell line (SqCC/Y1), Sample B | 11/13/02 09:56:00 | GSM190622 | 
| 
| 92.5388 0.09 % |
