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Series GSE9479 Query DataSets for GSE9479
Status Public on Nov 01, 2007
Title Expression data from skin biopsies in cutaneous T-cell lymphoma
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Cutaneous T cell lymphoma (CTCL) is defined by infiltration of activated and malignant T cells in skin. The clinical manifestations and prognosis in CTCL are highly variable. In this study, we hypothesized that gene expression analysis in lesional skin biopsies can improve understanding of the disease and its management.
Based on 63 skin samples, we performed consensus clustering, revealing three patient clusters. Two clusters tended to differentiate limited CTCL (stages IA and IB) from more extensive CTCL (stages IB and III). Stage IB subjects appeared in both clusters, but those in the limited CTCL cluster were more responsive to treatment than those in the more extensive CTCL cluster. The third cluster was enriched in lymphocyte activation genes and was associated with a high proportion of tumor (stage IIB) lesions. Survival analysis revealed significant differences in event-free survival between clusters, with poorest survival seen in the activated lymphocyte cluster. Using supervised analysis, we further characterized genes significantly associated with lower stage/treatment responsive versus higher stage/treatment resistant CTCL. We conclude that transcriptional profiling of CTCL skin lesions reveals clinically relevant signatures, correlating with differences in survival and response to treatment. Additional prospective long-term studies to validate and refine these findings appear warranted.
Keywords: disease state analysis
Overall design 63 skin biopsies from patients with different stages of disease were selected for RNA extraction and hybridization on Affymetrix microarrays
Contributor(s) Shin J, Monti S, Aries DJ, Duvic M, Golub T, Jones DA, Kupper TS
Citation(s) 17638852
Submission date Oct 31, 2007
Last update date Mar 28, 2013
Contact name Jessica Shin
Organization name Brigham and Women's Hospital
Street address 221 Longwood Avenue
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
Platforms (1)
GPL4685 [U133AAofAv2] Affymetrix GeneChip HT-HG_U133A Early Access Array
Samples (63)
GSM240567 skin_patient_M1
GSM240568 skin_patient_M2
GSM240569 skin_patient_M5a
BioProject PRJNA103253

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Supplementary file Size Download File type/resource
GSE9479_RAW.tar 172.5 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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