Dataset features


Application: Gene expression microarray analysis
Number of samples: 36
Release date: May 23 2008
Last update date: Mar 19 2012
Access: Public
Diseases: Carcinoma, Squamous Cell, Uterine Cervicitis, Uterine Cervical Neoplasms, Tumor Lysis Syndrome
Dataset link High expression of SerpinA1 and SerpinA3 in HLA-positive cervical cell carcinomas

Experimental Protocol

Formalin-fixed, paraffin-embedded squamous cervical carcinomas from 68 patients who underwent radical hysterectomy with bilateral lymphadenectomy between 1991 and 2005 at Leiden University Medical Center, were collected. From these 68 patients, 32 snap-frozen tissues were chosen for subsequent gene expression profiling. The percentage of tumour cells was estimated by visual examination of HE-stained frozen tissue sections (5 μm). Only tissue blocks with areas that contained at least 60% viable tumour cells were selected. The 32 selected tumours were divided in three groups: group A, tumours with less than 5% or no HLA class I positive tumour cells (n = 11); group B, tumours with no or partial loss of HLA class I expression and LOH at 6p21.3 (n = 11); and group C, tumours with normal HLA class I expression and no LOH at 6p21.3 (n = 10). Group C included 5 cases with minimal loss, defined as weak expression of HLA-A or HLA-B/C. Statistical analysis revealed no differentially expressed genes between group B and C. Only 15 genes were significantly differentially expressed between group A and B, and 15 genes between group A and C. Since no differences in gene expression were observed between the groups with HLA expression (B and C), we combined the samples of group B and C into one group. Overall, 150 genes were significantly differentially expressed between the HLA negative group (group A, n = 11) and the HLA positive group (group B/C, n = 21)