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TranscriptomicsGene expression profiling classifies lung squamous cell carcinomas with N1 positive lymph nodes
Using gene expression microarrays, we tested whether lung SCCs that have metastasised to loco-regional lymph nodes (N1/2m) are different to those that directly invade and involve local nodes (N1d). Using 22,323 element microarrays, a non-parametric test identified 126 genes/transcripts that discrimi...
ORGANISM(S): Homo sapiens 
2007-05-01 | E-GEOD-5828 | biostudies-arrayexpress
TranscriptomicsIdentification of Candidate Tumor Suppressor Genes Inactivated by Promoter Methylation in Melanoma
Tumor suppressor genes (TSGs) are sometimes inactivated by transcriptional silencing through promoter hypermethylation. To identify novel methylated TSGs in melanoma, we carried out global mRNA expression profiling on a panel of 12 melanoma cell lines treated with a combination of 5-Aza-2-deoxycytidi...
ORGANISM(S): Homo sapiens 
2011-10-02 | E-GEOD-32492 | biostudies-arrayexpress
TranscriptomicsWhole genome expression array profiling highlights differences in mucosal defense genes in Barrett's esophagus and esophageal adenocarcinoma.
Esophageal adenocarcinoma (EAC) has become a major concern in Western countries due to rapid rises in incidence coupled with very poor survival rates. One of the key risk factors for the development of this cancer is the presence of Barrett’s esophagus (BE), which is believed to form in response to ...
ORGANISM(S): Homo sapiens 
2011-08-16 | E-GEOD-28302 | biostudies-arrayexpress
TranscriptomicsExpression profiling defines a recurrence signature in lung squamous cell carcinoma
Lung cancer remains the leading cause of cancer death worldwide. Overall 5-year survival is about 10-15% and despite curative intent surgery, treatment failure is primarily due to recurrent disease. Conventional prognostic markers are unable to determine which patients with completely resected disea...
ORGANISM(S): Homo sapiens 
2010-07-01 | E-GEOD-5123 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human monozygotic twins discordant for bipolar disorder
To identify genes dysregulated in bipolar disorder (BD1) we carried out global gene expression profiling using whole-genome microarrays. To minimize genetic variation in gene expression levels between cases and controls we compared expression profiles in lymphoblastoid cell lines from monozygotic tw...
ORGANISM(S): Homo sapiens 
2008-06-15 | E-GEOD-7036 | biostudies-arrayexpress
TranscriptomicsExpression Profiles of Monozygotic Twin
The expression level for 15 887 transcripts in lymphoblastoid cell lines from 19 monozygotic twin pairs (10 male, 9 female) were analysed for the effects of genotype and sex. On an average, the effect of twin pairs explained 31% of the variance in normalized gene expression levels, consistent with p...
ORGANISM(S): Homo sapiens 
2008-03-30 | E-GEOD-7624 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human melanoma cell lines (63)
63 melanoma cell lines hybridized to Affymetrix Hu133_Plus 2 oligo arrays. The aim of this study was to identify potential downstream targets of key oncogenes and TSGs in melanoma (including p14ARF, p16INK4A, BRAF etc). Publications relevant to this series include:; Johansson et al. Pigment Cell Res...
ORGANISM(S): Homo sapiens 
2008-06-15 | E-GEOD-7127 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human Melanoma cell lines to investigate differences in wild-type p14ARF and mutant 14ARF
35 Melanoma cell lines hybridized to Affymetrix Hu133_Plus 2 microarrays were analysed for genes differentially expressed between cell lines carrying wild-type p14ARF and those with mutant 14ARF. All of these cell lines contained wild-type p53 (so that the effects of p14ARF mutations could be analys...
ORGANISM(S): Homo sapiens 
2008-06-15 | E-GEOD-7152 | biostudies-arrayexpress
TranscriptomicsmiRNA profiling of Melanoma Cell lines and Normal Melanocytes
To identify microRNAs potentially involved in melanomagenesis we compared microRNA transcription profiles between melanoma cell lines and cultured melanocytes. miRNA microarrays were manufactured by Agilent Technologies (Santa Clara, CA), and contain 20-40 features targeting each of 470 human miRNAs...
ORGANISM(S): Homo sapiens 
2011-10-16 | E-GEOD-25653 | biostudies-arrayexpress
TranscriptomicsGenome-wide analysis of esopageal adenocarcinoma tumor biopsy using high-density single-nucleotide polymorphism arrays.
We applied whole-genome single nucleotide polymorphism (SNP) arrays to define a comprehensive genetic profile of 23 esophageal adenocarcinoma (EAC) primary tumor biopsies based on loss of heterozygosity (LOH) and DNA copy number changes. Alterations were common, averaging 97 (range 23-208) per tumor...
ORGANISM(S): Homo sapiens 
2008-06-01 | E-GEOD-10506 | biostudies-arrayexpress
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