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Series GSE10387 Query DataSets for GSE10387
Status Public on Feb 07, 2008
Title SNP-based mapping and gene expression profiling identifies novel chromosomal imbalances and candidate genes in T-PLL
Organism Homo sapiens
Experiment type Genome variation profiling by SNP array
SNP genotyping by SNP array
Summary T-cell prolymphocytic leukemia (T-PLL) is a rare aggressive lymphoma derived from mature T cells, which is, in most cases, characterized by the presence of an inv(14)(q11q32)/t(14;14)(q11;q32) and a characteristic pattern of secondary chromosomal aberrations. DNA microarray technology was employed to compare the transcriptomes of eight immunomagnetically purified CD3+ normal donor-derived peripheral blood cell samples, with five highly purified inv(14)/t(14;14)-positive T-PLL blood samples. Between the two experimental groups, 734 genes were identified as differentially expressed, including functionally important genes involved in lymphomagenesis, cell cycle regulation, apoptosis and DNA repair. Notably, the differentially expressed genes were found to be significantly enriched in genomic regions affected by recurrent chromosomal imbalances. Upregulated genes clustered on chromosome arms 6p and 8q, and downregulated genes on 6q, 8p, 10p, 11q and 18p. High-resolution copy-number determination using single nucleotide polymorphism chip technology in 11 inv(14)/t(14;14)-positive T-PLL and 1 without the inv(14) including those analyzed for gene expression, refined chromosomal breakpoints as well as regions of imbalances. In conclusion, combined transcriptional and molecular cytogenetic profiling identified novel specific chromosomal loci and genes that are likely to be involved in disease progression and suggests a gene dosage effect as a pathogenic mechanism in T-PLL.
Each Sample has its raw data file linked as a supplementary file.
Keywords: disease state analysis
 
Overall design 12 T-cell prolymphocytic leukaemia samples were hybridized to 50K_Xba SNP arrays.
 
Contributor(s) Klein-Hitpass L, Dürig J, Siebert R
Citation(s) 17713554
Submission date Feb 05, 2008
Last update date Dec 22, 2017
Contact name Ludger Klein-Hitpass
E-mail(s) ludger.klein-hitpass@uni-essen.de
Phone +49 201 723 85552
Organization name Institut fuer Zellbiologie
Department Universitaetsklinikum
Lab BioChip Lab
Street address Virchowstr. 173
City Essen
ZIP/Postal code D-45122
Country Germany
 
Platforms (1)
GPL2005 [Mapping50K_Xba240] Affymetrix Human Mapping 50K Xba240 SNP Array
Samples (12)
GSM262537 T-cell prolymphocytic leukemia, inv(14)(q11q32), case 1
GSM262538 T-cell prolymphocytic leukemia, inv(14)(q11q32), case 2
GSM262539 T-cell prolymphocytic leukemia, inv(14)(q11q32), case 3
Relations
BioProject PRJNA108131

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE10387_RAW.tar 169.8 Mb (http)(custom) TAR (of CEL, CHP, EXP)
Processed data included within Sample table
Processed data provided as supplementary file

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