Human Gene Set: HASLINGER_B_CLL_WITH_6Q21_DELETION


Standard name HASLINGER_B_CLL_WITH_6Q21_DELETION
Systematic name M7362
Brief description Genes changed in the B cell chronic lymphocytic leukemia (B-CLL) with deletions in the 6q21 region.
Full description or abstract PURPOSE: Genomic aberrations and mutational status of the immunoglobulin variable heavy chain (VH) gene have been shown to be among the most important predictors for outcome in patients with B-cell chronic lymphocytic leukemia (B-CLL). In this study, we report on differential gene expression patterns that are characteristic for genetically defined B-CLL subtypes. MATERIALS AND METHODS: One hundred genetically well-characterized B-CLL samples, together with 11 healthy control samples, were analyzed using oligonucleotide arrays, which test for the expression of some 12,000 human genes. RESULTS: Aiming at microarray-based subclassification, class predictors were constructed using sets of differentially expressed genes, which yielded in zero or low misclassification rates. Furthermore, a significant number of the differentially expressed genes clustered in chromosomal regions affected by the respective genomic losses/gains. Deletions affecting chromosome bands 11q22-q23 and 17p13 led to a reduced expression of the corresponding genes, such as ATM and p53, while trisomy 12 resulted in the upregulation of genes mapping to chromosome arm 12q. Using an unsupervised analysis algorithm, expression profiling allowed partitioning into predominantly VH-mutated versus unmutated patient groups; however, association of the expression profile with the VH mutational status could only be detected in male patients. CONCLUSION: The finding that the most significantly differentially expressed genes are located in the corresponding aberrant chromosomal regions indicates that a gene dosage effect may exert a pathogenic role in B-CLL. The significant difference in the partitioning of male and female B-CLL samples suggests that the genomic signature for the VH mutational status might be sex-related.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 15459216   Authors: Haslinger C,Schweifer N,Stilgenbauer S,Döhner H,Lichter P,Kraut N,Stratowa C,Abseher R
Exact source Table 3: 6q21
Related gene sets (show 5 additional gene sets from the source publication)

(show 21 gene sets from the same authors)
External links
Filtered by similarity ?
Source species Homo sapiens
Contributed by Kevin Vogelsang (MSigDB Team)
Source platform or
identifier namespace		 HUMAN_GENE_SYMBOL
Dataset references (show 1 datasets)
Download gene set format: grp | gmt | xml | json | TSV metadata
Compute overlaps ? (show collections to investigate for overlap with this gene set)
Compendia expression profiles ? NG-CHM interactive heatmaps
(Please note that clustering takes a few seconds)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)

Legacy heatmaps (PNG)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 22 genes
Gene families ? Categorize these 22 genes by gene family
Show members (show 23 source identifiers mapped to 22 genes)
Version history  

See MSigDB license terms here. Please note that certain gene sets have special access terms.