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Items: 3

1.

Genomic copy number variations in the genomes of leukocytes predict prostate cancer clinical outcomes

(Submitter supplied) Accurate prediction of prostate cancer clinical courses remains elusive. In this study, we performed whole genome copy number analysis on leukocytes of 273 prostate cancer patients using Affymetrix SNP6.0 chip. Copy number variations (CNV) were found across all chromosomes of the human genome. An average of 152 CNV fragments per genome was identified in the leukocytes from prostate cancer patients. The size distributions of CNV in the genome of leukocytes were highly correlative with prostate cancer aggressiveness. A prostate cancer outcome prediction model was developed based on large size ratio of CNV from the leukocyte genomes. This prediction model generated an average prediction rate of 75.2%, with sensitivity of 77.3% and specificity of 69.0% for prostate cancer recurrence. When combined with Nomogram and the status of fusion transcripts, the average prediction rate was improved to 82.5% with sensitivity of 84.8% and specificity of 78.2%. In addition, the leukocyte prediction model was 62.6% accurate in predicting short prostate specific antigen doubling time. When combined with Gleason’s grade, Nomogram and the status of fusion transcripts, the prediction model generated a correct prediction rate of 77.5% with 73.7% sensitivity and 80.1% specificity. To our knowledge, this is the first study showing that CNVs in leukocyte genomes are predictive of clinical outcomes of a human malignancy.
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array
Platform:
GPL6801
273 Samples
Download data: CEL, TXT
Series
Accession:
GSE70650
ID:
200070650
2.

[GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array

(Submitter supplied) Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html June 03, 2009: annotation table updated with netaffx build 28 (ucsc=hg18; ncbi=NCBI36) August 01, 2012: annotation table updated with netaffx build 32 (ucsc=hg19; ncbi=GRCh37) Protocol: see manufacturer's web site The new Affymetrix® Genome-Wide Human SNP Array 6.0 features 1.8 million genetic markers, including more than 906,600 single nucleotide polymorphisms (SNPs) and more than 946,000 probes for the detection of copy number variation. more...
Organism:
Homo sapiens
404 Series
22859 Samples
Download data
Platform
Accession:
GPL6801
ID:
100006801
3.

Leukocyte TP12-S0869

Organism:
Homo sapiens
Source name:
Leukocyte TP12-S0869
Platform:
GPL6801
Series:
GSE70650
Download data: CEL
Sample
Accession:
GSM1815712
ID:
301815712
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