High-Resolution Mapping of Structural Mutations in Prostate Cancer With Single Nucleotide Polymorphism Arrays

2005 ◽  
Author(s):  
Rameen Beroukhim
Keyword(s):  
Prostate Cancer ◽  
Single Nucleotide Polymorphism ◽  
High Resolution ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
High Resolution Mapping ◽  
Resolution Mapping ◽  
Structural Mutations

scholarly journals SNP array analysis in hematologic malignancies: avoiding false discoveries

Blood ◽  
2010 ◽  
Vol 115 (21) ◽  
pp. 4157-4161 ◽  
Author(s):  
Stefan Heinrichs ◽  
Cheng Li ◽  
A. Thomas Look
Keyword(s):  
Single Nucleotide Polymorphism ◽  
High Resolution ◽  
Snp Array ◽  
Hematologic Malignancies ◽  
Cancer Genome ◽  
Patient Specific ◽  
Nucleotide Polymorphism ◽  
Array Analysis ◽  
Single Nucleotide ◽  
Therapeutic Decisions

Comprehensive analysis of the cancer genome has become a standard approach to identifying new disease loci, and ultimately will guide therapeutic decisions. A key technology in this effort, single nucleotide polymorphism arrays, has been applied in hematologic malignancies to detect deletions, amplifications, and loss of heterozygosity (LOH) at high resolution. An inherent challenge of such studies lies in correctly distinguishing somatically acquired, cancer-specific lesions from patient-specific inherited copy number variations or segments of homozygosity. Failure to include appropriate normal DNA reference samples for each patient in retrospective or prospective studies makes it difficult to identify small somatic deletions not evident by standard cytogenetic analysis. In addition, the lack of proper controls can also lead to vastly overestimated frequencies of LOH without accompanying loss of DNA copies, so-called copy-neutral LOH. Here we use examples from patients with myeloid malignancies to demonstrate the superiority of matched tumor and normal DNA samples (paired studies) over multiple unpaired samples with respect to reducing false discovery rates in high-resolution single nucleotide polymorphism array analysis. Comparisons between matched tumor and normal samples will continue to be critical as the field moves from high resolution array analysis to deep sequencing to detect abnormalities in the cancer genome.

A single nucleotide polymorphism in the E-cadherin gene promoter modifies the risk of prostate cancer

2002 ◽  
Vol 1 (1) ◽  
pp. 7
Author(s):  
Bas Verhage ◽  
Kjeld van Houwelingen ◽  
Emiel Ruijter ◽  
Bart Kiemeney ◽  
Jack Schalken
Keyword(s):  
Prostate Cancer ◽  
Single Nucleotide Polymorphism ◽  
Gene Promoter ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
E Cadherin

In silico analysis of non-synonymous single nucleotide polymorphism in a human KLK-2 gene associated with prostate cancer

Meta Gene ◽  
2019 ◽  
Vol 21 ◽  
pp. 100578
Author(s):  
Tooba Yousefi ◽  
Seyed Mostafa Mir ◽  
Jahanbakhsh Asadi ◽  
Mehdi Tourani ◽  
Ansar Karimian ◽  
...  
Keyword(s):  
Prostate Cancer ◽  
Single Nucleotide Polymorphism ◽  
In Silico ◽  
In Silico Analysis ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Silico Analysis
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