Abstract
The analysis of loss of heterozygosity (LOH) is perhaps the most widely used technique in cancer genetics. In primary tumors, however, the analysis of LOH is fraught with technical problems that have limited its reproducibility and interpretation. In particular, tumors are mixtures of neoplastic and nonneoplastic cells, and the DNA from the nonneoplastic cells can mask LOH. We here describe a new experimental approach, involving two components, to overcome these problems. First, a form of digital PCR1 was employed to directly count, one by one, the number of each of the two alleles in tumor samples. Second, Bayesian-type likelihood methods were used to measure the strength of the evidence for the allele distribution being different from normal. This approach imparts a rigorous statistical basis to LOH analyses, and should be able to provide more reliable information than heretofore possible in LOH studies of diverse tumor types.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 78-81 |
| Number of pages | 4 |
| Journal | Nature Biotechnology |
| Volume | 19 |
| Issue number | 1 |
| DOIs | |
| State | Published - 2001 |
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ASJC Scopus subject areas
- Microbiology
Cite this
Counting alleles reveals a connection between chromosome 18q loss and vascular invasion. / Zhou, Wei; Galizia, Gennaro; Goodman, Steven N.; Romans, Katharine E.; Kinzler, Kenneth W; Vogelstein, Bert; Choti, Michael A.; Montgomery, Elizabeth A.
In: Nature Biotechnology, Vol. 19, No. 1, 2001, p. 78-81.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Counting alleles reveals a connection between chromosome 18q loss and vascular invasion
AU - Zhou, Wei
AU - Galizia, Gennaro
AU - Goodman, Steven N.
AU - Romans, Katharine E.
AU - Kinzler, Kenneth W
AU - Vogelstein, Bert
AU - Choti, Michael A.
AU - Montgomery, Elizabeth A
PY - 2001
Y1 - 2001
N2 - The analysis of loss of heterozygosity (LOH) is perhaps the most widely used technique in cancer genetics. In primary tumors, however, the analysis of LOH is fraught with technical problems that have limited its reproducibility and interpretation. In particular, tumors are mixtures of neoplastic and nonneoplastic cells, and the DNA from the nonneoplastic cells can mask LOH. We here describe a new experimental approach, involving two components, to overcome these problems. First, a form of digital PCR1 was employed to directly count, one by one, the number of each of the two alleles in tumor samples. Second, Bayesian-type likelihood methods were used to measure the strength of the evidence for the allele distribution being different from normal. This approach imparts a rigorous statistical basis to LOH analyses, and should be able to provide more reliable information than heretofore possible in LOH studies of diverse tumor types.
AB - The analysis of loss of heterozygosity (LOH) is perhaps the most widely used technique in cancer genetics. In primary tumors, however, the analysis of LOH is fraught with technical problems that have limited its reproducibility and interpretation. In particular, tumors are mixtures of neoplastic and nonneoplastic cells, and the DNA from the nonneoplastic cells can mask LOH. We here describe a new experimental approach, involving two components, to overcome these problems. First, a form of digital PCR1 was employed to directly count, one by one, the number of each of the two alleles in tumor samples. Second, Bayesian-type likelihood methods were used to measure the strength of the evidence for the allele distribution being different from normal. This approach imparts a rigorous statistical basis to LOH analyses, and should be able to provide more reliable information than heretofore possible in LOH studies of diverse tumor types.
UR - http://www.scopus.com/inward/record.url?scp=0035174837&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=0035174837&partnerID=8YFLogxK
U2 - 10.1038/83572
DO - 10.1038/83572
M3 - Article
VL - 19
SP - 78
EP - 81
JO - Biotechnology
JF - Biotechnology
SN - 1087-0156
IS - 1
ER -