title: Harmonized microarray/mutation scanning analysis of TP53 mutations in undissected colorectal tumors.
abstract: Both the mutational status and the specific mutation of TP53 (p53) have been shown to impact both tumor prognosis and response to therapies. Molecular profiling of solid tumors is confounded by infiltrating wild-type cells, since normal DNA can interfere with detection of mutant sequences. Our objective was to identify TP53 mutations in 138 stage I-IV colorectal adenocarcinomas and liver metastases without first enriching for tumor cells by microdissection. To achieve this, we developed a harmonized protocol involving multiplex polymerase chain reaction/ligase detection reaction (PCR/LDR) with Universal DNA microarray analysis and endonuclease V/ligase mutation scanning. Sequences were verified using dideoxy sequencing. The harmonized protocol detected all 66 mutations. Dideoxy sequencing detected 41 out of 66 mutations (62%) using automated reading, and 59 out of 66 mutations (89%) with manual reading. Data analysis comparing colon cancer entries in the TP53 database (http://p53.curie.fr) with the results reported in this study showed that distribution of mutations and the mutational events were comparable.
authors.affiliation: Department of Microbiology and Immunology, Weill Medical College of Cornell University, New York, USA.
authors.forename: Reyna
authors.initials: R
authors.lastname: Favis
authors.forename: Jianmin
authors.initials: J
authors.lastname: Huang
authors.forename: Norman P
authors.initials: NP
authors.lastname: Gerry
authors.forename: Alfred
authors.initials: A
authors.lastname: Culliford
authors.forename: Philip
authors.initials: P
authors.lastname: Paty
authors.forename: Thierry
authors.initials: T
authors.lastname: Soussi
authors.forename: Francis
authors.initials: F
authors.lastname: Barany
mesh_terms: D000230:Adenocarcinoma / Q000235:genetics / Q000556:secondary; D015331:Cohort Studies; D015179:Colorectal Neoplasms / Q000235:genetics*; D004252:DNA Mutational Analysis / Q000379:methods*; D004273:DNA, Neoplasm / Q000235:genetics; D020869:Gene Expression Profiling / Q000379:methods; D016158:Genes, p53 / Q000235:genetics*; D006801:Humans; D008113:Liver Neoplasms / Q000235:genetics / Q000556:secondary; D009367:Neoplasm Staging; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D016133:Polymerase Chain Reaction / Q000379:methods
chemical_list: D004273:DNA, Neoplasm