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rdf:type |
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lifeskim:mentions |
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pubmed:issue |
5
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pubmed:dateCreated |
2004-5-4
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pubmed:abstractText |
Somatic mitochondrial mutations are common in human cancers, and can be used as a tool for early detection of cancer. We have developed a mitochondrial Custom Reseq microarray as an array-based sequencing platform for rapid and high-throughput analysis of mitochondrial DNA. The MitoChip contains oligonucleotide probes synthesized using standard photolithography and solid-phase synthesis, and is able to sequence >29 kb of double-stranded DNA in a single assay. Both strands of the entire human mitochondrial coding sequence (15,451 bp) are arrayed on the MitoChip; both strands of an additional 12,935 bp (84% of coding DNA) are arrayed in duplicate. We used 300 ng of genomic DNA to amplify the mitochondrial coding sequence in three overlapping long PCR fragments. We then sequenced >2 million base pairs of mitochondrial DNA, and successfully assigned base calls at 96.0% of nucleotide positions. Replicate experiments demonstrated >99.99% reproducibility. In matched fluid samples (urine and pancreatic juice, respectively) obtained from five patients with bladder cancer and four with pancreatic cancer, the MitoChip detected at least one cancer-associated mitochondrial mutation in six (66%) of nine samples. The MitoChip is a high-throughput sequencing tool for the reliable identification of mitochondrial DNA mutations from primary tumors in clinical samples.
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pubmed:grant |
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pubmed:commentsCorrections |
http://linkedlifedata.com/resource/pubmed/commentcorrection/15123581-10377423,
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http://linkedlifedata.com/resource/pubmed/commentcorrection/15123581-9915500
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:chemical |
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pubmed:status |
MEDLINE
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pubmed:month |
May
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pubmed:issn |
1088-9051
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pubmed:author |
pubmed-author:CalifanoJosephJ,
pubmed-author:ChakravartiAravindaA,
pubmed-author:CohenYoramY,
pubmed-author:FukushimaNoriyoshiN,
pubmed-author:GillespieSusannah E DSE,
pubmed-author:GogginsMichaelM,
pubmed-author:HoqueMohammad OMO,
pubmed-author:MaitraAnirbanA,
pubmed-author:MamboElizabethE,
pubmed-author:ShahNilaN,
pubmed-author:SidranskyDavidD
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pubmed:issnType |
Print
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pubmed:volume |
14
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
812-9
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pubmed:dateRevised |
2009-11-18
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pubmed:meshHeading |
pubmed-meshheading:15123581-Body Fluids,
pubmed-meshheading:15123581-Cell Line, Tumor,
pubmed-meshheading:15123581-Computational Biology,
pubmed-meshheading:15123581-DNA,
pubmed-meshheading:15123581-DNA, Mitochondrial,
pubmed-meshheading:15123581-DNA, Neoplasm,
pubmed-meshheading:15123581-DNA Mutational Analysis,
pubmed-meshheading:15123581-Genotype,
pubmed-meshheading:15123581-Humans,
pubmed-meshheading:15123581-Lung Neoplasms,
pubmed-meshheading:15123581-Lymphocytes,
pubmed-meshheading:15123581-Matched-Pair Analysis,
pubmed-meshheading:15123581-Mitochondria,
pubmed-meshheading:15123581-Mutation,
pubmed-meshheading:15123581-Neoplasms,
pubmed-meshheading:15123581-Oligonucleotide Array Sequence Analysis,
pubmed-meshheading:15123581-Pancreatic Juice,
pubmed-meshheading:15123581-Reproducibility of Results,
pubmed-meshheading:15123581-Urinary Bladder Neoplasms
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pubmed:year |
2004
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pubmed:articleTitle |
The Human MitoChip: a high-throughput sequencing microarray for mitochondrial mutation detection.
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pubmed:affiliation |
Department of Pathology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
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pubmed:publicationType |
Journal Article,
Comparative Study
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