The DOI matches its Crossref record; 34 of the 34 references it cites were found in a registry or an index.
Genome-wide DNA copy number analysis in pancreatic cancer using high-density single nucleotide polymorphism arrays
Open accessAbstract
To identify genomic abnormalities characteristic of pancreatic ductal adenocarcinoma (PDAC) in vivo, a panel of 27 microdissected PDAC specimens were analysed using high-density microarrays representing approximately 116 000 single nucleotide polymorphism (SNP) loci. We detected frequent gains of 1q, 2, 3, 5, 7p, 8q, 11, 14q and 17q (> or =78% of cases), and losses of 1p, 3p, 6, 9p, 13q, 14q, 17p and 18q (> or =44%). Although the results were comparable with those from array CGH, regions of those genetic changes were defined more accurately by SNP arrays. Integrating the Ensembl public data, we have generated 'gene' copy number indices that facilitate the search for novel candidates involved in pancreatic carcinogenesis. Copy numbers in a subset of the genes were validated using quantitative real-time PCR. The SKAP2/SCAP2 gene (7p15.2), which belongs to the src family kinases, was most frequently (63%) amplified in our sample set and its recurrent overexpression (67%) was confirmed by reverse transcription-PCR. Furthermore, fluorescence in situ hybridization and in situ RNA hybridization analyses for this gene have demonstrated a significant correlation between DNA copy number and mRNA expression level in an independent sample set (P<0.001). These findings indicate that the dysregulation of SKAP2/SCAP2, which is mostly caused by its increased gene copy number, is likely to be associated with the development of PDAC.
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“In this “pseudo-bulk” summary, previously described hallmark genomic events characteristic of PDAC lesions1–6 were readily observed, albeit in some cases only in a subset of genomic subclones for each line.”
From Occult polyclonality of preclinical pancreatic cancer models drives in vitro evolution (2022) · cites this paper as [3]
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“We observed enrichment of 1p losses in PDAC (p=0.046), consistent with prior PDAC copy-number studies, 53 and significantly higher frequencies of 9p losses in CCA (p=0.007; online supplemental table S7).”
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Metadata
- Authors
- Harada, T., Chelala, C., Bhakta, V, Chaplin, T., Caulee, K., Baril, P., Young, B. D., & Lemoine, N. R.
- Affiliations
- University of London (GB)
- Corresponding author
- Lemoine, N R
- Venue
- Oncogene
- Published
- 2007-10-22
- Volume
- 27
- Issue
- 13
- Pages
- 1951-1960
- ISSN
- 0950-9232 (ISSN-L)
- 1476-5594
- PMC
- PMC2492386
- OpenAlex
- W1997162169
- Cited by
- 159
- References
- 34
- Citations by year
- 2026: 3 · 2025: 3 · 2024: 5 · 2023: 9 · 2022: 9 · 2021: 9 · 2020: 5 · 2019: 5 · 2018: 7 · 2017: 4 · 2016: 10 · 2015: 7 · 2014: 8 · 2013: 8 · 2012: 10
- FWCI
- 6.56
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Oncogene (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- HAL (submittedVersion)
- Funders
- Cancer Research UK (A6438, A6789, A6253)
- Topics
- Health Sciences › Medicine › Oncology › Pancreatic and Hepatic Oncology Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer Genomics and Diagnostics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomic variations and chromosomal abnormalities
- Keywords
- pancreatic ductal adenocarcinoma, DNA copy number alterations, single nucleotide polymorphism array, gene amplification, gene expression, pancreatic carcinogenesis, chromosomal gains and losses
- MeSH terms
- Adenocarcinoma, Adult, Aged, Chromosome Aberrations, Chromosomes, Human, DNA, Neoplasm, Female, Humans, Male, Middle Aged, Nucleic Acid Hybridization, Pancreatic Neoplasms, RNA, Neoplasm, In Situ Hybridization, Fluorescence, Gene Dosage, Loss of Heterozygosity, Reverse Transcriptase Polymerase Chain Reaction, Oligonucleotide Array Sequence Analysis, Polymorphism, Single Nucleotide, Carcinoma, Pancreatic Ductal, Microdissection, Intracellular Signaling Peptides and Proteins
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