ArticleNucleic acids research2004
Balanced-PCR amplification allows unbiased identification of genomic copy changes in minute cell and tissue samples.
Article in Nucleic acids research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
What it found
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Who cites it
23 citing papers in PubMed, 64 citations in OpenAlex.
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- MicroPOTS Analysis of Barrett's Esophageal Cell Line Models Identifies Proteomic Changes after Physiologic and Radiation Stress.Journal of proteome research · 2021Article
- Inhibition of cell proliferation and tumor growth of colorectal cancer by inhibitors of Wnt and Notch signaling pathways.Oncology letters · 2016Article
- Clinical Applications of NanoVelcro Rare-Cell Assays for Detection and Characterization of Circulating Tumor Cells.Theranostics · 2016Review
- A comparison of isolated circulating tumor cells and tissue biopsies using whole-genome sequencing in prostate cancer.Oncotarget · 2015Article
- Genomic profiling of rectal adenoma and carcinoma by array-based comparative genomic hybridization.BMC medical genomics · 2012Article
- Deoxyribonucleic Acid copy number aberrations in vasospastic angina patients using an array comparative genomic hybridization.Korean circulation journal · 2011Article
- Identification of genomic aberrations by array comparative genomic hybridization in patients with aortic dissections.The Korean journal of thoracic and cardiovascular surgery · 2011Article
- Multiplex amplification coupled with COLD-PCR and high resolution melting enables identification of low-abundance mutations in cancer samples with low DNA content.The Journal of molecular diagnostics : JMD · 2011Article
- Specific and complete human genome amplification with improved yield achieved by phi29 DNA polymerase and a novel primer at elevated temperature.BMC research notes · 2009Article
- Whole genome amplification for array comparative genomic hybridization using DNA extracted from formalin-fixed, paraffin-embedded histological sections.The Journal of molecular diagnostics : JMD · 2009Article
- HOX gene analysis of endothelial cell differentiation in human bone marrow-derived mesenchymal stem cells.Molecular biology reports · 2009Article
- A procedure for highly specific, sensitive, and unbiased whole-genome amplification.Proceedings of the National Academy of Sciences of the United States of America · 2008Article
- Multiple displacement amplification for complex mixtures of DNA fragments.BMC genomics · 2008Article
- DNA degradation test predicts success in whole-genome amplification from diverse clinical samples.The Journal of molecular diagnostics : JMD · 2007Article
- A novel technique for measuring variations in DNA copy-number: competitive genomic polymerase chain reaction.BMC genomics · 2007Article
- Single molecule transcription profiling with AFM.Nanotechnology · 2007Article
- Whole genome amplification of plasma-circulating DNA enables expanded screening for allelic imbalance in plasma.The Journal of molecular diagnostics : JMD · 2006Article
- Genome amplification of single sperm using multiple displacement amplification.Nucleic acids research · 2005Article
- Amplification of whole tumor genomes and gene-by-gene mapping of genomic aberrations from limited sources of fresh-frozen and paraffin-embedded DNA.The Journal of molecular diagnostics : JMD · 2005Article
Corrections and comments
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Authors and funding
10 authors at 1 institution in 1 country.
Funding
Abstract
Analysis of genomic DNA derived from cells and fresh or fixed tissues often requires whole genome amplification prior to microarray screening. Technical hurdles to this process are the introduction of amplification bias and/or the inhibitory effects of formalin fixation on DNA amplification. Here we demonstrate a balanced-PCR procedure that allows unbiased amplification of genomic DNA from fresh or modestly degraded paraffin-embedded DNA samples. Following digestion and ligation of a target and a control genome with distinct linkers, the two are mixed and amplified in a single PCR, thereby avoiding biases associated with PCR saturation and impurities. We demonstrate genome-wide retention of allelic differences following balanced-PCR amplification of DNA from breast cancer and normal human cells and genomic profiling by array-CGH (cDNA arrays, 100 kb resolution) and by real-time PCR (single gene resolution). Comparison of balanced-PCR with multiple displacement amplification (MDA) demonstrates equivalent performance between the two when intact genomic DNA is used. When DNA from paraffin-embedded samples is used, balanced PCR overcomes problems associated with modest DNA degradation and produces unbiased amplification whereas MDA does not. Balanced-PCR allows amplification and recovery of modestly degraded genomic DNA for subsequent retrospective analysis of human tumors with known outcomes.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.