ArticleNucleic acids research2005
Human and mouse oligonucleotide-based array CGH.
Article in Nucleic acids research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed, 274 citations in OpenAlex.
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- Matching of array CGH and gene expression microarray features for the purpose of integrative genomic analyses.BMC bioinformatics · 2012Article
- Relevance of PTEN loss in brain metastasis formation in breast cancer patients.Breast cancer research : BCR · 2012Article
- Genomic architecture characterizes tumor progression paths and fate in breast cancer patients.Science translational medicine · 2010Article
- CGHpower: exploring sample size calculations for chromosomal copy number experiments.BMC bioinformatics · 2010Article
- Anti-proliferative action of vitamin D in MCF7 is still active after siRNA-VDR knock-down.BMC genomics · 2009Article
- Lack of bystander activation shows that localization exterior to chromosome territories is not sufficient to up-regulate gene expression.Genome research · 2009Article
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- Amplification of an alternate transporter gene suppresses the avirulent phenotype of glucose transporter null mutants in Leishmania mexicana.Molecular microbiology · 2009Article
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- ESR1 gene amplification in breast cancer: a common phenomenon?Nature genetics · 2008Article
- Bacterial artificial chromosome-emulation oligonucleotide arrays for targeted clinical array-comparative genomic hybridization analyses.Genetics in medicine : official journal of the American College of Medical Genetics · 2008Article
- Recruitment to the nuclear periphery can alter expression of genes in human cells.PLoS genetics · 2008Article
- Integration of gene dosage and gene expression in non-small cell lung cancer, identification of HSP90 as potential target.PloS one · 2008Article
- PMC42, a breast progenitor cancer cell line, has normal-like mRNA and microRNA transcriptomes.Breast cancer research : BCR · 2008Article
- Normalized, segmented or called aCGH data?Cancer informatics · 2007Article
- High resolution oligonucleotide CGH using DNA from archived prostate tissue.The Prostate · 2007Article
- Gene-resolution analysis of DNA copy number variation using oligonucleotide expression microarrays.BMC genomics · 2007Article
Corrections and comments
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Authors and funding
12 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Array-based comparative genomic hybridization is a high resolution method for measuring chromosomal copy number changes. Here we present a validated protocol using in-house spotted oligonucleotide libraries for array comparative genomic hybridization (CGH). This oligo array CGH platform yields reproducible results and is capable of detecting single copy gains, multi-copy amplifications as well as homozygous and heterozygous deletions as small as 100 kb with high resolution. A human oligonucleotide library was printed on amine binding slides. Arrays were hybridized using a hybstation and analysed using BlueFuse feature extraction software, with >95% of spots passing quality control. The protocol allows as little as 300 ng of input DNA and a 90% reduction of Cot-1 DNA without compromising quality. High quality results have also been obtained with DNA from archival tissue. Finally, in addition to human oligo arrays, we have applied the protocol successfully to mouse oligo arrays. We believe that this oligo-based platform using 'off-the-shelf' oligo libraries provides an easy accessible alternative to BAC arrays for CGH, which is cost-effective, available at high resolution and easily implemented for any sequenced organism without compromising the quality of the results.
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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.