Published references to Rubicon technology

2008

Bastien, R. Lewis TB. Hawkes JE. Quackenbush JF. Robbins TC. Palazzo J. Perou CM. Bernard PS. High-throughput amplicons scanning of the TP53 gene in breast cancer using high-resolution fluorescent metling curve analyses and automatic mutation calling. Human Mutation 29(5): 757-764, 2008.

GenomePlex gave superior results for mutation detection in FFPE tissue.

Laxman et al. (2008) A First-generation Multiplex Biomarker Analysis of Urine for the Early Diagnosis of Prostate Cancer. Cancer Research, 68:645-649.

Use of TransPlex for discovery of expression biomarkers in urine.

Mead S. Poulter M. Beck J. Uphill J. Jones C. Ang CE. Mein CA. Collinge J. Successful amplification of degraded DNA for use with high-throughput SNP genotyping platforms. Human Mutation 0:1-7, 2008 (advance publication).

GenomePlex gave superior genotyping results for amplifying DNA from degraded DNA.

2007

Ballantyne KN. van Oorschot RA. Mitchell RJ. Comparison of two whole genome amplification methods for STR genotyping of LCN and degraded DNA samples. Forensic Science International. 166(1):35-41, 2007 Feb 14.

Coskun S. Alsmadi O. Whole genome amplification from a single cell: a new era for preimplantation genetic diagnosis. Prenatal Diagnosis. 27(4):297-302, 2007 Apr.

Fiegler H. Geigl JB. Langer S. Rigler D. Porter K. Unger K. Carter NP. Speicher MR. High resolution array-CGH analysis of single cells. Nucleic Acids Research. 35(3):e15, 2007.

Shows that GenomePlex can be used for single-cell CGH.

Geigl JB. Speicher MR. Single-cell isolation from cell suspensions and whole genome amplification from single cells to provide templates for CGH analysis. Nature Protocols. 2(12):3173-84, 2007.

Single-cell array CGH using GenomePlex WGA.

Hittelman A. Sridharan S. Roy R. Fridly and J. Loda M. Collins C. Paris PL. Evaluation of whole genome amplification protocols for array and oligonucleotide CGH. Diagnostic Molecular Pathology. 16(4):198-206, 2007 Dec.

Iwamoto K. Ueda J. Nakano Y. Bundo M. Ukai W. Hashimoto E. Saito T. Kato T. Evaluation of whole genome amplification methods using postmortem brain samples. Journal of Neuroscience Methods. 165(1):104-10, 2007 Sep 15.

Kim et al. (2007) Integrative Analysis of Genomic Aberrations Associated with Prostate Cancer Progression. Cancer Research 67:8229-8239.

Leanza SM. Burk RD. Rohan TE. Whole genome amplification of DNA extracted from hair samples: potential for use in molecular epidemiologic studies. Cancer Detection & Prevention. 31(6):480-8, 2007.

Shows that GenomePlex WGA of hair can be used for SNP genotyping

Peng W. Takabayashi H. Ikawa K. Whole genome amplification from single cells in preimplantation genetic diagnosis and prenatal diagnosis. European Journal of Obstetrics, Gynecology, & Reproductive Biology. 131(1):13-20, 2007 Mar.

Protopopov, A. Analysis of Genomic Copy Number Alterations Using Agilent Oligo 244K Microarray and WGA. The Cancer Genome Atlas Newsletter. September 2007.

GenomePlex WGA gives excellent oligonucleotide array CGH results.

Sorensen KM. Jespersgaard C. Vuust J. Hougaard D. Norgaard-Pedersen B. Andersen PS. Whole genome amplification on DNA from filter paper blood spot samples: an evaluation of selected systems. Genetic Testing. 11(1):65-71, 2007.

GenomePlex was validated for genotyping of DNA extracted from Guthrie cards.

Tomlins et al. (2007) Integrative Molecular Concept Modeling of Prostate Cancer Progression. Nature Genetics, 39:41-51

Uda A. Tanabayashi K. Fujita O. Hotta A. Yamamoto Y. Yamada A. Comparison of whole genome amplification methods for detecting pathogenic bacterial genomic DNA using microarray. Japanese Journal of Infectious Diseases. 60(6):355-61, 2007.

GenomePlex validated for unbiased amplification of bacterial DNA for microarray analysis.

2006

Barnes KC. Grant A. Gao P. Baltadjieva D. Berg T. Chi P. Zhang S. MA, Zambelli-Weiner A. Ehrlich E. Zardkoohi O. Brummet ME. Stockton M. Watkins T. Gao L. Gittens M. Wills-Karp M. Cheadle C. Beck LA. Beaty TH. Becker KG. Garcia JGN. Mathias RA. Polymorphisms in the novel gene acyloxyacylhydroxylase (AOAH) are associated with asthma and associated phenotypes. J. Allergy and Clinical Immunology. 118:70 – 77, 2006.

GenomePlex WGA for large SNP study on Illumina platform.

Laxman et al. (2006) Noninvasive Detection of TMPRSS2:ERG Fusion Transcripts in the Urine of Men with Prostate Cancer. Neoplasia, 8:885-888.

Little SE. Vuononvirta R. Reis-Filho JS. Natrajan R. Iravani M. Fenwick K. Mackay A. Ashworth A. Pritchard-Jones K. Jones C. Array CGH using whole genome amplification of fresh-frozen and formalin-fixed, paraffin-embedded tumor DNA. Genomics. 87(2):298-306, 2006 Feb.

Superior results with GenomePlex WGA for FFPE material.

O'Geen H. Nicolet CM. Blahnik K. Green R. Farnham PJ. Comparison of sample preparation methods for ChIP-chip assays. Biotechniques. 41(5):577-80, 2006 Nov.

Adopted GenomePlex as superior to ligation-mediated PCR because of higher S/N ratio.

Peano C. Severgnini M. Cifola I. De Bellis G. Battaglia C. Transcriptome amplification methods in gene expression profiling. Expert Review of Molecular Diagnostics. 6(3):465-80, 2006 May.

Tomlins et al. (2006). Whole Transcriptome Amplification for Gene expression Profiling and Development of Molecular Archives. Neoplasia, 8: 153-162.

2005

Bergen AW. Haque KA. Qi Y. Beerman MB. Garcia-Closas M. Rothman N. Chanock SJ. Comparison of yield and genotyping performance of multiple displacement amplification and OmniPlex whole genome amplified DNA generated from multiple DNA sources. Human Mutation. 26(3):262-70, 2005.

GenomePlex amplimers are too small to genotype using a specific set of forensic STRs. (In research studies GenomePlex DNA produced excellent genotyping using the complete well-known Marshfield STR panel).

2004

Barker DL. Hansen MS. Faruqi AF. Giannola D. Irsula OR. Lasken RS. Latterich M. Makarov V. Oliphant A. Pinter JH. Shen R. Sleptsova I. Ziehler W. Lai E. Two methods of whole-genome amplification enable accurate genotyping across a 2320-SNP linkage panel. Genome Research. 14(5):901-7, 2004 May.

GSK and Illumina study shows 99.8% SNP genotype concordance between GenomePlex amplified DNA and unamplified human genomic DNA.

Gribble SM. Fiegler H. Burford DC. Prigmore E. Yang F. Carr P. Ng BL. Sun T. Kamberov ES. Makarov VL. Langmore JP. Carter NP. Applications of combined DNA Microarray and Chromosome Sorting Technologies. Chromosome Research 12:35-43, 2004.

GenomePlex WGA from single-copy sorted chromosomes gives excellent array CGH.

Gribble S. Ng BL. Prigmore E. Burford DC. Carter NP. Chromosome paints from single copies of chromosomes. Chromosome Research. 12(2):143-51, 2004.

GenomePlex WGA of individual sorted chromosomes can synthesize excellent FISH probes for CGH.

Hughes S. Lim G. Beheshti B. Bayani J. Marrano P. Huang A. Squire JA. Use of whole genome amplification and comparative genomic hybridisation to detect chromosomal copy number alterations in cell line material and tumour tissue. Cytogenetic & Genome Research. 105(1):18-24, 2004.