|Gene Identification Through Array CGH: The CHARGE Syndrome|
Lisenka Vissers, Conny van Ravenswaaij, Ronald Admiraal, Jane Hurst, Bert de Vries, Irene Janssen, Walter van der Vliet, Erik Huys, Pieter de Jong, Ben Hamel, Eric Schoenmakers, Han Brunner, Joris Veltman and Ad Geurts van Kessel.
In this study we have used high-resolution genome-wide DNA copy number screening by array-based comparative genomic hybridization (array CGH)2-3 to identify the underlying genetic cause of this malformation syndrome. Through this screening we identified overlapping microdeletions on chromosome 8 in two CHARGE patients.
|New 3D Black Substrate for Protein Microarrays with Improved Dynamic Range|
Markus Hollas, Eric Jallerat, Karl Pflanz, Inka Praulich, Johanna Walter
A competitive study analysing the background fluorescence and the detectable concentration range of a chosen antigen is presented. An Affymetrix Spotting roboter 417 arrayer was used for protein dotting. The analysis is based on fluorescence scanning experiments with an Affymetrix 428 array scanner at a gain of 60. Data analysis was made with ImaGene Premium 5.5.3 by Biodiscovery Inc.
|Optimisation Workflow for the Production and Processing of High Quality Microarrays Applications in DNA, Peptide, antibody, and Carbohydrate Microarraying|
Jens Sobek, Catharine Aquino and Ralph Schlapbach
We have developed a workflow for optimisation of array preparation and for processing protocols. Only 4 independent model experiments and solvent, immobilisation and blocking conditions. Optimal conditions or high quality microarray experiments were determined and used for array production and slide processing at the FGCZ.
|Diagnostic Genotyping of Drug Metabolising Enzyme Genes on Microarray: The DrugMEt™ Pharmacogenetic IVD Test |
Hendolin PH, PhD, U Ristonmaa, MSc, A Liikola, MSc, P Kolu, MSc, T Varis, LabTech, A Lehtelä, LabTech. and V-P Korhonen, PhD
A microarray test for in vitro diagnostic use that contains 27 SNPs from 8 different genes with a proven role in the metabolism of major drugs and that may be processed using regular laboratory instrumentation and a range of different scanners.
|Exploring Reverse Transcription for DNA MicroArrays|
Miroslava Cuperlovic-Culf, Adrian S. Culf, Dominique Richard, Mark LaFlamme, Daniel Leger and Rodney J. Ouellette
Results suggest that random priming is the optimal method for expression analysis of long genes. This method of RT may be appropriate for alternatively spliced genes and for genes without unique probes in the 3’-region.
|Protein Expression Profiling with High-Content Antibody Arrays using Universal Linkage System ULS™ Protein Labeling|
Frank Opdam, Saskia Schoenmakers, Marie Lacombe, Sandra van der Locht, Alain van Gool and Paul van der Hoeven
The Universal Linkage System (ULS™) is a platinum-based technology that allows direct labeling of proteins and nucleic acids with a large variety of labels and haptens, including many fluorophores, biotin, and dinitrophenol.
|GenomeLIMs: Affymetrix Expression module for GeneChip Expression Array Sample Submission and Tracking|
James Hadfield, Rob Davey, Jenn Conn
We present here an online system to handle Affymetrix sample submission and tracking, job management and lab processing. Many current microarray database solutions tend to focus on post sample-processing analysis. GenomeLIMS allows recording of all sample processing steps, there are no expression data analysis functions.
|Carbon Nanotubes by Microwave Plasma Enhanced Chemical Vapor Deposition|
M. Maschmann, A. Goyal, Z. Iqbal, T.S. Fisher, R. Gat
MICROWAVE Plasma generates radical density characteristic of 2000C at much lower effective temperature and can be highly ionized (Low pressure ECR mode) or highly neutral (high pressure mode).
|rptDB; a prototype Affymetrix .rpt QC tool|
James Hadfield, Marielle Vigouroux
rptDB is a prototype database for the analysis of Affymetrix expression report (.rpt) files. Report files are widely used to QC raw data after hyb, scan and .cel file generation. Only %Present calls, Scale Factors and 3':5' ratios of housekeeping genes are generally used, but there are many other metrics that may also be of importance for QC analysis.