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Fig. 1 Biobanking work flow in the hospital where automated processing of 384-tube systems are processed by the "384 Sample Array Robot".
We assessed the performance of these algorithms by comparing their results with those generated using matched SNP arrays and processed by the allele-specific copy number analysis of tumors (ASCAT) algorithm.
All arrays were processed by the Core Facility in the UC Davis Department of Medical Microbiology & Immunology using an Affymetrix Hybridization Oven 640, the Affymetrix 450 Fluidics Station, and an Affymetrix GeneChip 3000 Scanner.
This array is then processed by the OuputStage function.
An overview of the MADS+ pipeline is provided below: Preprocessing: raw junction array CEL files are processed by the ProbeEffects program (Kapur et al., 2007).
If either or both of the PBs were found to be aneuploid, the corresponding zygote was then also processed by array CGH for concordance analysis.
The raw intensity expression values were processed by Robust Multi-array Average procedure, with the re-annotated Chip Definition Files from BrainArray libraries version 15.0.0 available at http://brainarray.mbni.med.umich.edu.edu
The raw intensity expression values were processed by Robust Multi-array Average (RMA) procedure [ 29] with the re-annotated Chip Definition Files (CDF) from BrainArray libraries version 15.0.0 [ 30] available at http://brainarray.mbni.med.umich.edu.edu
Transcript levels were estimated from replicate microarray analysis of total RNA which was then processed by robust multi-array (RMA) quantile normalisation [38].
The arrays were pre-processed by the GC-RMA algorithm using GeneSpring GX 11.0.2 (Agilent Technologies Inc .. Populus probes exhibiting mean raw hybridization intensities of at least 50 in any experimental group were flagged as "present", yielding a list of 24,871 probes, and the rest designated as "absent" and excluded from analysis.
The signals from the array are processed by an algorithm with the purpose of acquiring the desired near-field speech signal produced by the wearer while suppressing noise signals originating from the environment.
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