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Since several of the identified gene expression modules represented processes of broader influence on tumor progression, we assayed module co-expression in seven different cancer forms, including four carcinomas (colon, non-small cell lung carcinoma (NSCLC), ovarian and bladder), stage IV malignant melanoma, diffuse large B-cell lymphoma (DLBCL) and acute myeloid leukemia (AML) (Additional file 2).
Group-wise effects on Ki-67 staining intensity for genes in the two proliferation modules were analyzed per module by comparing the mean module Ki-67 intensity to a random intensity distribution based on 10,000 sampled gene groups of the same size as the assayed module.
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Enzyme reactions simultaneously occur in six reaction chambers of each microfluidic assay module filled with different concentrations of substrate solution generated by microfluidic channel network.
Image processing was also performed by commercial HCS software (Cellomics vHCS Analysis Toolbox for cellWoRx version 6.00 with the assay module CellAnalysisToolbox.V2 version 5.0, Thermo Fisher Scientific).
Similarly, a module related to an anxiety assay (module no. 1) consists of two different traits that were measured following treatment with ethanol at different time points.
Evaluation of further field samples from infected and noninfected horses would be required to obtain more robust estimates for Se and Sp. The microsphere array assay modules were specific for HeV and NiV.
Our aim is to incorporate these HeV and NiV microsphere array assays as modules in future higher multiplexed microsphere arrays.
We designed the multiplex SNP genotyping assay using the Assay Designer module of the MassARRAY Typer 4.0 software package (Sequenom, San Diego, CA, USA), and conducted PCR reactions using Sequenom iPLEX Gold reagent kits following standard procedures at the Veterinary Genetics Laboratory, University of California-Davis.
Database search and functional module assays explain in part why CB-EPCs amplification quicker.
To assay differences in transcript abundance levels between genotypes and between sexes, total transcript level was assayed using the 3′ expression module (Affymetrix Drosophila 2.0 PM probe sets).
The BiomarCaRE project is designed as a multi-modular study including: (1) biomarker selection based on omics discovery studies as well as literature, and (2) assay development (Module 1), (3) data harmonization of large-scale studies and (4) biomarker determination, analyses and validation (Module 2), and (5) biomarker assessment in clinical trials and (6) economic evaluation (Module 3).
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