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The usual approach is to analyse a single microarray dataset in isolation.
The microarray dataset in this study comprised CGH comparison of 167 strains in total from three different sources.
Surprisingly, we found that RUNX3 expression level in head and neck squamous cell carcinoma (HNSCC) tissues, which is one of the most common types of human cancer, was higher than that in normal tissues by a previously published microarray dataset in our preliminary study.
SVM-RFE was originally proposed by Guyon et al. [ 19] and applied to a microarray dataset in a cancer study.
Fibroblast strains; microarray dataset in whichh they have been analysed (1 – 3); ARD or GS, patient strain-ID; F, normal male foreskin fibroblasts; S, normal male scrotal fibroblasts.
We apply our method to a well-established lymphoma microarray dataset in combination with associated survival data and the large interaction network of HPRD to identify functional modules by computing optimal-scoring subnetworks.
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To this end, we first analyzed microarray datasets in silico to investigate the expression changes of HOPX in IPF lungs.
This approach was tested the approach on a number of microarray datasets in order to demonstrate that it performs well and is both useful and reliable.
To validate the role of gene signatures associated with MYC in human tumorigenesis, we examined the expression of human homologs in 273 published human lymphoma microarray datasets in Affymetrix U133A format.
The microarray datasets in Figure 5 have been deposited in the GEO database (http://www.ncbi.nlm.nih.gov/projects/geo/) under accession number GSE12677.
Our study demonstrates the power of integrated analysis of multiple and diverse microarray datasets, in order to generate and validate clinically useful models and concepts, in a cost effective manner.
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