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In this study, we evaluated the gene expression profiles in the olfactory bulbs of normal rats and naris-occluded rats using the gene microarray technique.
Functional classification was performed using the Gene Microarray Pathway Profiler (GenMAPP) [ 37].
In the present study, we identified three SOX genes (SOX7, SOX9 and SOX10) as the genes of interest, because they were differentially expressed in PCa compared with adjacent benign prostate tissues using the gene microarray system (Table 2).
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We feel then, that these minor changes in our control cells (+/− DHT) detected using the gene Chip microarray approach represent the "noise" of the system and that this noise is extremely low and easily filtered using the secondary qPCR approach.
We modeled the overall survival using the gene expression microarray datasets with a series of Cox proportional hazards models.
SKM samples from all animals in the three treatment groups were used for the gene microarray, microRNA microarray, methylation array and qPCR.
Also, further studies using the candidate gene microarray with more specific experimental designs and target tissues may reveal additional genes with more restricted expression patterns.
Affymetrix GeneChip® human whole genome U133 Plus 1.0 Array plates were used to perform the gene microarray (Expression Analysis, Inc., Durham, NC, USA).
A custom genome was created using the genes present on the microarrays used.
We calculated the gene co-expression correlation for all gene-gene pairs using the microarray gene expression data of 126 normal tissues [ 40].
We used the gene expression data from microarray experiments in our previous study, which were performed on matched samples (GSM184440 and GSM184441).
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