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Single chips were used to measure the expression of 45 genes in 18 different adult and fetal tissues, and the results were compared both with microarray measurements and with conventional RT-qPCR. Figure 1A shows a picture of the microfluidic chip used in this study, a 48.48 dynamic array.
Some genes show good correlation between real-time PCR measurements and microarray measurements, and others do not.
Fold changes by qRT-PCR agreed well with our microarray measurements and data are shown for both 4.45 Gy exposed groups (Fig. 2).
Table 1 shows the PCC values of fold change calculations between RNA-Seq and microarray measurements, and the numbers of top ranked differentially expressed transcripts confirmed by microarray data.
Many technical improvements have been achieved in microarray measurements, and thus coexpression databases are now widely used for various experimental objectives, such as gene targeting, regulatory investigations and/or identification of potential partners in protein protein interactions.
Previous work with mixtures in microarrays [ 12– 14] utilized an arbitrary 10-fold "selectivity" cutoff to evaluate the linear dynamic range of microarray measurements and understand the variability of these measurements.
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Microarray measurement and miRNA extraction have been carried out as described previously [7,8].
This approval may bias the conclusions because low-expressing genes pose more challenge to accurate microarray measurement and analyses.
Because we employ multiple biological replicates (constructed singly) without technical replicates it is difficult to decompose variance attributable to microarray measurement and pooling construction.
To demonstrate image-based microarray measurement, and to confirm the specificity of the impedance responses to imatinib interactions with Abl1, we have measured imatinib interaction kinetics with sensor chips spotted with different proteins.
Highly variable microarray experimental conditions and the use of different microarray platforms cause poor reproducibility of microarray measurements within and between laboratories [7] [11].
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