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These results are supported by gene chip data analysis of more than 30 normal human tissues showing that HIP is most highly expressed in blood vessels or in vascular-rich tissues such as liver, lung, brain, and pancreas (data not shown).
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By cross-referencing [ 18] gene chip data sets we identified that 11 from 61 miRNAs demonstrate a pattern of change in expression that was the exact opposite of that observed during muscle differentiation [ 55].
The probeset comparison of whole prostate tissue was accomplished by using HG-U133A Affymetrix gene chip data in the form of CEL files published in the Novartis GeneAtlas [ 6].
Differentially regulated genes in response to EHEC O157∶H7 growth in the presence of epithelial cells relative to the absence of HEp-2 cells, were identified by performing a 1-way ANOVA on the gene chip data set.
Statistics for the gene chip data was performed by Spotfire 8.0.
We developed a genome-wide approach to link genotype to clinical outcome by consecutively utilizing next generation sequencing and gene chip data of 6,697 breast cancer patients.
The qPCR results were in accordance with the gene chip data (Figure 4A,B), exemplified by aquaporin 7 and tTG.
Affymetrix gene chip data were analyzed as described above.
Here, our aim was to combine available genotype and RNA-seq data generated by NGS with gene expression data generated by gene chips, in order to develop a tool that could estimate the complex prognostic impact of a genomic anomaly.
Gene-chip data were validated by quantitative-PCR (Q-PCR); 19/19 G2-M genes were down-regulated in H2O2-treated MEFs (P < 0.05), but not in p53−/− or p66−/− MEFs (Fig. 2A; Table S2).
All supplemental data, including gene-by-gene ChIP-seq and gene expression mRNA-seq data, are available at http://eisenlab.org/data/TAF7L.
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