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GO analysis of the matching 310 D. melanogaster orthologs revealed that 13 GO terms were significantly overrepresented (Table 1 and Additional file 11), including sensory perception (P-value = 0.024, 11 genes, up-regulated in mated = 4, down-regulated = 7) and response to organic substance (P-value = 0.044, 8 genes, up-regulated in mated = 5, down-regulated =3).
However, a careful analysis of the matching transcripts and proteins should be performed to confirm this hypothesis.
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Matched analysis of the matched sets using exact methods in SAS version 9.1 (Cary, NC) was used to compute matched odds ratios (mOR) and 95% confidence intervals (CI).
Analysis of the matched cohort showed having an unrelated donor transplant (HR, 4.79; P = .0037), CNS disease before HCT (HR, 7.67; P = .0064), and radiotherapy exposure before conditioning (HR, 3.7; P = .0234) to be significant risk factors.
Analysis of the matched source patient HGSOC samples was also consistent with homozygous (#11 and #62) and heterozygous (#48 and #169) methylation of the BRCA1 promoter, although due to variable neoplastic purity in patient HGSOC samples, it was more challenging to estimate the proportion of methylated copies (Supplementary Data 4).
A secondary data analysis of the matched dataset was conducted.
After adjusting for surgical selection bias by propensity score matching, regression analysis of the matched cohorts revealed that surgery was associated with decreased mortality (hazard ratio, 0.27; 95% confidence interval, 0.13-0.55).
We conducted a subgroup analysis of the matched case controls excluding patients with UTIs.
Gene Ontology (GO) analysis of the matched contigs identified 8110 genes that were categorized into different GO groups.
SRM analysis is consistent with previously published western blot, immunohistochemistry (IHC), and SRM analysis of the matched frozen xenograft tissue [ 21].
In our analysis of the matched sites an important observation was seen; that is, over 40% of specimens had discordant expression when dichotomized to high versus low expression.
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