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There was no significant expression of full IDO1 transcripts, and only partial IDO1 and IDO2 RNAs were detected in the healthy mouse brain (Table 1, Fig. 1A, Table S2).
PrPvCJD was also detected in the spleens of half of the mice (2/4) inoculated with early mouse brain (Table 1 and Figure 1D), thus suggesting that vCJD type agent was replicated as a minor component in the brains of a number of early mice and then preferentially amplified in the spleen on subpassage.
Choline plasmalogen (PtdCplasm) was decreased in Mecp2-deficient mouse brain (Table 2); however, PtdCplasm values may be less accurate than the other PL values since the PtdCplasm peak areas measured may be influenced by the presence of the large PtdC signal directly upfield from PtdCplasm.
Five genes (Gas2, Hrmt1l3, E2F8, Ptpn5, and Tsg101) were detectable and showed no change in TgPWS compared to WT mouse brain (Table 1), indicating that the TgPWS/TgAS deletion does not affect any of these genes (Fig. 1A).
Brazil55b had a longer passage history than other YFV strains (4 passages in suckling mouse brain) (Table A1); thus the altered phenotype may be partly attributed to selection during repeated mouse passage.
The miRNA expression analysis indicated that, as in prefrontal cortex (PFC) of human alcoholics, miRNAs appear predominantly upregulated in FCtx of alcohol-drinking mice, with 52 miRNA families upregulated in mouse brain (Table 1).
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This result is further supported by the C26:0/C22:0 ratio, which did not differ between ntg and A53T α-Syn mouse brains (Table 1).
We did not find any significant difference in the content of GM2 between double-Tg and WT mouse brains (Table 1).
In the present study, GM3 was slightly increased in double-Tg mouse brains compared with WT mouse brains (Table 1); the increase was statistically significant for GM3 in female double-Tg mouse brains.
Original clinical specimens, or once passaged mouse brain samples (Table 1), confirmed positive previously by FAT (Fluorescent Antibody Test) and by RT-PCR were used.
The remaining 12 genes were not covered by filtered high quality SNP-containing reads due to lack of detected expression in mouse neonatal brain (Table S1.6).
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