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A similar pattern was also observed for mouse midbrain cells.
Similarly, in mouse midbrain cells, 2759 peaks (10.9% of the total peaks) were detected in lncRNAs.
For mouse midbrain cells, HEPeak discovered 25138 peaks on 11336 genes (FDR < 0.025); in contrast, ExomePeak detected 19324 peaks on 9421 genes.
As shown in Figure 9, the most enriched motifs for the HEK293T cells and mouse midbrain cells are GGACH [ 10, 11], which were identified bound by methytransferase METTL3 and METTL14 [ 27].
To further validate the accuracy of HEPeak, we applied HEPeak to two mA MeRIP-seq datasets including one from human HEK293T cell line [ 1] and the other from the mouse midbrain cells [ 8].
HEPeak was also applied to real MeRIP-seq datasets from human HEK293T cell line and mouse midbrain cells and was shown to be able to recapitulate known mA distribution in transcripts and identify novel mA sites in long non-coding RNAs.
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Furthermore, transplantation of mouse fetal midbrain cells into the SN, rather than the striatum, of 6-OHDA-lesioned adult mice may have a greater restorative capacity to locomotor function [60].
Partial GABAB1k forms containing exon-intron junctions were also cloned from human cultured cell lines, mouse midbrain, and rat hippocampus.
After purifying total RNA from human cultured cell lines, mouse midbrain, and rat hippocampus, DNase treatment removed possible genomic DNA contamination.
We further identify β-catenin as a cell-autonomous regulator of cell fate specification in the ventral mouse midbrain.
We used the Pitx3-GFP allele in combination with fluorescence-activated cell sorting (FACS) to purify dopaminergic neurons from the developing mouse midbrain and compared the expression profile of the Pitx3-GFP+ and Pitx3-GFP− cell populations by hybridising labelled cRNA to Affymetrix mouse 430 array 2.0.
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