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Mortazavi et al. [ 9] proposed a multiread "rescue" method whereby initial gene expression levels are estimated from unique reads and used to fractionally allocate multireads, with final expression levels obtained by re-estimation based on total counts obtained after multiread allocation.
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The phenotype of each individual is defined by the set of gene expression level x i after evolution for "developmental time," which starts from the time point with a given initial gene expression level (set as x i <0 for all i, i.e., none of the genes is expressed).
Individuals were generated at random by drawing networks and initial vectors of gene expression levels from a uniform distribution on [-1, +1].
As an initial gene-wise analysis of gene expression levels, reads or read pairs ("tags") mapped in the sense orientation to annotated gene models were counted for each sample.
The faint VPg signal observed may be nonspecific staining or low-level initial gene expression that does not lead to permissive replication.
Initial data included quality assurance such as gene expression levels, integration sites, protein expression and heritability.
The morphological innovations may require complex interactions of different genetic pathways or re-organization of gene expression levels during from initial pattern formation to organogenesis.
This indicates that concentration thresholds occur, below which gene expression levels return to normal after initial alteration.
We saw evidence of unmasking of the p57 kip2 gene expression levels In order to corroborate this initial observation we tested whether treatment with 5-aza-2′deoxy-cytidine restored p57kip2 protein expression levels in the cell line panel.
As an initial measure of gene expression organization we examined overall variance of log-transformed gene expression levels.
In addition, we found differences in the gene expression levels of various nicotinamide adenine dinucleotide phosphate oxidase subunits between initial multiple sclerosis lesions and control white matter.
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