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Quantitative PCR data for transcript abundance (least square means and standard errors) in the semimembranosus and supraspinatus can be found in Supplementary Tables S4 and S5, respectively.
Data for transcript accumulation were cube-root transformed for normality and variance homogeneity.
Each of the sequences are derived from a single clone and thus, they represent more valuable data for transcript prediction than data originating from low quality and short EST sequences.
To further characterize the response to Fe deficiency in a time-course manner, all data for transcript abundance at 0, 1, 6 and 24 h Fe deficiency were subjected to a cluster analysis using k-means methods with the algorithm as described previously [ 29].
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Further studies integrate the transcriptomics and proteomics analyses to provide the consistent data for transcripts and proteins of fibroblasts on grooved substrate in regulating chromatin remodeling (e.g., HMGA1) and DNA synthesis (e.g., PCNA) (McNamara et al., 2012).
Expression data for transcripts can be accessed using unique transcript IDs which report the expression of the transcripts in root and leaf tissues.
We filtered our raw count data for transcripts that had less than 20 reads mapping in all libraries, leaving us with 15,423 transcripts for differential expression analysis.
To further characterize the novel elements within the human retinal transcriptome, we also analyzed the data for transcripts derived from potential novel genes.
The crosses show the centre of the data for transcripts with (red) and without (black) higher mRNA/pre-mRNA ratio in the Dicer knockouts.
To compare half-lives of X-chromosome and autosomal transcripts, we first used half-life data for transcripts of 11,679 genes (including 353 located on the X-chromosome) obtained by (Tani, Imamachi, et al. 2012).
To determine whether sample groups shared similar expression profiles, clustering of samples using nMDS and the Bray-Curtis similarity index were conducted in Primer v6 [ 169] using coral-only count data for transcripts with greater than 100 total normalized counts.
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