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Therefore, larger amount of transcript sequences and more diverse tissues or cell types could enhance the AS information.
Thus, generating RNA-seq data from more diverse tissues from different developmental stages or environmental conditions will be helpful for improving the annotation of the B. rapa genomic sequence.
Although the analysis of global genome methylation using MeDIP-seq and RRBS was reported in pigs, the results from more diverse tissues at single base-pair resolution are necessary to have better understanding of the methylation profiles of the pig genome related to chromosomal variations, gene features, CGI association and non-biparental expression.
Taking into account that AS8 was constructed from different cultivars and more diverse tissues, global results indicate that our assembly is good enough to analyse gene-expression changes in olive tree; and, more importantly, it includes environmental-stress-response transcripts which are crucial for this study.
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In contrast to testis, where essentially a single biological process is performed, we felt that muscle would represent a more diverse tissue type, since it is involved in more processes.
It is likely that with a more diverse tissue panel some of these low-expressing probes would be assessed as higher quality.
Again, by using a more diverse tissue panel to calculate scaling parameters, we would expect that probes for such genes would not show consistent expression between methods, and would therefore be failed at the quality control step.
Although these observations suggested the operation in mammalian cells of a pathway identical to that in Drosophila, recent studies demonstrate that the pathway upstream of Yap as well as the regulation and functions of Mst1 and 2 are each more diverse and tissue specific than anticipated from genetic analysis of the developing Drosophila eye (see below).
The MPSS data demonstrate that the inventory of genes in a given tissue is complex and there may be substantially more overlap in diverse tissues than previously characterized, and this can be identified only by sequencing ESTs at a very deep level.
Overall, we calculated SSMIs values for 80% of the approximately 19,000 genes included in our between-method comparison with moderate confidence, and expect that many of the remaining genes could be scaled using a more diverse set of tissues, as proposed.
Adapting this method to the much smaller breast cancer biopsies proved challenging, especially since the anatomy of the breast is much more diverse in its tissue components.
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