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For the previous two cases, the expression levels between two tissues are almost equal.
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The distance between two tissues was set as the median of the non-overlapping areas of all their common genes.
A gene's relative expression (e.g., fold change measurements between two tissues) is commonly used as the metric for the validation purpose [ 5, 14, 15].
Further, differential expression analysis between seven tissues was conducted using edgeR bioconductor package with p ≤ 0.001 and fold change ≥ 2.
All of the differences between these two tissues are due entirely to a single Hox gene, Ultrabithorax (Ubx), which is expressed in one (the haltere, a balancing organ required for flight) but not the other (the wing).
In the case of AU, the importance of communication between the two tissues was demonstrated by inserting a thin membrane between the skin and periosteum to show the dependency on skin for antler organogenesis [ 22] and regeneration [ 56].
In addition, we demonstrated that the clear difference of nodal signaling between the two tissues were necessary for the biased EB3 and coordinated cell alignments according to the tissue boundary.
Based on those findings, a potential crosstalk between the two tissues was suggested.
The difference in average eccentricity values between these two tissues is marginally visible in Figure 4B.
For the tissue-specificity analysis, the largest difference between any two tissues was used to determine 'switches' versus 'non-switches'.
This difference between the two tissues was tentatively ascribed to the regulation of MTORC1 and of autophagy by glucagon in the liver, but not in muscle.
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