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Moreover, this deduplication step significantly increased the N50 of the three Trans-ABySS assemblies (p = 0.003).
The following parameters were used for all CAP3 assemblies: –p 95 o 50–g 3–y 50–t 1000.
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The most enriched categories include nucleosome assembly (P < 7.24E-22), chromassemblyembly (P < 1.02E-20), systemic lupus erythematosus (P < 9.03E-18), chromassemblyembly or disassembly (P < 4.57E-17), DNA packaging (P < 1.29E-16) and protein-DNA complex assembly (P < 1.92E-11).
Post hoc individual Mann-Whitney U-tests revealed significant differences between "picture completion" and "block design" (P = 0.009), "picture completion" and "object assembly" (P = 0.002), "picture arrangement" and "block design" (P = 0.043), and "picture arrangement" and "object assembly" (P = 0.018).
The rotation angle is calculated from the distance of z-shift (z) required and the pitch of the assembly (P).
In group IV, distinct gap channel and inflammation pathways were identified like peptide ligand binding (p = 0.0006), gap-junction assembly (p = 0.0008) and chemokine signaling pathways (p = 0.0013).
Functional annotation identified enrichment of DMPs associated with genes critical to wound repair, including angiogenesis (p = 0.07) and extracellular matrix assembly (p = 0.035).
Also other processes related to chromosomal instability are related, such as "chromatin assembly" (p = 1.60 × 10-05) anumberumber of parent terms have been lost.
The downregulated genes are enriched for mitosis (p = 5.9E-28 5.9E-28-tubule cytoskeleton organization (p = 1.2E-15), DNA repair (p = 1.9E-7), protein targeting to the mitochondria (p = 4.2E-5), nucleotide biosynthesis process (p = 9.4E-5) and nucleosome assembly (p = 1.4E-4).
We also observe real gene fusion events associated with 5/125 (4.0%) subunit pairs that would conserve (dis)assembly, compared to only 7/870 (0.8%) pairs that would modify (dis)assembly (p = 0.01, Fisher's exact test).
Using the high confidence threshold, we observe evidence for fusion in 22/201 (10.9%) of subunit pairs that would conserve (dis)assembly, compared to 37/1286 (2.9%) in those that would modify (dis)assembly (p = 2 × 10−6, Fisher's exact test).
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