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Figure 1b shows the statistical significance (by Student's t tests) of differential transcript cluster expression in a volcano plot format along with respective fold changes (FC).
The full list of atom types with their respective incidence is provided for Substance and Compound as supporting information in Additional file 3. The total number of atom environments with radius r = 1 is 299,609 for Substance [100,411 (33.5%) singletons] and 109,306 for Compound [31,163 (28.5%) singletons], a 38× and 69×, respective, fold increase over r = 0.
The full list of atom environments with radius r = 1 with their respective incidence is provided for Substance and Compound as supporting information in Additional file 4. The number of unique atom environments with radius r = 2 is 5,453,889 in Substance (1,637,544 [30%] singletons) and 4,559,587 in Compound (1,782,077 [39.1%] singletons), an 18× and 42×, respective, fold increase over r = 1.
Briefly, a data set containing differentially expressed genes and respective fold differences were uploaded into the application.
The respective fold change was calculated by dividing the transcript abundance of each test sample by the transcript abundance of the corresponding control sample.
Respective fold changes of the rate of methylation between MA- and MP cells for the three sites analyzed were 1.8, 1.6 and 1.1 with the RT-qPCR method and 1.35, 1.85 and 1.06 with the standard method.These results confirmed that the rate of rRNA methylation of at least some sites is higher in the most aggressive cells.
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For all investigated times of day, responses in TH-responding signature genes were generally stronger than in IR-associated signature genes, although the extent (i.e., number of significantly regulated genes and respective fold-change values) varied between the investigated times of day.
The generality and robustness of these results were validated by performing fold-recognition experiments, whereby sequences were matched with their respective folds based on amino acid propensities for the different energetic environments in the protein, as determined through cluster analysis.
While the PCAIN showed 97% accurate classification, the PCM showed only 14% accuracy in classification of domains into their respective folds (Figure 4A).
To characterize the 3D structure of a new protein sequence, the first step is to identify one or more homologous proteins of known structure; from these, one can infer, or "recognize" the new protein's domains and their respective folds.
The levels of Asp, Glu and Gln were 3.5, 1.8 and 3.1 times higher, respectively, in the flesh of 'McIntosh' fruits from the inner-canopy; for the peel, the respective fold-increases were 2.7, 1.9 and 2.8.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com