C Number of features with partial correlations falling in different ranges. Each row represents one way of data transformation. Raw: raw proportion. logit: logit transformation. CLR: centered log-ratio transformation. CPM: count per million Thus, methods designed for single-organism RNA-seq data ...
Thus, in this “stickiness” scale, the higher the score of an amino acid, the more frequent it is at protein–protein interaction interfaces relative to protein surfaces. The stickiness scale shares similarities with amino-acid solubility, hydrophobicity, and aggregation scales as shown in Fig. ...
Cellular proteins undergo constant turn-over [36]. The protein pool is replenished by new synthesis and depleted by degradation of old proteins. The rate of synthesis is considered to follow zero-order kinetics, meaning it is independent of the amount of protein present. The degradation rate is...
Tick-borne encephalitis (TBE) is one tick-transmitted disease where the human incidence has increased in some European regions during the last two decades. We aim to find the most important factors causing the increasing incidence of human TBE in Sweden.
the maximum number of inputs could be 544), where i is an index to a specific physicochemical feature (input to first-order neurons, i = 1,2,…, 544). The number of intermediate neurons and layer were varied (see below). The network computed a single output value, o, for each input...
A genome can include the sequence of all chromosomes together in an organism. For example, the human genome ordinarily has a total of 46 chromosomes. The sequence of all of these together may constitute a human genome. As used herein, the phrase “genomic features” can refer to a genome ...
The model constrains the total proteome (sum of all proteome sectors) to be 1 under all growth conditions. Similar models have been used to interpret the Crabtree effect in yeast and E. coli (Nilsson and Nielsen, 2016, Basan et al., 2015) as being a result of high protein costs for ...
The biosynthesis of AAs uses intermediates from central metabolism whereas their catabolism leads to production of metabolites used by the citric acid cycle as an energy source [3] (Fig. 1). Depending upon the cell type and the organism, AAs are not only used as building blocks for protein ...