composition, physicochemical properties and structural properties to predict AMPs, with considerable performance. However, based on our study, the aforementioned manually extracted features for describing a candidate peptide sequence might not be sufficient for the best AMP prediction performance. We evaluated...
In simple terms, this encoding describes the walk as a sequence of turns. Since we consider the two-dimensional square lattice in this section, there are four possible turns at each step of the walk, or three if one restricts to non-backtracking walks. We refer to these options as “...
E[f(X)] denotes the expected prediction value, and f(x) is the final prediction, calculated from the sum of all SHAP values plus E[f(X)]. See Supplementary Data 8 for detailed variable descriptions. Full size image Fig. 5: Visualization of the peptide design space based on sequences ...
On the basis of their sequences, 11 of the 23 peptides were synthesised and their angiotensin converting enzyme (ACE)-inhibitory and antioxidant activities were measured. The β-casein peptides HLPLP and WSVPQPK showed potent ACE-inhibitory and antioxidant activity, with a protein concentration ...
The turn-based encoding represents each chain (backbone and side chains) of the peptide as a sequence of turns. Precisely, each atom of the chain is described by its relative position with respect to the previous atom in the chain; for a lattice-based protein model, the allowed relative pos...
Peptides have become crucial in muscle recovery, acting asamino acidswith specific sequences that enhance protein production and tissue repair. Scientific studies confirm their effectiveness in reducing muscle inflammation, accele...
These sequences usually represent parts of longer proteins, rather than individual peptides, and were thus scored differently. Any matches to this 'digestion' category of patterns were counted. The abstract score was computed as the sum of the number of matches to categories 'peptide' and '...
ProteinBERT: a universal deep-learning model of protein sequence and function. Bioinformatics 38, 2102–2110 (2022). Article CAS PubMed Central PubMed Google Scholar Vig, J. et al. Bertology meets biology: Interpreting attention in protein language models. arXiv preprint arXiv:2006.15222 (2020...
MMP-9 spaltbaren Peptidsequenzen, die eine Protein-bindende Gruppe enthalten. The invention relates to low molecular weight doxorubicin-peptide derivatives with MMP-2 or MMP-9 cleavable peptide sequences that contain a protein-binding group.
The feature vectors of peptide sequences are transformed by word embedding technique and four hand-crafted feature extraction methods. We apply multi-head cross-attention mechanism to hemolytic peptide identification for the first time. It captures the interaction between word embedding features and hand...