Using the SNF approach, the K-Nearest Neighbors (KNN) algorithm is iteratively applied to update the UDRS matrix based on three DRS matrices. Similarly, the calculated DIS matrices (two matrices) are integrated into a unique DIS (UDIS) matrix using SNF. Following, two comprehensive similarity ...
Researchers are gradually solving the computational problem of drug repositioning from a macro perspective, but previous studies of DDA prediction have not considered the whole cell. The FSPGA algorithm proposed by He et al. can effectively detect more meaningful clustering hidden in the attribute ...
The percentage of B cells was higher in the TME when compared to blood (median: blood = 4.6, tumor = 15.8; Supplementary Fig. 1). To better characterize the landscape of CD19+ B cells, an unsupervised algorithm such as FlowSOM was used, and 20 clusters were identified (Fig. ...
Automated information extraction model enhancing traditional Chinese Medicine RCT evidence extraction (Evi-BERT): Algorithm Development and Validation. Front Artif Intell. 2024;7:1454945. Article PubMed PubMed Central Google Scholar Lin G, Huang Y, Hong-tu MI, et al. Meta-analysis of the ...
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This was achieved through an advanced data-dependent acquisition (DDA) strategy, incorporating dynamic exclusion techniques to enhance and maximize the depth of coverage. The resulting data were thereafter subjected to identification through Protein Discoverer (V2.3), employing the Percolator algorithm. ...
Additionally, the developmental trajectory of epithelial cells was reconstructed using the Monocle2 algorithm [52]. Details of the scRNA-seq processing are provided in the Supplementary Methods. Pathway activity analysis and gene enrichment analysis The activity of specific pathways at the single-cell ...
respectively. The capillary temperature was 325 °C. The Orbitrap analyzer scanned over a mass/charge range of 81–1000 for full scans at a mass resolution of 70,000. Data-dependent acquisition (DDA) MS/MS experiments were performed with HCD scan. The normalized collision energy was 30 eV. ...
The disorder of the frameshift C-termini was approximated by predicting the secondary structural elements of the full-length and frameshift C-terminal sequences using the SPIDER2 algorithm [46]. C-terminal sequences were generated by appending the canonical or frameshift C-termini with the 10 resid...
and a hill-climbing algorithm was used to find the nearest integer that represented the canonical repeat number in the ideal sequence (Additional file 1: Fig. S16), minimizing the Levenshtein distance (L-distance) between the extracted sequence (the observed string) and the ideal sequence consist...