Our algorithms process large data sets within a minute. by Manu Aggarwal (15990691)

Genetic algorithms can be applied to higher-dimensional design problems. by Lu Hong (399882)

Subjects:

Flexible CDOCKER: Hybrid Searching Algorithm and Scoring Function with Side Chain Conformational Entropy by Yujin Wu (2901128)

“…Here, we propose a new physics-based scoring function that includes both enthalpic and entropic contributions upon binding by considering the conformational variability of the flexible side chains within the ensemble of docked poses. …”

Flexible CDOCKER: Hybrid Searching Algorithm and Scoring Function with Side Chain Conformational Entropy by Yujin Wu (2901128)

“…Here, we propose a new physics-based scoring function that includes both enthalpic and entropic contributions upon binding by considering the conformational variability of the flexible side chains within the ensemble of docked poses. …”

Functional effect prediction of FUS mutations by ten nsSNP prediction algorithms. by L. F. S. Bonet (11502082)

Identification of hub genes from the PPI network by bottleneck algorithm using the cytoHubba Cytoscape plugin. by Cihat Erdogan (12529243)

Algorithmic assessment reveals functional implications of GABRD gene variants linked to idiopathic generalized epilepsy by Ayla Arslan (17943365)

“…Subsequently, consensus variants predicted as pathogenic undergo further evaluation through a web server employing an algorithm based on structural homology. The resulting 11 variants are then validated using in silico tools that assess variant effects based on genetic and molecular data. …”

NRPStransformer, an Accurate Adenylation Domain Specificity Prediction Algorithm for Genome Mining of Nonribosomal Peptides by Zhihan Zhang (1403308)

“…Leveraging the sequences within the flavodoxin-like subdomain, we developed a substrate specificity prediction algorithm using a protein language model, achieving 92% overall prediction accuracy for 43 frequently observed amino acids, significantly improving the prediction reliability. …”

Functional analysis of the oral dysbiosis dataset using molecular function GO terms. by Ray Sajulga (5721518)

Functional enrichment of gene clusters identified in up-regulated drought tolerant network (uDTN) using MCL algorithm. by Sanchari Sircar (198485)

Functional enrichment of 17 gene clusters identified in down-regulated drought tolerant network (dDTN) using MCL algorithm. by Sanchari Sircar (198485)

The algorithm is designed to identify patterns in the treatment dataset. by Belén Otero-Carrasco (21262360)

“…<p>This process involves two key functions. First, from lines 1 to 8, the algorithm identifies amino acids that meet the occurrence threshold, starting with patterns of length 1. …”

Data from: Structural and Functional Analysis of Multi-interface Domains by ZHAO Liang (8657694)

“…This work applies graph theory and algorithms to discover fingerprints for the multiple interfaces of a domain and to establish associations between the interfaces and functions, based on a huge set of multi-interface proteins from PDB. …”

Function graph and algorithm iterative graph. by WanRu Zhao (18980374)

Subjects:

Core genes were selected through PPI analysis based on three algorithms. by Dong-Hee Han (140305)

“…<p>Among 46 DEGs whose expression significantly changed in A549 and BEAS-2B cell lines, the core genes were selected using three algorithms: MCC, MNC, and DEGREE. <b>(A)</b> The top 10 genes were prioritized using MCC analysis, which identifies the largest clique within the PPI network and selects the central proteins within the clique. …”

“Integration and prediction” panel for CoV-human protein-protein interaction network. by Paolo Perlasca (9909695)

Subjects:

Development and Evaluation of GlycanDock: A Protein–Glycoligand Docking Refinement Algorithm in Rosetta by Morgan L. Nance (10981871)

“…In this work, we introduce <i>GlycanDock</i>, a residue-centric protein–glycoligand docking refinement algorithm developed within the Rosetta macromolecular modeling and design software suite. …”

Development and Evaluation of GlycanDock: A Protein–Glycoligand Docking Refinement Algorithm in Rosetta by Morgan L. Nance (10981871)

“…In this work, we introduce <i>GlycanDock</i>, a residue-centric protein–glycoligand docking refinement algorithm developed within the Rosetta macromolecular modeling and design software suite. …”

Development and Evaluation of GlycanDock: A Protein–Glycoligand Docking Refinement Algorithm in Rosetta by Morgan L. Nance (10981871)

“…In this work, we introduce <i>GlycanDock</i>, a residue-centric protein–glycoligand docking refinement algorithm developed within the Rosetta macromolecular modeling and design software suite. …”

Development and Evaluation of GlycanDock: A Protein–Glycoligand Docking Refinement Algorithm in Rosetta by Morgan L. Nance (10981871)

“…In this work, we introduce <i>GlycanDock</i>, a residue-centric protein–glycoligand docking refinement algorithm developed within the Rosetta macromolecular modeling and design software suite. …”