Python-Based Algorithm for Estimating NRTL Model Parameters with UNIFAC Model Simulation Results by Se-Hee Jo (20554623)

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Pipeline of the interactor algorithm. by Jose Cleydson F. Silva (8685594)

<b>Opti2Phase</b>: Python scripts for two-stage focal reducer by Morgan Najera (21540776)

“…</p><p dir="ltr">The package includes:</p><ul><li>Scripts for first-order analysis, third-order modeling, optimization using a Physically Grounded Merit Function (PGMF), and RMS-based refinement.</li><li>A subfolder named <b>Images</b>, which stores the figures generated by six of the seven provided scripts.…”

Reward function related parameters. by Honglei Pang (22693724)

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The results of LASSO regression algorithm. by Xue Fu (549661)

A) Ranking of models trained on different feature sets across all tested algorithms, sorted by their F1-score. by Jose Cleydson F. Silva (8685594)

Depiction of how the label of is assigned as a function of whether are identical (row =), nested (rows ), or partially overlapping (row “else”), and as a function of the labels of... by Jordan Moutet (21800145)

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

“…<b>(B)</b> The priority of the top 10 genes was evaluated through MNC, which identifies clusters of protein nodes that are more functionally connected to each other and selects the central proteins within the cluster. …”

Morpheus: A fragment-based algorithm to predict metamorphic behaviour in proteins across proteomes by Vijay Subramanian (20718933)

“…<p dir="ltr">Supplementary material for Morpheus: A fragment-based algorithm to predict metamorphic behaviour in proteins across proteomes.…”

PATH has state-of-the-art performance versus previous binding affinity prediction algorithms. by Yuxi Long (11024307)

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MEDOC: A Fast, Scalable, and Mathematically Exact Algorithm for the Site-Specific Prediction of the Protonation Degree in Large Disordered Proteins by Martin J. Fossat (3714079)

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Two protein-ligand complexes shown with their persistence fingerprint. by Yuxi Long (11024307)

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Optimization Performance Comparison of Metaheuristic Algorithms. by Xie Qiu (13243770)

Explained variance ration of the PCA algorithm. by Abeer Aljohani (18497914)

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Protein-Protein Interaction (PPI) and ceRNA Regulatory Network Analysis. by Jie Chu (293795)

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A framework for improving localisation prediction algorithms. by Sven B. Gould (12237287)

“…One can expect that the combination of multi-dimensional parameters from evolutionary biology, cell biology and molecular biology on evolutionary diverse species will significantly improve the next generation of machine leaning algorithms that serve localisation (and function) predictions.…”

PATH (with persistence fingerprint) runs significantly faster than TNet-BP, a representative binding affinity prediction algorithm that uses persistent homology, on larger protein-... by Yuxi Long (11024307)

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Identification and functional analysis of hub genes. by Wei Ya Lan (22403712)

“…<p>(A) Protein–protein interaction (PPI) network constructed using the STRING database with a confidence score > 0.04. …”

Visualization by PaCMAP [52] shows that persistence fingerprint clusters protein-ligand complexes with similar binding affinity reasonably well, even beyond the training dataset (P... by Yuxi Long (11024307)

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A comparison between the static Python-based visualizations of the p65 activity in activated fibroblasts and the dynamic, HTML-based visualizations that use these same reduction me... by Hector Torres (11708207)