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

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

“…(C, D) Top 10 hub genes identified using the Maximal Clique Centrality (MCC) algorithm; darker colors indicate higher centrality within the PPI network. …”

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. …”

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

Linear-regression-based algorithms succeed at identifying the correct functional groups in synthetic data, and multi-group algorithms recover more information. by Yuanchen Zhao (12905580)

“…<p>(A), (B) Algorithm performance, evaluated over 50 simulated datasets generated as described in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1012590#pcbi.1012590.g001" target="_blank">Fig 1</a> with <i>N</i> = 3 true groups, 900 samples and 10% simulated measurement noise. …”

Scatter plots of PATH⁺ and our implementation of TNet-BP’s predictions on a held-out, test subset of PDBBind v2020 refined set for one run (90:10 train:test split ratio,... by Yuxi Long (11024307)

Subjects:

(a-b) The LASSO algorithm was used for hyperparameter tuning and identification of the important predictive features. by Devi Soorya Narayana Sasikumar (22331743)

Subjects:

Immune infiltration analysis by ssGSEA algorithm. by Yubin Xue (1537042)

Comparative performance evaluation of 3Mont with other feature selection algorithms over 10 iterations. by Miray Unlu Yazici (14792680)

Subjects:

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

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

“…For proper execution, this folder must be placed within the <b>KrakenOS</b> directory, at the same level as the <b>Examples</b> folder.…”

Experiment 1b: Evaluating modularity-based consensus clustering pipelines on the algorithm design datasets as a function of the mixing parameter. by Yasamin Tabatabaee (18095491)

Immune infiltration analysis by CIBERSORT algorithm. by Lanying Shen (22755930)

The GOR4 and SOPMA algorithm findings. by Ahmad Abdullah Mahdeen (19704401)

Immune infiltration analysis by CIBERSORT algorithm. by Lanying Shen (22755930)

Distribution of cross correlations in functional connectivity in ABIDE sample. by Alexandria M. Jensen (6494957)

Subjects:

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

Geometric interpretation and data visualisation equivalent describing the DI algorithmic pipeline. by Borjan Milinkovic (21349908)

Boxplot of PLNMFG and other eight state-of-the-art algorithms measured by (a) ACC and (b) AMI on six real datasets. by Hui Yuan (402180)

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. …”