Observed adjusted Rand index for iteration in FRECL, 100 runs. by Susana Conde (5495675)

Subjects:

EFGs: A Complete and Accurate Implementation of Ertl’s Functional Group Detection Algorithm in RDKit by Gonzalo Colmenarejo (650249)

“…In this paper, a new RDKit/Python implementation of the algorithm is described, that is both accurate and complete. …”

BOFdat Step 3: Identifying species-specific metabolic end goals. by Jean-Christophe Lachance (6619307)

“…(B) Schematic description of the effect of adding a biomass precursor on the prediction of gene essentiality in the model. A simplified metabolic network composed of two linear pathways is depicted with its corresponding stoichiometric matrix S, in which the objective function is presented in the blue column (<i>v</i>_<i>obj</i>). …”

Preservation analysis of co-expressed modules of control networks were tested in the stress condition based on the median rank (A) and Zsummary (B) algorithms. by Bahman Panahi (7323578)

Subjects:

Architecture of the 3D ResNet. by Adam L. Tyson (10892822)

Subjects:

Architecture of the bottleneck 3D ResNet. by Adam L. Tyson (10892822)

Subjects:

<b>Inappropriate application of mapping algorithms results in length-dependent gene abundances in metagenomic analysis</b> by Wenkai Teng (17150785)

The most significant functions in seven gene sets. by Pengcheng Zhao (6009899)

BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data by Jean-Christophe Lachance (6619307)

“…Despite its importance, no standardized computational platform is currently available to generate species-specific biomass objective functions in a data-driven, unbiased fashion. To fill this gap in the metabolic modeling software ecosystem, we implemented BOFdat, a Python package for the definition of a <b>B</b>iomass <b>O</b>bjective <b>F</b>unction from experimental <b>dat</b>a. …”

The optimal solution set of NYN by using different algorithms. by Yi Tao (178829)

Subjects: “…evolutionary genetic algorithm…”

The optimal solution set of HN by using different algorithms. by Yi Tao (178829)

Subjects: “…evolutionary genetic algorithm…”

FAR-1: A Fast Integer Reduction Algorithm Compared to Collatz and Half-Collatz by Faizan Ali (21689861)

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gmxapi usage examples. by M. Eric Irrgang (4487278)

Image3_Classification and biomarker gene selection of pyroptosis-related gene expression in psoriasis using a random forest algorithm.TIFF by Jian-Kun Song (11711756)

“…</p><p>Methods: RNA-sequencing data of psoriasis patients were obtained from the Gene Expression Omnibus (GEO) database, and differentially expressed pyroptosis-related genes (PRGs) between psoriasis patients and normal individuals were obtained. …”

Image1_Classification and biomarker gene selection of pyroptosis-related gene expression in psoriasis using a random forest algorithm.TIFF by Jian-Kun Song (11711756)

“…</p><p>Methods: RNA-sequencing data of psoriasis patients were obtained from the Gene Expression Omnibus (GEO) database, and differentially expressed pyroptosis-related genes (PRGs) between psoriasis patients and normal individuals were obtained. …”

Image2_Classification and biomarker gene selection of pyroptosis-related gene expression in psoriasis using a random forest algorithm.TIFF by Jian-Kun Song (11711756)

“…</p><p>Methods: RNA-sequencing data of psoriasis patients were obtained from the Gene Expression Omnibus (GEO) database, and differentially expressed pyroptosis-related genes (PRGs) between psoriasis patients and normal individuals were obtained. …”

Analysis of gene clusters of the damaged GER. by Tomokatsu Udagawa (11675636)

Subjects:

Python scripts used to model CPU errors by Poisson distribution density mass function and to draw graph of Poisson events (needs Matplot, SciPy, PysimpleGUI and NumPy) by Santhosh Kumar Rajamani (13023678)

Algorithm framework. by Zongjin Li (38031)

Subjects:

UPEFinder: A Bioinformatic Tool for the Study of Uncharacterized Proteins Based on Gene Expression Correlation and the PageRank Algorithm by José González-Gomariz (9610967)

“…In this way, we applied the PageRank algorithm to this network to identify the most relevant nodes, which were the biological annotations of the uncharacterized proteins. …”