Fig 7 - by Paolo Perlasca (9909695)

Subjects:

Internal symmetry in crystallin proteins. by Spencer E. Bliven (6672755)

Subjects:

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

“…This algorithm conducts a series of procedures: (1) fragmentation of the molecules into functional groups from SMILES, (2) calculation of activity coefficients under predetermined temperature and mole fraction conditions by employing universal quasi-chemical functional group activity coefficient (UNIFAC) model, and (3) regression of NRTL model parameters by employing UNIFAC model simulation results in the differential evolution algorithm (DEA) and Nelder–Mead method (NMM). …”

Examples of protein globular domains with internal symmetry. by Spencer E. Bliven (6672755)

Subjects:

Pseudocode of the RPath algorithm. by Daniel Domingo-Fernández (5432273)

“…For each path found, drug-perturbed (i.e., drug_tr) and disease-specific (disease_tr) transcriptomic signatures are overlaid onto their corresponding protein nodes. The function then prioritizes the drug if at least one path is concordant with the observed drug-perturbed transcriptomic signatures (evaluated via <b>Function 1</b>, <i>is_concordant</i>) and the same path is anti-correlated with the observed disease-specific transcriptomic signatures (evaluated via <b>Function 2</b>, <i>is_anti_correlated</i>). …”

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. …”

Verification of the in-line PS function. by Raul Castañeda (13932971)

(a) Radar chart of these algorithms (23 Benchmark functions), (b) The sorting diagram of these algorithms (23 Benchmark functions). by Yu Liu (6938)

“…<p>(a) Radar chart of these algorithms (23 Benchmark functions), (b) The sorting diagram of these algorithms (23 Benchmark functions).…”

Conventional versus quantitative mosaic analysis. by Sebastian M. Bernasek (8525829)

Subjects:

Automated unsupervised annotation of clones in the larval eye. by Sebastian M. Bernasek (8525829)

Subjects:

A detailed process of iterative simulation coupled with bone density algorithm; (a) a function of stimulus and related bone density changes, and (b) iterative calculations of finite element analysis coupled with user’s subroutine for changes in bone density. by Hassan Mehboob (8960273)

“…<p>A detailed process of iterative simulation coupled with bone density algorithm; (a) a function of stimulus and related bone density changes, and (b) iterative calculations of finite element analysis coupled with user’s subroutine for changes in bone density.…”

Perturbing gene expression via mitotic recombination. by Sebastian M. Bernasek (8525829)

Subjects:

Automated correction of fluorescence bleedthrough in the larval eye. by Sebastian M. Bernasek (8525829)

Subjects:

Discovery of Protein Modifications Using Differential Tandem Mass Spectrometry Proteomics by Paolo Cifani (1575613)

“…Termed SAMPEI for spectral alignment-based modified peptide identification, this open-source algorithm is designed for the discovery of functional protein and peptide signaling modifications, without prior knowledge of their identities. …”

Discovery of Protein Modifications Using Differential Tandem Mass Spectrometry Proteomics by Paolo Cifani (1575613)

“…Termed SAMPEI for spectral alignment-based modified peptide identification, this open-source algorithm is designed for the discovery of functional protein and peptide signaling modifications, without prior knowledge of their identities. …”

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

Results of the application of different clustering algorithms to average functional connectivity from healthy subjects. by Francisco Páscoa dos Santos (16510676)

“…Inertia was calculated using the scikit learn module in Python. B) Resulting cluster distance from hierarchical clustering to averaged functional connectivity from healthy subjects, with different numbers of clusters. …”

Design example using the structure of the LecB lectin <i>Pseudomonas aeruginosa</i> strain PA14 (PDB ID: 5A6Y [67]) and the osprey workflow for fries/<i>EWAK</i>*. by Anna U. Lowegard (8051597)

Subjects:

Revisiting the “satisfaction of spatial restraints” approach of MODELLER for protein homology modeling by Giacomo Janson (8138517)

“…<div><p>The most frequently used approach for protein structure prediction is currently homology modeling. …”

Strong negative correlation between the precision of algorithms and the evolutionary distance from the training data. by Sven B. Gould (12237287)