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

A Python Package for the Localization of Protein Modifications in Mass Spectrometry Data by Anthony S. Barente (14035175)

Subjects:

Average quality scores of the models of the analysis set as a function of the <i>w</i>_<i>SP</i> with which the DOPE potential has been included in the objective function... by Giacomo Janson (8138517)

Radius of gyration (RG) of the backbone atoms of the protein as a function of time. by L. F. S. Bonet (11502082)

Solvent-accessible surface area (SASA) of the protein as a function of time. by L. F. S. Bonet (11502082)

3D modeling qualities of the AS single-template models built by including DOPE in the objective function of MODELLER. by Giacomo Janson (8138517)

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

Subjects:

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

Subjects:

3D modeling qualities of the AM multiple-template models built by including DOPE in the objective function of MODELLER. by Giacomo Janson (8138517)

Root mean square deviation (RMSD) of the backbone atoms of the protein as a function of time. by L. F. S. Bonet (11502082)

Performance of the greedy approximation algorithm. by Virgile Andreani (17087764)

Subjects: “…unlike approximation algorithms…”

Root mean square fluctuation (RMSF) of the backbone atoms of the protein as a function of each amino acid residue. by L. F. S. Bonet (11502082)

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

Adaptive H-REMD simulation algorithm. by Danial Pourjafar-Dehkordi (7165523)

Subnetwork clusters of identified targets for TFDM against CIRI obtained using MCODE algorithm. by Xu Hu (23350)

Rosetta energy functions for membrane proteins cannot identify the inward-facing conformation of PfMATE. by Diego del Alamo (9925083)

Listed python codes of our algorithm with explanations (Python 3.9 recommended). by Takayuki Niizato (162226)

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

“…</p> <p>The study identifies specific variants (L111R, R114C, D123N, G150S, and L243P) in the coding region of the GABRD gene, which are predicted as deleterious by multiple algorithms. …”

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

“…Secondly, we have inquired into how the incorporation of statistical potential terms (such as the DOPE potential) in the MODELLER’s objective function impacts positively 3D modeling quality by providing a small but consistent improvement in metrics such as GDT-HA and lDDT and a large increase in stereochemical quality. …”

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

“…These highly diverse chains are recognized by a variety of protein receptors, enabling glycans to regulate many biological functions. …”