Search Results - "Pires DEV"

Computational design of therapeutic antibodies with improved developability: efficient traversal of binder landscapes and rescue of escape mutations.

Authors: Dreyer FA Schneider C Kovaltsuk A et al.

Source: MAbs [MAbs] 2025 Dec; Vol. 17 (1), pp. 2511220. Date of Electronic Publication: 2025 Jun 03.

Publication Type: Journal Article

Journal Info: Publisher: Taylor & Francis Country of Publication: United States NLM ID: 101479829 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1942-0870 (Electronic) Linking ISSN: 19420862 NLM ISO Abbreviation: MAbs Subsets: MEDLINE

Potential Antiviral Compounds from Hippeastrum puniceum Bulb Against Yellow Fever Virus: Bioassay-Guided Fractionation and In Silico Pharmacokinetic Analysis.

Authors: Flores-Souza E Caldeira ASP Pacca-Mazaro CC et al.

Source: Molecules (Basel, Switzerland) [Molecules] 2025 Oct 22; Vol. 30 (21). Date of Electronic Publication: 2025 Oct 22.

Publication Type: Journal Article

Journal Info: Publisher: MDPI Country of Publication: Switzerland NLM ID: 100964009 Publication Model: Electronic Cited Medium: Internet ISSN: 1420-3049 (Electronic) Linking ISSN: 14203049 NLM ISO Abbreviation: Molecules Subsets: MEDLINE

The topological properties of the protein universe.

Authors: Madsen CD Barbensi A Zhang SY et al.

Source: Nature communications [Nat Commun] 2025 Aug 13; Vol. 16 (1), pp. 7503. Date of Electronic Publication: 2025 Aug 13.

Publication Type: Journal Article

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

Assessing the predicted impact of single amino acid substitutions in calmodulin for CAGI6 challenges.

Authors: Turina P Dal Cortivo G Enriquez Sandoval CA et al.

Source: Human genetics [Hum Genet] 2025 Mar; Vol. 144 (2-3), pp. 113-125. Date of Electronic Publication: 2024 Dec 23.

Publication Type: Journal Article

Journal Info: Publisher: Springer Verlag Country of Publication: Germany NLM ID: 7613873 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1432-1203 (Electronic) Linking ISSN: 03406717 NLM ISO Abbreviation: Hum Genet Subsets: MEDLINE

Assessing the predicted impact of single amino acid substitutions in MAPK proteins for CAGI6 challenges.

Authors: Turina P Petrosino M Enriquez Sandoval CA et al.

Source: Human genetics [Hum Genet] 2025 Mar; Vol. 144 (2-3), pp. 265-280. Date of Electronic Publication: 2025 Feb 20.

Publication Type: Journal Article

Journal Info: Publisher: Springer Verlag Country of Publication: Germany NLM ID: 7613873 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1432-1203 (Electronic) Linking ISSN: 03406717 NLM ISO Abbreviation: Hum Genet Subsets: MEDLINE

A Broad-Spectrum α-Glucosidase of Glycoside Hydrolase Family 13 from Marinovum sp., a Member of the Roseobacter Clade.

Authors: Li J Mui JW da Silva BM et al.

Source: Applied biochemistry and biotechnology [Appl Biochem Biotechnol] 2024 Sep; Vol. 196 (9), pp. 6059-6071. Date of Electronic Publication: 2024 Jan 05.

Publication Type: Journal Article

Journal Info: Publisher: Humana Press Country of Publication: United States NLM ID: 8208561 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1559-0291 (Electronic) Linking ISSN: 02732289 NLM ISO Abbreviation: Appl Biochem Biotechnol Subsets: MEDLINE

Engineering G protein-coupled receptors for stabilization.

Authors: Velloso JPL de Sá AGC Pires DEV et al.

Source: Protein science : a publication of the Protein Society [Protein Sci] 2024 Jun; Vol. 33 (6), pp. e5000.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9211750 Publication Model: Print Cited Medium: Internet ISSN: 1469-896X (Electronic) Linking ISSN: 09618368 NLM ISO Abbreviation: Protein Sci Subsets: MEDLINE

New Machine Learning Models for Predicting the Organic Cation Transporters OCT1, OCT2, and OCT3 Uptake.

Authors: Bocci G Mathai N Suutari B et al.

Source: ACS omega [ACS Omega] 2025 Sep 19; Vol. 10 (38), pp. 44190-44200. Date of Electronic Publication: 2025 Sep 19 (Print Publication: 2025).

Publication Type: Journal Article

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101691658 Publication Model: eCollection Cited Medium: Internet ISSN: 2470-1343 (Electronic) Linking ISSN: 24701343 NLM ISO Abbreviation: ACS Omega Subsets: PubMed not MEDLINE

PerseuCPP: a machine learning strategy to predict cell-penetrating peptides and their uptake efficiency.

Authors: Bernardes-Loch RM de Oliveira Almeida G Brasiliano IT et al.

Source: Bioinformatics advances [Bioinform Adv] 2025 Sep 08; Vol. 5 (1), pp. vbaf213. Date of Electronic Publication: 2025 Sep 08 (Print Publication: 2025).

Publication Type: Journal Article

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9918282081306676 Publication Model: eCollection Cited Medium: Internet ISSN: 2635-0041 (Electronic) Linking ISSN: 26350041 NLM ISO Abbreviation: Bioinform Adv Subsets: PubMed not MEDLINE

Uncovering digital overdiagnosis - Quantification and mitigation using clinical trajectories: Heparin-induced thrombocytopenia use case.

Authors: Senevirathna P Pires DEV Capurro D

Source: Journal of biomedical informatics [J Biomed Inform] 2025 Sep; Vol. 169, pp. 104876. Date of Electronic Publication: 2025 Jul 08.

Publication Type: Journal Article

Journal Info: Publisher: Elsevier Country of Publication: United States NLM ID: 100970413 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1532-0480 (Electronic) Linking ISSN: 15320464 NLM ISO Abbreviation: J Biomed Inform Subsets: MEDLINE

Characterizing and predicting ccRCC-causing missense mutations in Von Hippel-Lindau disease.

Authors: Serghini A Portelli S Troadec G et al.

Source: Human molecular genetics [Hum Mol Genet] 2024 Jan 20; Vol. 33 (3), pp. 224-232.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: IRL Press at Oxford University Press Country of Publication: England NLM ID: 9208958 Publication Model: Print Cited Medium: Internet ISSN: 1460-2083 (Electronic) Linking ISSN: 09646906 NLM ISO Abbreviation: Hum Mol Genet Subsets: MEDLINE

DDMut: predicting effects of mutations on protein stability using deep learning.

Authors: Zhou Y Pan Q Pires DEV et al.

Source: Nucleic acids research [Nucleic Acids Res] 2023 Jul 05; Vol. 51 (W1), pp. W122-W128.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE

LEGO-CSM: a tool for functional characterization of proteins.

Authors: Nguyen TB de Sá AGC Rodrigues CHM et al.

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2023 Jul 01; Vol. 39 (7).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

Understanding the complementarity and plasticity of antibody-antigen interfaces.

Authors: Myung Y Pires DEV Ascher DB

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2023 Jul 01; Vol. 39 (7).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

epitope1D: accurate taxonomy-aware B-cell linear epitope prediction.

Authors: da Silva BM Ascher DB Pires DEV

Source: Briefings in bioinformatics [Brief Bioinform] 2023 May 19; Vol. 24 (3).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 100912837 Publication Model: Print Cited Medium: Internet ISSN: 1477-4054 (Electronic) Linking ISSN: 14675463 NLM ISO Abbreviation: Brief Bioinform Subsets: MEDLINE

Artificial Intelligence and Deep Learning for Rheumatologists.

Authors: McMaster C Bird A Liew DFL et al.

Source: Arthritis & rheumatology (Hoboken, N.J.) [Arthritis Rheumatol] 2022 Dec; Vol. 74 (12), pp. 1893-1905. Date of Electronic Publication: 2022 Oct 26.

Publication Type: Journal Article; Review

Journal Info: Publisher: Wiley Country of Publication: United States NLM ID: 101623795 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2326-5205 (Electronic) Linking ISSN: 23265191 NLM ISO Abbreviation: Arthritis Rheumatol Subsets: MEDLINE

kinCSM: Using graph-based signatures to predict small molecule CDK2 inhibitors.

Authors: Zhou Y Al-Jarf R Alavi A et al.

Source: Protein science : a publication of the Protein Society [Protein Sci] 2022 Nov; Vol. 31 (11), pp. e4453.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9211750 Publication Model: Print Cited Medium: Internet ISSN: 1469-896X (Electronic) Linking ISSN: 09618368 NLM ISO Abbreviation: Protein Sci Subsets: MEDLINE

CSM-peptides: A computational approach to rapid identification of therapeutic peptides.

Authors: Rodrigues CHM Garg A Keizer D et al.

Source: Protein science : a publication of the Protein Society [Protein Sci] 2022 Oct; Vol. 31 (10), pp. e4442.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9211750 Publication Model: Print Cited Medium: Internet ISSN: 1469-896X (Electronic) Linking ISSN: 09618368 NLM ISO Abbreviation: Protein Sci Subsets: MEDLINE

toxCSM: comprehensive prediction of small molecule toxicity profiles.

Authors: de Sá AGC Long Y Portelli S et al.

Source: Briefings in bioinformatics [Brief Bioinform] 2022 Sep 20; Vol. 23 (5).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 100912837 Publication Model: Print Cited Medium: Internet ISSN: 1477-4054 (Electronic) Linking ISSN: 14675463 NLM ISO Abbreviation: Brief Bioinform Subsets: MEDLINE

GASS-Metal: identifying metal-binding sites on protein structures using genetic algorithms.

Authors: Paiva VA Mendonça MV Silveira SA et al.

Source: Briefings in bioinformatics [Brief Bioinform] 2022 Sep 20; Vol. 23 (5).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 100912837 Publication Model: Print Cited Medium: Internet ISSN: 1477-4054 (Electronic) Linking ISSN: 14675463 NLM ISO Abbreviation: Brief Bioinform Subsets: MEDLINE