Structure-Guided CDR3 Insertion Enables Affinity Maturation of Naive Single-Domain Antibodies against Small-Molecule Haptens

Συγγραφείς: Yang, Zenglin^aff1, Li, Guoqiang^aff1, Ge, Yuanyuan^aff1, Liu, Xin^aff2, Cao, Limin^aff1, Wang, Kaiqiang^aff1, Wang, Xiudan^aff1, Lin, Hong^aff1, Zhang, Shaoen^aff3, Chen, Qingzhou^aff3, Sui, Jianxin^aff1

Πηγή: ACS Biomaterials Science & Engineering. 12(9):4720-4733

Διαθεσιμότητα: https://pubs.acs.org/doi/10.1021/acsbiomaterials.6c00666

Computational engineering of biomolecules

Συγγραφείς: Cianferoni, Damiano

Συνεισφορές: University/Department: Universitat Pompeu Fabra. Departament de Medicina i Ciències de la Vida

Thesis Advisors: Serrano Pubull, Luis

Πηγή: TDX (Tesis Doctorals en Xarxa)

Θεματικοί όροι: Protein engineering, FoldX, COVID-19, RNA docking, AlphaFold2, Enginyeria de proteïnes, Acoblament d'ARN

Περιγραφή αρχείου: application/pdf

Σύνδεσμος πρόσβασης: http://hdl.handle.net/10803/689148

Structural analyses of oxygen channels of animal, soybean and manganese lipoxygenases

Συγγραφείς: Oliw, Ernst H., 1948-, Author

Συνεισφορές: Oliw, Ernst H., 1948-, Author

Πηγή: Archives of Biochemistry and Biophysics. 781

Θεματικοί όροι: Active site residues, Alphafold2, Computed structural models, Enzyme-substrate complexes, Manganese lipoxygenase, Oxidation mechanism

Περιγραφή αρχείου: electronic

Σύνδεσμος πρόσβασης: https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-584991
https://doi.org/10.1016/j.abb.2026.110804

Novel methods for multiple sequence alignment and evolutionary modeling

Συγγραφείς: Mansouri, Leila

Συνεισφορές: University/Department: Universitat Pompeu Fabra. Departament de Medicina i Ciències de la Vida

Thesis Advisors: Notredame, Cedric

Πηγή: TDX (Tesis Doctorals en Xarxa)

Θεματικοί όροι: Alineamiento de secuencias múltiples, AlphaFold2, Filogenia, Estructura de proteínas, Evolución de proteínas, Multiple Sequence alignment, Phylogeny, Structure of protein, Protein evolution

Περιγραφή αρχείου: application/pdf

Σύνδεσμος πρόσβασης: http://hdl.handle.net/10803/688007

Structure-Guided Framework for Characterizing Drug Resistance-Mediating ABC Transporters in Coccidioides immitis

Συγγραφείς: Jing, Avelyn

Πηγή: 2025 IEEE EMBS International Conference on Biomedical and Health Informatics (BHI) Biomedical and Health Informatics (BHI), 2025 IEEE EMBS International Conference on. :1-7 Oct, 2025

Relation: 2025 IEEE EMBS International Conference on Biomedical and Health Informatics (BHI)

Deep Learning-Based Framework for Accurate Protein Tertiary Structure Prediction Using Sequence and Evolutionary Feature

Συγγραφείς: Singh, Tej, Shelke, Nitin Arvind, Singh, Jagendra, Agarwal, Ritu, Tuli, Krishan, Agarwal, Ruchi

Πηγή: 2025 International Conference on Intelligent and Secure Engineering Solutions (CISES) Intelligent and Secure Engineering Solutions (CISES), 2025 International Conference on. :829-834 Aug, 2025

Relation: 2025 International Conference on Intelligent and Secure Engineering Solutions (CISES)

Efficacy of Ipflufenoquin against Strawberry Gray Mold: Insights from AlphaFold- Based Structural Modeling and Genome-Wide Transcriptomic Analysis

Συγγραφείς: Choi, Sungyu^aff1, Son, Doeun^aff1, Jang, Hyeong-rok^aff1, Park, Soyoon^aff1, Liu, Haifeng^aff1, Lee, Hyeon-gyeong^aff1, Sang, Hyunkyu^{aff1, aff2, aff3}

Πηγή: Journal of Agricultural and Food Chemistry. 74(5):4339-4351

Διαθεσιμότητα: https://pubs.acs.org/doi/10.1021/acs.jafc.5c14085

Accelerating Drug Discovery Using GenFold-AI for Protein Structure Prediction in Genetic Disease Research

Συγγραφείς: Kamolov, Sardor, Khursanov, Yokubjon, Sokhibnazarov, Orzu, Akhmedov, Shuhrat, Djurayeva, Zilola, N, Zahraa, Jasim Abushraida, Abdulkareem A., Ali Zearah, Sajad

Πηγή: 2025 3rd International Conference on Cyber Resilience (ICCR) Cyber Resilience (ICCR), 2025 3rd International Conference on. :1-6 Jul, 2025

Relation: 2025 3rd International Conference on Cyber Resilience (ICCR)

ABPDB: A Database of Antibacterial Peptides

Συγγραφείς: Zhou, X., Liu, G., Han, C., Lv, J.

Πηγή: IEEE Transactions on Computational Biology and Bioinformatics IEEE Trans. Comput. Biol. Bioinform. Computational Biology and Bioinformatics, IEEE Transactions on. 22(5):2300-2306 Jan, 2025

LightNobel: Improving Sequence Length Limitation in Protein Structure Prediction Model via Adaptive Activation Quantization

Συγγραφείς: Han, Seunghee, Choi, Soongyu, Kim, Joo-Young

Πηγή: Proceedings of the 52nd Annual International Symposium on Computer Architecture. :1940-1955

Διαθεσιμότητα: http://dl.acm.org/doi/10.1145/3695053.3731006

Structural Variability of Pfam Domains Based on Alphafold2 Predictions

Συγγραφείς: Poretsky, Elly, Andorf, Carson M, Sen, Taner Z

Πηγή: Proteins Structure Function and Bioinformatics. 93(12)

Θεματικοί όροι: 3101 Biochemistry and Cell Biology (for-2020), 3102 Bioinformatics and Computational Biology (for-2020), 31 Biological Sciences (for-2020), 1.1 Normal biological development and functioning (hrcs-rac), Generic health relevance (hrcs-hc), Databases, Protein (mesh), Protein Domains (mesh), Humans (mesh), Computational Biology (mesh), Proteins (mesh), Models, Molecular (mesh), Proteome (mesh), Amino Acid Sequence (mesh), Software (mesh), Protein Structure, Secondary (mesh), Protein Folding (mesh), Animals (mesh), Sequence Analysis, Protein (mesh), AlphaFold2, Pfam, protein functional prediction, protein structure prediction, protein tertiary structure prediction, Animals (mesh), Humans (mesh), Proteins (mesh), Proteome (mesh), Sequence Analysis, Protein (mesh), Computational Biology (mesh), Amino Acid Sequence (mesh), Protein Structure, Secondary (mesh), Protein Folding (mesh), Models, Molecular (mesh), Software (mesh), Databases, Protein (mesh), Protein Domains (mesh), AlphaFold2, Pfam, protein functional prediction, protein structure prediction, protein tertiary structure prediction, Databases, Protein (mesh), Protein Domains (mesh), Humans (mesh), Computational Biology (mesh), Proteins (mesh), Models, Molecular (mesh), Proteome (mesh), Amino Acid Sequence (mesh), Software (mesh), Protein Structure, Secondary (mesh), Protein Folding (mesh), Animals (mesh), Sequence Analysis, Protein (mesh), 01 Mathematical Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix), 31 Biological sciences (for-2020), 49 Mathematical sciences (for-2020)

Περιγραφή αρχείου: application/pdf

Σύνδεσμος πρόσβασης: https://escholarship.org/uc/item/4ds3g6xj
https://escholarship.org/content/qt4ds3g6xj/qt4ds3g6xj.pdf

A Review on AI-Driven Prediction and Visualization of Kinase Inhibitor Binding Landscapes

Συγγραφείς: Jayasundara, M. A. S. D., Nawarathna, R. D.

Πηγή: 2025 5th International Conference on Advanced Research in Computing (ICARC) Advanced Research in Computing (ICARC), 2025 5th International Conference on. :1-6 Feb, 2025

Relation: 2025 5th International Conference on Advanced Research in Computing (ICARC)

MatrixFold: Unleashing Manycore CPUs with Outer-Product Units for Mixed-Precision AlphaFold Inference

Συγγραφείς: Du, Shaokang^Aff12, Yang, Hailong^Aff12, Lu, Tao^Aff12, You, Xin^Aff12, Zhou, Baojian^Aff13, Qian, Depei^Aff12

Συνεισφορές: Goos, Gerhard, Founding Editor^Aff1, Hartmanis, Juris, Founding Editor^Aff2, Bertino, Elisa, Series Editor^Aff3, Gao, Wen, Series Editor^Aff4, Steffen, Bernhard, Series Editor^Aff5, Yung, Moti, Series Editor^Aff6, Torquati, Massimo, editor^Aff7, Mencagli, Gabriele, editor^Aff8, Cardellini, Valeria, editor^Aff9, Antelmi, Alessia, editor^Aff10, Medić, Doriana, editor^Aff11

Πηγή: Euro-Par 2026: Parallel Processing : 32nd European Conference on Parallel and Distributed Processing, Pisa, Italy, August 24–28, 2026, Proceedings, Part II. 16782:423-436

A Structural Proteomics Exploration of Formation of Cohesin Complex to Help Unearthing Chromosomal Activities

Συγγραφείς: Gupta, Vikas, Lahiri, Tapobrata, Mondal, Rajkrishna, Mandal, Malay, Tripathi, Asmita, Chaurasiya, Deepak

Πηγή: 2024 IEEE 8th International Conference on Information and Communication Technology (CICT) Information and Communication Technology (CICT), 2024 IEEE 8th International Conference on. :1-6 Dec, 2024

Relation: 2024 IEEE 8th International Conference on Information and Communication Technology (CICT)

Predicting the Mechanism of Indirubin in the Treatment of Chronic Ulcerative Colitis Based on Public Database Analysis

Συγγραφείς: Yang, Ti, Zhang, Yue, Li, Shan, Sun, JuanJuan, Wang, Ying, Deng, Shengqiong

Πηγή: 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) Bioinformatics and Biomedicine (BIBM), 2024 IEEE International Conference on. :4771-4776 Dec, 2024

Relation: 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

Enhancing the identification of malonylation sites using AlphaFold2 and ensemble learning

Συγγραφείς: Xu, Linlin^{Aff1, Aff2, Aff3}, Qian, Yuting^Aff4, Yang, Jiayi^Aff1, Xu, Xiaowei^Aff1, Li, Zhiqiang^Aff1, Wang, Yanhan^Aff1, Lv, Enhui^Aff1, Kang, Xingxing^Aff1, Zhang, Hongwei^Aff1, Lu, Yaping^Aff5, Wang, Fei^Aff6, Liu, Xin^{Aff1, IDs11030025113576_cor1}

Πηγή: Molecular Diversity. 30(3):4215-4231

Unveiling Putative Functions of Burkholderia pseudomallei K96243 Hypothetical Proteins Via High-Throughput Characterization of Structural Similarities

Συγγραφείς: Mohamed Husain, Syed Abuthakir^Aff1, Lam, Su Datt^{Aff2, Aff3, Aff4, Aff5}, Firdaus-Raih, Mohd^{Aff1, Aff2, Aff4, Aff5}, Nathan, Sheila^Aff6, Nor Muhammad, Nor Azlan^{Aff1, Aff4, Aff5}, Ng, Chyan Leong^{Aff1, Aff5, Aff7, IDs12539025007926_cor1}

Πηγή: Interdisciplinary Sciences: Computational Life Sciences. 18(2):534-550

Harnessing epistatic architecture to improve genomic selection accuracy for soybean pod number

Συγγραφείς: Dong, Lina^Aff1, Zhang, Ruixin^Aff1, Jiang, Huixin^Aff1, Zhu, Xiaoyue^Aff1, Wang, Meng^Aff1, Guo, Changhong^Aff1, Shu, Yongjun^{Aff1, IDs11032026017113_cor1}

Πηγή: Molecular Breeding: New Strategies in Plant Improvement. 46(9)

Protein Function Prediction Based on the Pretrained Language Model ESM2 and Graph Convolutional Networks

Συγγραφείς: Hou, Lijuan, Qin, Hanyan, Zhang, Xiankun, Zhang, Yiying

Πηγή: 2024 IEEE International Symposium on Parallel and Distributed Processing with Applications (ISPA) ISPA Parallel and Distributed Processing with Applications (ISPA), 2024 IEEE International Symposium on. :1776-1781 Oct, 2024

Relation: 2024 IEEE International Symposium on Parallel and Distributed Processing with Applications (ISPA)

Generative AI's Broad Spectrum of Applications

Πηγή: Generative AI. Apr 04, 2025