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Publication search results
found 702 matches
- 2024
- Mustafa N. Abbas, Bara'a Ali Attea, David Broneske, Gunter Saake:
An Evolutionary Algorithm With Heuristic Operator for Detecting Protein Complexes in Protein Interaction Networks With Negative Controls. IEEE Access 12: 28873-28897 (2024) - David Ferreiro, Catarina Branco, Miguel Arenas:
Selection among site-dependent structurally constrained substitution models of protein evolution by approximate Bayesian computation. Bioinform. 40(3) (2024) - Honglei Cheng, Gai-Ge Wang, Liyan Chen, Rui Wang:
A dual-population multi-objective evolutionary algorithm driven by generative adversarial networks for benchmarking and protein-peptide docking. Comput. Biol. Medicine 168: 107727 (2024) - John Anders, Peter F. Stadler:
RNAcode_Web - Convenient identification of evolutionary conserved protein coding regions. J. Integr. Bioinform. 20(3) (2024) - Jiahao Qiu, Hui Yuan, Jinghong Zhang, Wentao Chen, Huazheng Wang, Mengdi Wang:
Tree Search-Based Evolutionary Bandits for Protein Sequence Optimization. AAAI 2024: 14686-14694 - Jiahao Qiu, Hui Yuan, Jinghong Zhang, Wentao Chen, Huazheng Wang, Mengdi Wang:
Tree Search-Based Evolutionary Bandits for Protein Sequence Optimization. CoRR abs/2401.06173 (2024) - Zhiqiang Zhong, Davide Mottin:
EvolMPNN: Predicting Mutational Effect on Homologous Proteins by Evolution Encoding. CoRR abs/2402.13418 (2024) - 2023
- Mathilde Carpentier:
La structure des protéines et son évolution. (Protein Structure and Evolution). Sorbonne University, Paris, France, 2023 - Shahid Akbar, Hashim Ali, Ashfaq Ahmad, Mahidur R. Sarker, Aamir Saeed, Ely Salwana, Sarah Gul, Ahmad Khan, Farman Ali:
Prediction of Amyloid Proteins Using Embedded Evolutionary & Ensemble Feature Selection Based Descriptors With eXtreme Gradient Boosting Model. IEEE Access 11: 39024-39036 (2023) - Mu Zhang, Fengqiang Wan, Taigang Liu:
DrugFinder: Druggable Protein Identification Model Based on Pre-Trained Models and Evolutionary Information. Algorithms 16(6): 263 (2023) - Yu Zhang, Shangce Gao, Pengxing Cai, Zhenyu Lei, Yirui Wang:
Information entropy-based differential evolution with extremely randomized trees and LightGBM for protein structural class prediction. Appl. Soft Comput. 136: 110064 (2023) - Ruyun Hu, Lihao Fu, Yongcan Chen, Junyu Chen, Yu Qiao, Tong Si:
Protein engineering via Bayesian optimization-guided evolutionary algorithm and robotic experiments. Briefings Bioinform. 24(1) (2023) - Sumeet Patiyal, Anjali Dhall, Khushboo Bajaj, Harshita Sahu, Gajendra P. S. Raghava:
Prediction of RNA-interacting residues in a protein using CNN and evolutionary profile. Briefings Bioinform. 24(1) (2023) - Zhenling Peng, Zixia Li, Qiaozhen Meng, Bi Zhao, Lukasz A. Kurgan:
CLIP: accurate prediction of disordered linear interacting peptides from protein sequences using co-evolutionary information. Briefings Bioinform. 24(1) (2023) - Correction to: mCNN-ETC: identifying electron transporters and their functional families by using multiple windows scanning techniques in convolutional neural networks with evolutionary information of protein sequences. Briefings Bioinform. 24(2) (2023)
- Shengming Zhou, Yetong Zhou, Tian Liu, Jia Zheng, Cangzhi Jia:
PredLLPS_PSSM: a novel predictor for liquid-liquid protein separation identification based on evolutionary information and a deep neural network. Briefings Bioinform. 24(5) (2023) - Ugo Bastolla, David Abia, Oscar Piette:
PC_ali: a tool for improved multiple alignments and evolutionary inference based on a hybrid protein sequence and structure similarity score. Bioinform. 39(10) (2023) - Yigit Koray Babal, Ekin Sonmez, Isil Aksan Kurnaz:
Nervous system-related gene regulatory networks and functional evolution of ETS proteins across species. Biosyst. 227-228: 104891 (2023) - Massimo Di Giulio:
The absence of the evolutionary state of the Prokaryote would imply a polyphyletic origin of proteins and that LUCA, the ancestor of bacteria and that of archaea were progenotes. Biosyst. 233: 105014 (2023) - Yu Chen, Lixin Gao, Tianjiao Zhang:
Stack-VTP: prediction of vesicle transport proteins based on stacked ensemble classifier and evolutionary information. BMC Bioinform. 24(1): 137 (2023) - Rafael Stubs Parpinelli, Mateus Boiani, André E. P. Dias:
A massively parallel speciation-based differential evolution algorithm applied to the 3D-AB protein structure prediction. Concurr. Comput. Pract. Exp. 35(17) (2023) - Song-Ho Chong, Sihyun Ham:
Evolutionary conservation of amino acids contributing to the protein folding transition state. J. Comput. Chem. 44(9): 1002-1009 (2023) - Adnan Khan, Jamal Uddin, Farman Ali, Harish Kumar, Wajdi Alghamdi, Aftab Ahmad:
AFP-SPTS: An Accurate Prediction of Antifreeze Proteins Using Sequential and Pseudo-Tri-Slicing Evolutionary Features with an Extremely Randomized Tree. J. Chem. Inf. Model. 63(3): 826-834 (2023) - Zezheng Yang, Nana Zhou, Xukai Jiang, Lushan Wang:
Loop Evolutionary Patterns Shape Catalytic Efficiency of TRI101/201 for Trichothecenes: Insights into Protein-Substrate Interactions. J. Chem. Inf. Model. 63(20): 6316-6331 (2023) - Patrick Emami, Aidan Perreault, Jeffrey N. Law, David Biagioni, Peter C. St. John:
Plug & play directed evolution of proteins with gradient-based discrete MCMC. Mach. Learn. Sci. Technol. 4(2): 25014 (2023) - Sameer D'Costa, Emily C. Hinds, Chase R. Freschlin, Hyebin Song, Philip A. Romero:
Inferring protein fitness landscapes from laboratory evolution experiments. PLoS Comput. Biol. 19(3) (2023) - Sean B. King, Mona Singh:
Primate protein-ligand interfaces exhibit significant conservation and unveil human-specific evolutionary drivers. PLoS Comput. Biol. 19(3) (2023) - Christoffer Norn, Ingemar André:
Atomistic simulation of protein evolution reveals sequence covariation and time-dependent fluctuations of site-specific substitution rates. PLoS Comput. Biol. 19(3) (2023) - Joeri van Strien, Felix Evers, Madhurya Lutikurti, Stijn L. Berendsen, Alejandro Garanto, Geert-Jan van Gemert, Alfredo Cabrera-Orefice, Richard J. Rodenburg, Ulrich Brandt, Taco W. A. Kooij, Martijn A. Huynen:
Comparative Clustering (CompaCt) of eukaryote complexomes identifies novel interactions and sheds light on protein complex evolution. PLoS Comput. Biol. 19(8) (2023) - Zhihua Du, Tianyou Huang, Vladimir N. Uversky, Jianqiang Li:
Predicting TF Proteins by Incorporating Evolution Information Through PSSM. IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 1319-1326 (2023)
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