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MoLPC2: improved prediction of large protein complex structures and stoichiometry using Monte Carlo Tree Search and AlphaFold2.
- Published in:
- Bioinformatics, 2024, v. 40, n. 6, p. 1, doi. 10.1093/bioinformatics/btae329
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- Article
Deep learning insights into the architecture of the mammalian egg-sperm fusion synapse.
- Published in:
- eLife, 2024, p. 1, doi. 10.7554/eLife.93131
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- Publication type:
- Article
M-Ionic: prediction of metal-ion-binding sites from sequence using residue embeddings.
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- Bioinformatics, 2024, v. 40, n. 1, p. 1, doi. 10.1093/bioinformatics/btad782
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- Publication type:
- Article
Peptide binder design with inverse folding and protein structure prediction.
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- Communications Chemistry, 2023, v. 6, n. 1, p. 1, doi. 10.1038/s42004-023-01029-7
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- Publication type:
- Article
Evaluation of AlphaFold-Multimer prediction on multi-chain protein complexes.
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- Bioinformatics, 2023, v. 39, n. 7, p. 1, doi. 10.1093/bioinformatics/btad424
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- Publication type:
- Article
Insights into the structure-function relationship of the NorQ/NorD chaperones from Paracoccus denitrificans reveal shared principles of interacting MoxR AAA+/VWA domain proteins.
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- BMC Biology, 2023, v. 21, n. 1, p. 1, doi. 10.1186/s12915-023-01546-w
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- Publication type:
- Article
AFTGAN: prediction of multi-type PPI based on attention free transformer and graph attention network.
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- Bioinformatics, 2023, v. 39, n. 2, p. 1, doi. 10.1093/bioinformatics/btad052
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- Publication type:
- Article
Predicting the structure of large protein complexes using AlphaFold and Monte Carlo tree search.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-33729-4
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- Article
Scoring of protein–protein docking models utilizing predicted interface residues.
- Published in:
- Proteins, 2022, v. 90, n. 7, p. 1493, doi. 10.1002/prot.26330
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- Publication type:
- Article
Complementing machine learning‐based structure predictions with native mass spectrometry.
- Published in:
- Protein Science: A Publication of the Protein Society, 2022, v. 31, n. 6, p. 1, doi. 10.1002/pro.4333
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- Publication type:
- Article
Improved prediction of protein-protein interactions using AlphaFold2.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-28865-w
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- Publication type:
- Article
Improved prediction of protein-protein interactions using AlphaFold2.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-28865-w
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- Publication type:
- Article
Author Correction: Improved prediction of protein-protein interactions using AlphaFold2.
- Published in:
- 2022
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- Publication type:
- Correction Notice
Improved prediction of protein-protein interactions using AlphaFold2.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-28865-w
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- Publication type:
- Article
relationship between ageing and changes in the human blood and brain methylomes.
- Published in:
- NAR Genomics & Bioinformatics, 2022, v. 4, n. 1, p. 1, doi. 10.1093/nargab/lqac001
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- Publication type:
- Article
Limits and potential of combined folding and docking.
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- Bioinformatics, 2022, v. 38, n. 4, p. 954, doi. 10.1093/bioinformatics/btab760
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- Publication type:
- Article
DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation.
- Published in:
- Nucleic Acids Research, 2022, v. 50, n. D1, p. D480, doi. 10.1093/nar/gkab1082
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- Publication type:
- Article
Protein sequence‐to‐structure learning: Is this the end(‐to‐end revolution)?
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- Proteins, 2021, v. 89, n. 12, p. 1770, doi. 10.1002/prot.26235
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- Publication type:
- Article
The evolutionary history of topological variations in the CPA/AT transporters.
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- PLoS Computational Biology, 2021, v. 17, n. 8, p. 1, doi. 10.1371/journal.pcbi.1009278
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- Publication type:
- Article
GCSENet: A GCN, CNN and SENet ensemble model for microRNA-disease association prediction.
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- PLoS Computational Biology, 2021, v. 17, n. 6, p. 1, doi. 10.1371/journal.pcbi.1009048
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- Publication type:
- Article
Accurate contact-based modelling of repeat proteins predicts the structure of new repeats protein families.
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- PLoS Computational Biology, 2021, v. 17, n. 4, p. 1, doi. 10.1371/journal.pcbi.1008798
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- Publication type:
- Article
GraphQA: protein model quality assessment using graph convolutional networks.
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- Bioinformatics, 2021, v. 37, n. 3, p. 360, doi. 10.1093/bioinformatics/btaa714
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- Publication type:
- Article
Estimating the impact of mobility patterns on COVID-19 infection rates in 11 European countries.
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- PeerJ, 2020, p. 1, doi. 10.7717/peerj.9879
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- Publication type:
- Article
Using Micro- and Macro-Level Network Metrics Unveils Top Communicative Gene Modules in Psoriasis.
- Published in:
- Genes, 2020, v. 11, n. 8, p. 914, doi. 10.3390/genes11080914
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- Publication type:
- Article
Protein Contact Map Prediction Based on ResNet and DenseNet.
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- BioMed Research International, 2020, p. 1, doi. 10.1155/2020/7584968
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- Publication type:
- Article
A New Census of Protein Tandem Repeats and Their Relationship with Intrinsic Disorder.
- Published in:
- Genes, 2020, v. 11, n. 4, p. 1, doi. 10.3390/genes11040407
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- Publication type:
- Article
DisProt: intrinsic protein disorder annotation in 2020.
- Published in:
- Nucleic Acids Research, 2020, v. 48, n. D1, p. D269, doi. 10.1093/nar/gkz975
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- Publication type:
- Article
Estimation of model accuracy in CASP13.
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- Proteins, 2019, v. 87, n. 12, p. 1361, doi. 10.1002/prot.25767
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- Publication type:
- Article
A Bi-LSTM Based Ensemble Algorithm for Prediction of Protein Secondary Structure.
- Published in:
- Applied Sciences (2076-3417), 2019, v. 9, n. 17, p. 3538, doi. 10.3390/app9173538
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- Publication type:
- Article
PconsC4: fast, accurate and hassle-free contact predictions.
- Published in:
- Bioinformatics, 2019, v. 35, n. 15, p. 2677, doi. 10.1093/bioinformatics/bty1036
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- Publication type:
- Article
Why do eukaryotic proteins contain more intrinsically disordered regions?
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- PLoS Computational Biology, 2019, v. 15, n. 7, p. 1, doi. 10.1371/journal.pcbi.1007186
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- Article
Ten simple rules on how to create open access and reproducible molecular simulations of biological systems.
- Published in:
- 2019
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- Publication type:
- Editorial
Improved protein model quality assessments by changing the target function.
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- Proteins, 2018, v. 86, n. 6, p. 654, doi. 10.1002/prot.25492
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- Article
Methods for estimation of model accuracy in CASP12.
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- Proteins, 2018, v. 86, n. 1, p. 361, doi. 10.1002/prot.25395
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- Publication type:
- Article
Predicting accurate contacts in thousands of Pfam domain families using PconsC3.
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- Bioinformatics, 2017, v. 33, n. 18, p. 2859, doi. 10.1093/bioinformatics/btx332
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- Publication type:
- Article
Large-scale structure prediction by improved contact predictions and model quality assessment.
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- Bioinformatics, 2017, v. 33, n. 14, p. i23, doi. 10.1093/bioinformatics/btx239
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- Publication type:
- Article
GWAR: robust analysis and meta-analysis of genome-wide association studies.
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- Bioinformatics, 2017, v. 33, n. 10, p. 1521, doi. 10.1093/bioinformatics/btx008
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- Publication type:
- Article
ProQ3D: improved model quality assessments using deep learning.
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- Bioinformatics, 2017, v. 33, n. 10, p. 1578, doi. 10.1093/bioinformatics/btw819
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- Publication type:
- Article
High GC content causes orphan proteins to be intrinsically disordered.
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- PLoS Computational Biology, 2017, v. 13, n. 3, p. 1, doi. 10.1371/journal.pcbi.1005375
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- Publication type:
- Article
PRED-TMBB2: improved topology prediction and detection of beta-barrel outer membrane proteins.
- Published in:
- Bioinformatics, 2016, v. 32, n. 17, p. i665, doi. 10.1093/bioinformatics/btw444
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- Publication type:
- Article
Inclusion of dyad-repeat pattern improves topology prediction of transmembrane β-barrel proteins.
- Published in:
- Bioinformatics, 2016, v. 32, n. 10, p. 1571, doi. 10.1093/bioinformatics/btw025
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- Publication type:
- Article
Improved topology prediction using the terminal hydrophobic helices rule.
- Published in:
- Bioinformatics, 2016, v. 32, n. 8, p. 1158, doi. 10.1093/bioinformatics/btv709
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- Publication type:
- Article
The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides.
- Published in:
- Nucleic Acids Research, 2015, v. 43, n. W1, p. W401, doi. 10.1093/nar/gkv485
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- Publication type:
- Article
Marginally hydrophobic transmembrane α-helices shaping membrane protein folding.
- Published in:
- Protein Science: A Publication of the Protein Society, 2015, v. 24, n. 7, p. 1057, doi. 10.1002/pro.2698
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- Publication type:
- Article
Improved Contact Predictions Using the Recognition of Protein Like Contact Patterns.
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- PLoS Computational Biology, 2014, v. 10, n. 11, p. 1, doi. 10.1371/journal.pcbi.1003889
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- Publication type:
- Article
PconsFold: improved contact predictions improve protein models.
- Published in:
- 2014
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- Publication type:
- Product Review
Why is the biological hydrophobicity scale more accurate than earlier experimental hydrophobicity scales?
- Published in:
- Proteins, 2014, v. 82, n. 9, p. 2190, doi. 10.1002/prot.24582
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- Publication type:
- Article
Folding of Aquaporin 1: Multiple evidence that helix 3 can shift out of the membrane core.
- Published in:
- Protein Science: A Publication of the Protein Society, 2014, v. 23, n. 7, p. 981, doi. 10.1002/pro.2483
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- Publication type:
- Article
Protein Expansion Is Primarily due to Indels in Intrinsically Disordered Regions.
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- Molecular Biology & Evolution, 2013, v. 30, n. 12, p. 2645, doi. 10.1093/molbev/mst157
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- Publication type:
- Article
Membrane protein shaving with thermolysin can be used to evaluate topology predictors.
- Published in:
- Proteomics, 2013, v. 13, n. 9, p. 1467, doi. 10.1002/pmic.201200517
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- Publication type:
- Article