The Effect of Relational Background Knowledge on Learning of Protein Three-Dimensional Fold Signatures

Untitled work

(1992) · Cited by 23,431 · see citing works

The structure of proteins: Two hydrogen-bonded helical configurations of the polypeptide chain

Pauling, L. C., Corey, R. B., & Branson, H. R. (1951) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.37.4.205 · Cited by 2,919 · see citing works

Introduction to Protein Structure

Brändén, C.-I., & Tooze, J. (2012) · Garland Science eBooks · doi:10.1201/9781136969898 · Cited by 2,398 · see citing works

Protein Folding

Creighton, T. E. (1992) · Cited by 1,572 · see citing works

Inductive Logic Programming: Theory and methods

Muggleton, S., & de Raedt, L. (1994) · The Journal of Logic Programming · doi:10.1016/0743-1066(94)90035-3 · Cited by 1,537 · see citing works

Enhanced genome annotation using structural profiles in the program 3D-PSSM 1 1Edited by J. Thornton

Kelley, L. A., MacCallum, R. M., & Sternberg, M. J. E. (2000) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.3741 · Cited by 1,462 · see citing works

Prediction of the occurrence of the ADP-binding βαβ-fold in proteins, using an amino acid sequence fingerprint

Wierenga, R. K., Terpstra, P., & Hol, W. G. J. (1986) · Journal of Molecular Biology · doi:10.1016/0022-2836(86)90409-2 · Cited by 1,159 · see citing works

PROMOTIF—A program to identify and analyze structural motifs in proteins

Hutchinson, E. G., & Thornton, J. M. (1996) · Protein Science · doi:10.1002/pro.5560050204 · Cited by 1,054 · see citing works

Introduction to Protein Structure

Banaszak, L. J. (2000) · Elsevier eBooks · doi:10.1016/b978-012077700-6/50001-8 · Cited by 1,054 · see citing works

Protein superfamilles and domain superfolds

Orengo, C. A., Jones, D. T., & Thornton, J. M. (1994) · Nature · doi:10.1038/372631a0 · Cited by 786 · see citing works

Determinants of a protein fold

Bashford, D., Chothia, C., & Lesk, A. M. (1987) · Journal of Molecular Biology · doi:10.1016/0022-2836(87)90521-3 · Cited by 496 · see citing works

Theories for mutagenicity: a study in first-order and feature-based induction

Srinivasan, A., Muggleton, S., Sternberg, M. J. E., & King, R. D. (1996) · Artificial Intelligence · doi:10.1016/0004-3702(95)00122-0 · Cited by 298 · see citing works

Protein secondary structure prediction using logic-based machine learning

Muggleton, S., King, R. D., & Stenberg, M. (1992) · Protein Engineering Design and Selection · doi:10.1093/protein/5.7.647 · Cited by 246 · see citing works

Structure-activity relationships derived by machine learning: the use of atoms and their bond connectivities to predict mutagenicity by inductive logic programming.

King, R. D., Muggleton, S., Srinivasan, A., & Sternberg, M. J. E. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.1.438 · Cited by 225 · see citing works

Drug design by machine learning: the use of inductive logic programming to model the structure-activity relationships of trimethoprim analogues binding to dihydrofolate reductase.

King, R. D., Muggleton, S., Lewis, R. A., & Sternberg, M. J. (1992) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.89.23.11322 · Cited by 219 · see citing works

Protein folding

Kuntz, I. D. (1972) · Journal of the American Chemical Society · doi:10.1021/ja00766a060 · Cited by 183 · see citing works

Structural comparisons among the short-chain helical cytokines

Rozwarski, D. A., Gronenborn, A. M., Clore, G. M., Bazán, J. F., Bohm, A., Wlodawer, A., Hatada, M. H., & Karplus, P. A. (1994) · Structure · doi:10.1016/s0969-2126(00)00018-6 · Cited by 164 · see citing works

Pharmacophore Discovery Using the Inductive Logic Programming System PROGOL

Finn, P., Muggleton, S., Page, D., & Srinivasan, A. (1998) · Machine Learning · doi:10.1023/a:1007460424845 · Cited by 138 · see citing works

Shining a light on structural genomics

Kim, S. H. (1998) · Nature Structural Biology · doi:10.1038/1334 · Cited by 120 · see citing works

Carcinogenesis predictions using ILP

Srinivasan, A., King, R. D., Muggleton, S., & Sternberg, M. J. E. (1997) · Lecture notes in computer science · doi:10.1007/3540635149_56 · Cited by 116 · see citing works

[37] Understanding protein structure: Using scop for fold interpretation

Brenner, S. E., Chothia, C., Hubbard, T., & Murzin, A. G. (1996) · Methods in enzymology on CD-ROM/Methods in enzymology · doi:10.1016/s0076-6879(96)66039-x · Cited by 100 · see citing works

The Computer-Aided Discovery of Scientific Knowledge

Pat Langley, B. (1998) · Lecture notes in computer science · doi:10.1007/3-540-49292-5_3 · Cited by 58 · see citing works

Application of machine learning to structural molecular biology

Sternberg, M. J. E., King, R. D., Lewis, R. A., & Muggleton, S. (1994) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.1994.0075 · Cited by 36 · see citing works

Protein secondary structure prediction using logic-based machine learning

Muggleton, S., King, R. D., & Sternberg, M. J. E. (1993) · Protein Engineering Design and Selection · doi:10.1093/protein/6.5.549 · Cited by 23 · see citing works

Theories for mutagenicity: a study in first-order and feature-based induction

Srinivasan, A., Muggieton, S. H., Sternberg, M. J. E., & King, R. D. (1996) · Artificial Intelligence · doi:10.1016/0004-3702(96)81369-5 · Cited by 18 · see citing works

Three-dimensional protein structure prediction: Methods and computational strategies

Dorn, M., Silva, M. B. E., Buriol, L. S., & Lamb, L. C. (2014) · Computational Biology and Chemistry · doi:10.1016/j.compbiolchem.2014.10.001 · Cited by 210 · see citing works

Inductive Logic Programming At 30: A New Introduction

Cropper, A., & Dumančić, S. (2022) · Journal of Artificial Intelligence Research · doi:10.1613/jair.1.13507 · Cited by 83 · see citing works

APL: An angle probability list to improve knowledge-based metaheuristics for the three-dimensional protein structure prediction

Borguesan, B., Silva, M. B. E., Grisci, B. I., Inostroza-Ponta, M., & Dorn, M. (2015) · Computational Biology and Chemistry · doi:10.1016/j.compbiolchem.2015.08.006 · Cited by 44 · see citing works

Automated discovery of structural signatures of protein fold and function11Edited by J. Thornton

Turcotte, M., Muggleton, S., & Sternberg, M. J. E. (2001) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.4414 · Cited by 37 · see citing works

Kernels on Prolog Proof Trees:Statistical Learning in the ILP Setting

Passerini, A., Frasconi, P., & Raedt, L. D. (2006) · DROPS (Schloss Dagstuhl – Leibniz Center for Informatics) · doi:10.4230/dagsemproc.05051.8 · Cited by 35 · see citing works

Data Mining for Financial Applications

Kovalerchuk, B., & Vityaev, E. E. (2009) · Springer eBooks · doi:10.1007/978-0-387-09823-4_60 · Cited by 28 · see citing works

An inductive logic programming approach to statistical relational learning

Kristian Kersting, B. (2006) · Cited by 22 · see citing works

Relational Data Mining Applications: An Overview

Džeroski, S. (2001) · Springer eBooks · doi:10.1007/978-3-662-04599-2_14 · Cited by 20 · see citing works

ALLPAD: approximate learning of logic programs with annotated disjunctions

Riguzzi, F. (2007) · Machine Learning · doi:10.1007/s10994-007-5032-8 · Cited by 19 · see citing works

Relational Sequence Learning

Kristian Kersting, B., Raedt, L. D., Gutmann, B., Karwath, A., & Landwehr, N. (2008) · Lecture notes in computer science · doi:10.1007/978-3-540-78652-8_2 · Cited by 19 · see citing works

Data Mining for Financial Applications

Kovalerchuk, B., & Vityaev, E. E. (2006) · Springer eBooks · doi:10.1007/0-387-25465-x_57 · Cited by 17 · see citing works

Learning with Kernels and Logical Representations

Frasconi, P. (2008) · Springer eBooks · doi:10.1007/978-3-540-78469-2_1 · Cited by 9 · see citing works

Generating protein three-dimensional fold signatures using inductive logic programming

Turcotte, M., Muggleton, S., & Sternberg, M. J. E. (2001) · Computers & Chemistry · doi:10.1016/s0097-8485(01)00100-0 · Cited by 9 · see citing works

Learning with Kernels and Logical Representations

Frasconi, P., & Passerini, A. (2008) · Lecture notes in computer science · doi:10.1007/978-3-540-78652-8_3 · Cited by 8 · see citing works

Annotation concept synthesis and enrichment analysis: a logic-based approach to the interpretation of high-throughput experiments

Jiline, M., Matwin, S., & Turcotte, M. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr337 · Cited by 7 · see citing works

Using Previous Experience for Learning Planning Control Knowledge.

Fernández, S., Aler, R., & Borrajo, D. (2004) · Cited by 6 · see citing works

Wavelet Packet Bases for Speaker Recognition

Siafarikas, M., Ganchev, T. D., & Fakotakis, N. (2007) · IEEE International Conference on Tools with Artificial Intelligence (ICTAI) · doi:10.1109/ictai.2007.97 · Cited by 5 · see citing works

ILP Meets Knowledge Engineering: A Case Study

Lisi, F. A., & Esposito, F. (2005) · Lecture notes in computer science · doi:10.1007/11536314_13 · Cited by 4 · see citing works

Multi-class Prediction Using Stochastic Logic Programs

Chen, J., Kelley, L. A., Muggleton, S., & Sternberg, M. J. E. (2007) · Lecture notes in computer science · doi:10.1007/978-3-540-73847-3_17 · Cited by 4 · see citing works

Reasoning with OWL-DL in Inductive Logic Programming.

Lisi, F. A. (2007) · Cited by 3 · see citing works

Protein Fold Discovery Using Stochastic Logic Programs

Chen, J., Kelley, L. A., Muggleton, S., & Sternberg, M. J. E. (2008) · Lecture notes in computer science · doi:10.1007/978-3-540-78652-8_9 · Cited by 3 · see citing works

Towards Discovering Structural Signatures of Protein Folds based on Logical Hidden Markov Models (Extended abstract)

Kristian Kersting, B., Raiko, T., Kramer, S. J., & Raedt, L. D. (2002) · Cited by 3 · see citing works

ALLPAD: Approximate Learning of Logic Programs with Annotated Disjunctions

Riguzzi, F. (2007) · Lecture notes in computer science · doi:10.1007/978-3-540-73847-3_11 · Cited by 3 · see citing works

Logic and the Automatic Acquisition of Scientific Knowledge: An Application to Functional Genomics

King, R. D., Karwath, A., Clare, A. J., & Dehaspe, L. (2007) · Lecture notes in computer science · doi:10.1007/978-3-540-73920-3_13 · Cited by 2 · see citing works

Aprendizaje Automatico de Programas Logico-Funcionales

Ferri, C., Hernandez, J., & Ramírez-Quintana, M. J. (2006) · INTELIGENCIA ARTIFICIAL · doi:10.4114/ia.v4i11.688 · Cited by 2 · see citing works

Induction as a Search Procedure

Konstantopoulos, S., Camacho, R. C., Fonseca, N. A., & Costa, V. S. (2008) · IGI Global eBooks · doi:10.4018/978-1-59904-705-8.ch007 · Cited by 1 · see citing works

Supervised learning with implicit preferences and constraints

Gomes, C. P., & Guo, Y. (2010) · eCommons (Cornell University)

ModuleInducer: Automating the Extraction of Knowledge from Biological Sequences

Korol, O. (2011) · Library and Archives Canada (Government of Canada) · doi:10.20381/ruor-4947

Clustering Relational Data: A Transactional Approach

Costa, G., Cuzzocrea, A., Manco, G., & Ortale, R. (2009) · IEEE International Conference on Tools with Artificial Intelligence (ICTAI) · doi:10.1109/ictai.2009.19

Bayesian Inference in Nonlinear and Relational Latent Variable Models

Raiko, T. (2006) · Aaltodoc (Aalto University)

Use of Inductive Logic Programming to Learn Principles of Protein Structure.

Turcotte, M., Muggleton, S., & Sternberg, M. J. E. (2000) · Cited by 2 · see citing works

Generating protein three-dimensional fold signatures using inductive logic programming

Turcotte, M., Muggleton, S., & Sternberg, M. J. E. (2001) · Computers & Chemistry · doi:10.1016/s0097-8485(01)00100-0 · Cited by 9 · see citing works

Application of inductive logic programming to discover rules governing the three-dimensional topology of protein structure

Turcotte, M., Muggleton, S., & Sternberg, M. J. E. (1998) · Lecture notes in computer science · doi:10.1007/bfb0027310 · Cited by 29 · see citing works

Applications of inductive logic programming

Bratko, I., & King, R. D. (1994) · ACM SIGART Bulletin · doi:10.1145/181668.181678 · Cited by 19 · see citing works

ILP Characterization of 3D Protein-Binding Sites and FCA-Based Interpretation

Bresso, E., Grisoni, R., Devignes, M., Napoli, A., & Smaïl‐Tabbone, M. (2013) · Communications in computer and information science · doi:10.1007/978-3-642-54105-6_6