PRED-CLASS: Cascading neural networks for generalized protein classification and genome-wide applications

Proteins: Structure, Function and Genetics

Volumn 44, Issue 3, 2001, Pages 361-369

  Pasquier, Claude ^a   Promponas, Vassilis J ^a   Hamodrakas, Stavros J ^a  

^a UNIVERSITY OF ATHENS   (Greece)

Author keywords

Artificial neural network; Genome annotation; Genome wide analysis; Protein classification; Transmembrane, fibrous, globular, and mixed proteins

Indexed keywords

PROTEOME;

ALGORITHM; AMINO ACID SEQUENCE; ARTICLE; ARTIFICIAL NEURAL NETWORK; GENOME; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN;

COMPUTATIONAL BIOLOGY; DATABASES, FACTUAL; EVALUATION STUDIES; GENOME; NEURAL NETWORKS (COMPUTER); PROTEIN STRUCTURE, TERTIARY; PROTEINS; SOFTWARE;

EID: 0035882573     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.1101     Document Type: Article

References (35)

1. Protein structure: What is it possible to predict now?
2. Structure classification-based assessment of CASP3 predictions for the fold recognition targets
3. A brighter future for protein structure prediction
4. Prediction of protein secondary structure at 80% accuracy
5. Protein secondary structure prediction based on position-specific scoring matrices
6. Better 1D predictions by experts with machines
7. Ab initio protein folding simulations with genetic algorithms: Simulation on the complete sequence of small proteins
8. Distant homology recognition using structural classification of proteins
9. Fold assignments for aminoacid sequences of the CASP2 experiment
10. Evaluation of comparative protein structure modeling by MODELLER 3
11. PHD - An automatic mail server for protein secondary structure prediction
12. HTP: A neural network-based method for predicting the topology of helical transmembrane domains in proteins
13. Role of evolutionary information in predicting the disulfide-bonding state of cysteine in proteins
14. 'TransMem': A neural network implemented in Excel spreadsheets for predicting transmembrane domains of proteins
15. An hierarchical neural network: System for the classification of transmembrane proteins
16. A novel method for predicting transmembrane segments in proteins based on a statistical analysis of the SwissProt database: The PRED-TMR algorithm
17. The genome sequence of Drosophila melanogaster
18. Finding families for genomic ORFans
19. The autosomal chorion locus of the medfly Ceratitis capitata. I. Conserved synteny, amplification and tissue specificity but sequence divergence and altered temporal regulation
20. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
21. A collection of well characterised integral membrane proteins
22. Automatic identification of secondary structure in globular proteins
23. SCOP: A structural classification of proteins database for the investigation of sequences and structures
24. The ASTRAL compendium for protein structure and sequence analysis
25. Amino acid periodicities and their structural implications for the evolutionarily conservative central domain of some silkmoth chorion proteins
26. A web server to locate periodicities in a sequence
27. Enlarged representative set of protein structures
28. Proteome analysis: Application of InterPro and CluSTr for the functional classification of proteins in whole genomes
29. Genome-wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms
30. Do more complex organisms have a greater proportion of membrane proteins in their genomes?
31. Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites
32. β-barrel membrane proteins