References:
- Dana Boyd, Clark Schierle, and Jon Beckwith (1998)
How many membrane proteins are there?
Protein Sci. 7: 201-205
- Rita Casadio, Piero Fariselli, Giacomo Finocchiaro, and Pier Luigi Martelli (2003)
Fishing new proteins in the twilight zone of genomes: the test case of outer membrane proteins in Escherichia coli K12, Escherichia coli O157:H7, and other Gram-negative bacteria
Protein Sci. 12: 1158-1168
- Chien Peter Chen and Burkhard Rost (2002)
State-of-the-art in membrane protein prediction
Applied Bioinformatics 1: 21-35
Comparison of prediction algorithms
- Chien Peter Chen, Andrew Kernytsky, and Burkhard Rost (2002)
Transmembrane helix predictions revisited
Protein Science 11: 2774-2791
Comparison of prediction algorithms
- Chien Peter Chen and Burkhard Rost (2002)
Long membrane helices and short loops predicted less accurately
Protein Science 11: 2766-2773
Comparison of prediction algorithms
- Miklos Cserzo, Erik Wallin, Istvan Simon, Gunnar von Heijne, and Arne Elofsson (1997)
Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface method
Protein Eng. 10: 673-676
Comparison of prediction algorithms
- Piero Fariselli, Michele Finelli, Davide Marchignoli, Pier Luigi Martelli, Ivan Rossi I, and Rita Casadio (2003)
MaxSubSeq: an algorithm for segment-length optimization. The case study of the transmembrane spanning segments
Bioinformatics 19: 500-505
- Masami Ikeda, Masafumi Arai, Demelo M. Lao, and Toshio Shimizu (2002)
Transmembrane topology prediction methods: a re-assessment and improvement by a consensus method using a dataset of experimentally-characterized transmembrane topologies
In Silico Biol. 2: 19-33
Comparison of prediction algorithms
- David T. Jones (1998)
Do transmembrane protein superfolds exist?
FEBS Lett. 423: 281-285
- Ralf Koebnik, Kaspar P. Locher, and Patrick Van Gelder (2000)
Structure and function of bacterial outer membrane proteins: barrels in a nutshell
Mol. Microbiol. 37: 239-253
- K. Melen, A. Krogh, and G. von Heijne (2003)
Reliability measures for membrane protein topology prediction algorithms
J. Mol. Biol. 327: 735-744
Comparison of prediction algorithms
- Kerstin M.L. Menne, Henning Hermjakob, and Rolf Apweiler (2000)
A comparison of signal sequence prediction methods using a test set of signal peptides
Bioinformatics 16: 741-742
Comparison of prediction algorithms
- S. Mitaku, M. Ono, T. Hirokawa, S. Boon-Chieng, and M. Sonoyama (1999)
Proportion of membrane proteins in proteomes of 15 single-cell organisms analyzed by the SOSUI prediction system
Biophys. Chem. 82: 165-171
- S. Möller, M.D. Croning, and R. Apweiler (2001)
Evaluation of methods for the prediction of membrane spanning regions
Bioinformatics 17: 646-653
Comparison of prediction algorithms
- Johan Nilsson, Bengt Persson, and Gunnar von Heijne (2000)
Consensus prediction of membrane protein topology
FEBS Lett. 486: 267-269
Comparison of prediction algorithms
- I.T. Paulsen, L. Nguyen, M.K. Sliwinski, R. Rabus, and M.H. Saier Jr. (2000)
Microbial genome analyses: comparative transport capabilities in eighteen prokaryotes
J. Mol. Biol. 301: 75-101
- D. Perlman and H.O. Halvorson (1983)
A putative signal peptidase recognition site and sequence in eukaryotic and prokaryotic signal peptides
J. Mol. Biol. 167: 391-409
- Milton H. Saier Jr. (1998)
Molecular phylogeny as a basis for the classification of transport proteins from bacteria, archaea and eukarya
Adv. Microb. Physiol. 40: 81-136
- T.J. Stevens and I.T. Arkin (2000)
Do more complex organisms have a greater proportion of membrane proteins in their genomes?
Proteins 39: 417-420
- Gabor E. Tusnady and Istvan Simon (2001)
Topology of membrane proteins
J. Chem. Inf. Comput. Sci. 41: 364-368
Comparison of prediction algorithms
- Gunnar von Heijne (1983)
Patterns of amino acids near signal-sequence cleavage sites
Eur. J. Biochem. 133: 17-21
- Erik Wallin and Gunnar von Heijne (1998)
Genome-wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms
Protein Science 7: 1029-1038
Latest update of content: September 8, 2005
Ralf Koebnik
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