Database search post-processing by neural network: Advanced facilities for identification of components in protein mixtures using mass spectrometric peptide mapping.
Database search post-processing by neural network was employed in peptide mapping experiments. The database search was performed using both the known algorithms and score functions, such as Bayesian, MOWSE, Z-score, correlations between calculated and actual peptide length fractional abundance, and, in addition, the probability of protein digest pattern in peptide fingerprint, all embedded in locally developed program. The new signal-processing algorithm based on neural network improves signal-noise separation and is acceptable for automatic protein identification in mixtures. Its power was tested on Helicobacter pylori protein inventory after preceding protein separation by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). Increase in protein identification success rate was observed, and about 100 proteins were identified with no need of human participation in database search estimation.
Lokhov
Petr G
PG
Institute of Biomedical Chemistry, Moscow, Russia. proteomics@ibmh.msk.su
Tikhonova
Olga V
OV
Moshkovskii
Sergei A
SA
Goufman
Eugene I
EI
Serebriakova
Marina V
MV
Maksimov
Boris I
BI
Toropyguine
Ilya Yu
IY
Zgoda
Victor G
VG
Govorun
Vadim M
VM
Archakov
Alexander I
AI
D000465:Algorithms; D001499:Bayes Theorem; D002853:Chromatography, Liquid; D019992:Databases as Topic; D015180:Electrophoresis, Gel, Two-Dimensional; D004591:Electrophoresis, Polyacrylamide Gel; D016480:Helicobacter pylori / Q000378:metabolism; D016571:Neural Networks, Computer; D010449:Peptide Mapping / Q000379:methods*; D010455:Peptides / Q000737:chemistry; D011506:Proteins / Q000737:chemistry*; D012984:Software; D021241:Spectrometry, Mass, Electrospray Ionization; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
D010455:Peptides; D011506:Proteins