The Filtration of 2D Electrophoresis Data during Creation of a Learning Set for Prediction of the Value of the Isoelectric Point of Proteins

Authors

  • V.S. Skvortsov Institute of Biomedical Chemistry, 10 Pogodinskaya str., Moscow, 119121 Russia
  • A.V. Rybina Institute of Biomedical Chemistry, 10 Pogodinskaya str., Moscow, 119121 Russia

DOI:

https://doi.org/10.18097/BMCRM00162

Keywords:

isoelectric point; 2D electrophoresis; data collection

Abstract

A number of simple filters formulated from general considerations that take into account the peculiarities of the experiments as well as results obtained in 2D electrophoresis experiments are considered. These filters can be used for automated dataset formation and verification of learning of system for predicting protein isoelectric point values. These include: (i) filtering obvious errors introduced during initial database formation; (ii) selection of a known plausible range of values; (iii) selection of a single variant among various proteoforms; (iv) selection within a preset value of electrophoretic shift deviation, etc. Using a dataset combining data from 8 maps of Homo sapiens, Mus musculus, and Rattus norvegicus, the application of this set of filters improved the R2 value of predictions from 0.44 to 0.67.

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Published

2022-04-30

How to Cite

Skvortsov, V., & Rybina, A. (2022). The Filtration of 2D Electrophoresis Data during Creation of a Learning Set for Prediction of the Value of the Isoelectric Point of Proteins. Biomedical Chemistry: Research and Methods, 5(1), e00162. https://doi.org/10.18097/BMCRM00162

Issue

Section

PROTOCOLS OF EXPERIMENTS, USEFUL MODELS, PROGRAMS AND SERVICES