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Article
Applicability of the critical-chromatography concept to proteomics problems: Separation of peptides modeled by a heterogeneous rod
The problems of separation of short peptides are considered in terms of the model of rigid rod adsorption. Analytical expressions relating the retention volume to the sequence of amino-acid residues in the gra...
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Article
Applicability of the critical chromatography concept to proteomic problems. II. Effect of mobile phase on the separation of peptides and proteins taking into account the amino acid sequence
The effect of parameters of a binary mobile phase (chemical properties of components, gradient profile, flow rate, and pH) on the separation of peptides and proteins is theoretically investigated using a model...
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Article
Applicability of the critical chromatography concept to proteomics problems: I. Effect of the stationary phase and the size of the chromatographic column on the dependence of the retention time of peptides and proteins on the amino acid sequence
A theoretical study of the effect of stationary phase parameters on the regularities of the separation of peptides and proteins using a model of critical chromatography BioLCCC and the Theoretical chromatography ...
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Article
Pepxmltk—a format converter for peptide identification results obtained from tandem mass spectrometry data using X!Tandem search engine
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Article
Peptide identification in “shotgun” proteomics using tandem mass spectrometry: Comparison of search engine algorithms
High-throughput proteomics technologies are gaining popularity in different areas of life sciences. One of the main objectives of proteomics is characterization of the proteins in biological samples using liqu...
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Article
Inversion of chromatographic elution orders of peptides and its importance for proteomics
Inversion of the order of peptide elution in reversed-phase liquid chromatography under changing separation conditions, such as gradient slope has been considered. Using a six-protein proteolytic peptide stand...
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Article
An atmospheric pressure ionization source based on desorption electrospray ionization technology (DESI) for ion cyclotron resonance mass spectrometry
An atmospheric pressure ionization source based on desorption electrospray ionization technology for a bench-top hybrid FTICR mass spectrometer is described. The ion source was characterized using low-molecula...
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Article
Applicability of the critical-chromatography concept to analysis of proteins: Dependence of retention times on the sequence of amino acid residues in a chain
The BioLCCC model of the chromatographic separation of biomacromolecules, which involves the concepts of the critical chromatography of polymers, is used to describe the experimental data on the separation of ...
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Article
Alternative methods for verifying the results of the mass spectrometric identification of peptides in shotgun proteomics
Database search is the most popular approach used for the identification of peptides in contemporary shotgun proteomics; it utilizes only mass spectrometric data. In this work, we introduce three criteria for ...
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Article
Critical chromatography and mass spectrometry of macromolecules: Determination of the position of a functional group in a chain
The potentials inherent in the method of critical chromatography of macromolecules combined with mass spectrometry for the study of the most complicated characteristic of the macromolecular structure—the deter...
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Article
Critical chromatography of macromolecules as a tool for reading the amino acid sequence of biomacromolecules: Reality or science fiction?
The capabilities of critical chromatography to study the amino acid sequences in biopolymer, peptide, and protein macromolecules are discussed. The rearrangement of two or more amino acid residues and the occu...
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Article
Use of models of biomacromolecule separation in AMT database generation for shotgun proteomics
Generation of a complex proteome database requires use of powerful analytical methods capable of following rapid changes in the proteome due to changing physiological and pathological states of the organism un...
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Article
Applicability of the critical chromatography concept to proteomics problems: Experimental study of the dependence of peptide retention time on the sequence of amino acids in the chain
Experimental data on the separation of synthetic and natural peptides are presented as treated in terms of the separation model proposed by the authors, which allows for the chain connectivity of amino acid re...
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Article
Applicability of the critical chromatography concept to proteomics problems: Dependence of retention time on the sequence of amino acids
A peptide separation model based on the technique of liquid chromatography of macromolecules at the critical condition was proposed. In terms of this model, the array of experimental data on the separation of ...
