Kinetic CE: Foundation for homogeneous kinetic affinity methods

Kinetic capillary electrophoresis (KCE) is defined as capillary electrophoresis of species that interact during electrophoresis. KCE can serve as a conceptual platform for development of homogeneous kinetic affinity methods for affinity measurements (measurements of binding parameters and quantitative measurements) and affinity purification (purification of known molecules and search of unknown molecules). A number of different KCE methods can be designed by varying initial and boundary conditions – the way interacting species enter and exit the capillary. KCE methods will find multiple practical applications in the designing of biomedical diagnostics and the development of drug candidates. Here, the concept of KCE, its up‐to‐date applications, and future prospective are reviewed.

[1]  Matthew A Cooper,et al.  Advances in membrane receptor screening and analysis , 2004, Journal of molecular recognition : JMR.

[2]  Sergey N Krylov,et al.  Non-SELEX: selection of aptamers without intermediate amplification of candidate oligonucleotides , 2006, Nature Protocols.

[3]  Michael Musheev,et al.  Nonequilibrium capillary electrophoresis of equilibrium mixtures: a universal tool for development of aptamers. , 2005, Journal of the American Chemical Society.

[4]  M. Berezovski,et al.  Plug-plug kinetic capillary electrophoresis: method for direct determination of rate constants of complex formation and dissociation. , 2006, Analytical chemistry.

[5]  Guilan Wang,et al.  Lanthanide-based luminescence probes and time-resolved luminescence bioassays , 2006 .

[6]  J. Brennan,et al.  Protein-doped monolithic silica columns for capillary liquid chromatography prepared by the sol-gel method: applications to frontal affinity chromatography. , 2004, Analytical chemistry.

[7]  David R. Liu,et al.  DNA-Templated Organic Synthesis and Selection of a Library of Macrocycles , 2004, Science.

[8]  Toru Iwaki,et al.  Surface plasmon resonance analysis for the screening of anti-prion compounds. , 2006, Biological & pharmaceutical bulletin.

[9]  M. Berezovski,et al.  Selection of surfactants for cell lysis in chemical cytometry to study protein‐DNA interactions , 2006, Electrophoresis.

[10]  M. Berezovski,et al.  Thermochemistry of protein-DNA interaction studied with temperature-controlled nonequilibrium capillary electrophoresis of equilibrium mixtures. , 2005, Analytical chemistry.

[11]  W. David Wilson,et al.  Analyzing Biomolecular Interactions , 2002, Science.

[12]  Sergey N Krylov,et al.  Single-stranded DNA-binding protein facilitates gel-free analysis of polymerase chain reaction products in capillary electrophoresis. , 2004, Journal of chromatography. A.

[13]  Victor Okhonin,et al.  Transverse diffusion of laminar flow profiles to produce capillary nanoreactors. , 2005, Analytical chemistry.

[14]  R. Kennedy,et al.  Capillary electrophoresis and fluorescence anisotropy for quantitative analysis of peptide-protein interactions using JAK2 and SH2-Bbeta as a model system. , 2005, Analytical chemistry.

[15]  Sergey N Krylov,et al.  Non-equilibrium capillary electrophoresis of equilibrium mixtures--appreciation of kinetics in capillary electrophoresis. , 2003, The Analyst.

[16]  P. Mitchell A perspective on protein microarrays , 2002, Nature Biotechnology.

[17]  E J Licitra,et al.  A three-hybrid system for detecting small ligand-protein receptor interactions. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[18]  A D Ellington,et al.  In Vitro Selection of RNA Molecules That Inhibit the Activity of Ricin A-chain* , 2000, The Journal of Biological Chemistry.

[19]  David R. Liu,et al.  Reaction discovery enabled by DNA-templated synthesis and in vitro selection , 2004, Nature.

[20]  Marek Piliarik,et al.  Multi-analyte surface plasmon resonance biosensing. , 2005, Methods.

[21]  M. Berezovski,et al.  Reversible photocontrol of DNA binding by a designed GCN4-bZIP protein. , 2006, Biochemistry.

[22]  Yingfu Li,et al.  Affinity analysis of a protein-aptamer complex using nonequilibrium capillary electrophoresis of equilibrium mixtures. , 2003, Analytical chemistry.

[23]  Baohong Zhang,et al.  High-resolution functional proteomics by active-site peptide profiling. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[24]  M. Berezovski,et al.  Using DNA-binding proteins as an analytical tool. , 2003, Journal of the American Chemical Society.

[25]  M. Berezovski,et al.  Selection of smart aptamers by equilibrium capillary electrophoresis of equilibrium mixtures (ECEEM). , 2005, Journal of the American Chemical Society.

[26]  Yingfu Li,et al.  Tau protein binds single‐stranded DNA sequence specifically – the proof obtained in vitro with non‐equilibrium capillary electrophoresis of equilibrium mixtures , 2005, FEBS letters.

[27]  Sergey V. Ermakov,et al.  Finite-difference algorithm for convection-diffusion equation applied to electrophoresis problem , 1992 .

[28]  G. Whitesides,et al.  Use of affinity capillary electrophoresis to determine kinetic and equilibrium constants for binding of arylsulfonamides to bovine carbonic anhydrase. , 1993, Journal of medicinal chemistry.

[29]  Victor Okhonin,et al.  Sweeping capillary electrophoresis: a non-stopped-flow method for measuring bimolecular rate constant of complex formation between protein and DNA. , 2004, Journal of the American Chemical Society.

[30]  Michael Musheev,et al.  Non-SELEX selection of aptamers. , 2006, Journal of the American Chemical Society.

[31]  G. Whitesides,et al.  Use of affinity capillary electrophoresis to measure binding constants of ligands to proteins. , 1992, Journal of medicinal chemistry.

[32]  Sergey N Krylov,et al.  Identification of base pairs in single-nucleotide polymorphisms by MutS protein-mediated capillary electrophoresis. , 2006, Analytical chemistry.

[33]  B. Mattiasson,et al.  Screening of peptide affinity tags using immobilised metal affinity chromatography in 96-well plate format. , 2005, Journal of chromatography. A.

[34]  Sergey N Krylov,et al.  Nonequilibrium capillary electrophoresis of equilibrium mixtures--a single experiment reveals equilibrium and kinetic parameters of protein-DNA interactions. , 2002, Journal of the American Chemical Society.

[35]  Sergey N Krylov,et al.  Selection of aptamers by systematic evolution of ligands by exponential enrichment: addressing the polymerase chain reaction issue. , 2006, Analytica chimica acta.

[36]  Hanqi Zhang,et al.  Acousto-optic tunable filter-surface plasmon resonance immunosensor for fibronectin , 2005 .

[37]  T. Lohman,et al.  Co-operative binding of Escherichia coli SSB tetramers to single-stranded DNA in the (SSB)35 binding mode. , 1994, Journal of molecular biology.

[38]  X Chris Le,et al.  Ultrasensitive detection of proteins by amplification of affinity aptamers. , 2006, Angewandte Chemie.

[39]  L. Gold,et al.  Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. , 1990, Science.

[40]  David D Y Chen,et al.  Applications of on‐line weak affinity interactions in free solution capillary electrophoresis , 2002, Electrophoresis.

[41]  Victor Okhonin,et al.  Selection of smart aptamers by methods of kinetic capillary electrophoresis. , 2006, Analytical chemistry.

[42]  B. Nordén,et al.  Unspecific DNA binding of the DNA binding domain of the glucocorticoid receptor studied with flow linear dichroism , 1989, FEBS letters.

[43]  M. Berezovski,et al.  Using nonequilibrium capillary electrophoresis of equilibrium mixtures for the determination of temperature in capillary electrophoresis. , 2004, Analytical chemistry.

[44]  Hiroshi Saiki,et al.  Combinational use of antibody affinities in an immunoassay for extension of dynamic range and detection of multiple analytes. , 2003, Analytical chemistry.

[45]  R. Barry,et al.  Quantitative protein profiling using antibody arrays , 2004, Proteomics.

[46]  M. Berezovski,et al.  Kinetic capillary electrophoresis (KCE): a conceptual platform for kinetic homogeneous affinity methods. , 2005, Journal of the American Chemical Society.

[47]  Timothy Londergan,et al.  Looking towards label-free biomolecular interaction analysis in a high-throughput format: a review of new surface plasmon resonance technologies. , 2006, Current opinion in biotechnology.

[48]  A. Sercel,et al.  Fluorous affinity purification of oligonucleotides. , 2005, The Journal of organic chemistry.

[49]  S. Krylov,et al.  Nonequilibrium capillary electrophoresis of equilibrium mixtures, mathematical model. , 2004, Analytical chemistry.

[50]  D. Walt,et al.  A fiber-optic DNA biosensor microarray for the analysis of gene expression , 1996, Nature Biotechnology.