Kelvin H Lee

Summary

Affiliation: Cornell University
Country: USA

Publications

  1. pmc Complement protein isoforms in CSF as possible biomarkers for neurodegenerative disease
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853, USA
    Dis Markers 21:93-101. 2005
  2. ncbi request reprint A two-dimensional electrophoresis map of Chinese hamster ovary cell proteins based on fluorescence staining
    Eric J Hayduk
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14850, USA
    Electrophoresis 25:2545-56. 2004
  3. ncbi request reprint Shotgun proteomics using the iTRAQ isobaric tags
    Kunal Aggarwal
    School of Chemical and Biomolecular Engineering, Cornell University, 120 Olin Hall, Ithaca, NY 14853 5201, USA
    Brief Funct Genomic Proteomic 5:112-20. 2006
  4. ncbi request reprint A comparison of the consistency of proteome quantitation using two-dimensional electrophoresis and shotgun isobaric tagging in Escherichia coli cells
    Leila H Choe
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853 5201, USA
    Electrophoresis 26:2437-49. 2005
  5. doi request reprint Silent mutations result in HlyA hypersecretion by reducing intracellular HlyA protein aggregates
    Prateek Gupta
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York, USA
    Biotechnol Bioeng 101:967-74. 2008
  6. pmc Overexpression of cloned RhsA sequences perturbs the cellular translational machinery in Escherichia coli
    Kunal Aggarwal
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York 14853, USA
    J Bacteriol 193:4869-80. 2011
  7. pmc A new kinetic model reveals the synergistic effect of E-, P- and A-sites on +1 ribosomal frameshifting
    Pei Yu Liao
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York, USA
    Nucleic Acids Res 36:2619-29. 2008
  8. ncbi request reprint Cerebrospinal fluid proteomic biomarkers for Alzheimer's disease
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Department of Nuerology and Neuroscience, Cornell University Medical College, Ithaca, NY 14853 5201, USA
    Ann Neurol 61:120-9. 2007
  9. ncbi request reprint Studies of potential cerebrospinal fluid molecular markers for Alzheimer's disease
    Leila H Choe
    120 Olin Hall, School of Chemical and Biomolecular Engineering, Ithaca, NY 14583 5201, USA
    Electrophoresis 23:2247-51. 2002
  10. ncbi request reprint The effect of astrocytes on the induction of barrier properties in aortic endothelial cells
    Gilda Shayan
    Dept of Biomedical Engineering, Cornell University, Ithaca, NY 14853, USA
    Biotechnol Prog 27:1137-45. 2011

Collaborators

Detail Information

Publications45

  1. pmc Complement protein isoforms in CSF as possible biomarkers for neurodegenerative disease
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853, USA
    Dis Markers 21:93-101. 2005
    ..The data suggest that when investigating a protein as a possible biomarker, it may be useful to compare individual protein isoform expression levels in addition to the more commonly measured total protein expression level...
  2. ncbi request reprint A two-dimensional electrophoresis map of Chinese hamster ovary cell proteins based on fluorescence staining
    Eric J Hayduk
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14850, USA
    Electrophoresis 25:2545-56. 2004
    ..Using this stain, we observe 672 phosphorylated proteins, including many proteins known to be phosphorylated, which is 36% of the proteins we visualized with a total protein stain and consistent with expectations...
  3. ncbi request reprint Shotgun proteomics using the iTRAQ isobaric tags
    Kunal Aggarwal
    School of Chemical and Biomolecular Engineering, Cornell University, 120 Olin Hall, Ithaca, NY 14853 5201, USA
    Brief Funct Genomic Proteomic 5:112-20. 2006
    ..Finally, we conclude with some of the current challenges in MS-based proteomic analysis that are limiting protein identifications obtained by different shotgun proteomic methods...
  4. ncbi request reprint A comparison of the consistency of proteome quantitation using two-dimensional electrophoresis and shotgun isobaric tagging in Escherichia coli cells
    Leila H Choe
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853 5201, USA
    Electrophoresis 26:2437-49. 2005
    ..81 using 2-DE and less than 0.53 using isobaric tags. The selective removal of outlier data points from the shotgun method using Grubb's and Rosner's statistical outlier tests improves the consistency of the quantitation data obtained...
  5. doi request reprint Silent mutations result in HlyA hypersecretion by reducing intracellular HlyA protein aggregates
    Prateek Gupta
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York, USA
    Biotechnol Bioeng 101:967-74. 2008
    ....
  6. pmc Overexpression of cloned RhsA sequences perturbs the cellular translational machinery in Escherichia coli
    Kunal Aggarwal
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York 14853, USA
    J Bacteriol 193:4869-80. 2011
    ..Based on these observations, we suspect a translation product of ext-a1 affects different regulatory mechanisms that control rRNA synthesis...
  7. pmc A new kinetic model reveals the synergistic effect of E-, P- and A-sites on +1 ribosomal frameshifting
    Pei Yu Liao
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York, USA
    Nucleic Acids Res 36:2619-29. 2008
    ..These analyses suggest that P-site tRNA slippage is the driving force for +1 ribosomal frameshifting while the presence of a 'hungry codon' in the A-site and destabilization in the E-site further enhance +1 PRF in E. coli...
  8. ncbi request reprint Cerebrospinal fluid proteomic biomarkers for Alzheimer's disease
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Department of Nuerology and Neuroscience, Cornell University Medical College, Ithaca, NY 14853 5201, USA
    Ann Neurol 61:120-9. 2007
    ..To find a panel of proteins in antemortem cerebrospinal fluid (CSF) that could be used to differentiate between samples from Alzheimer's disease (AD) patients and samples from healthy and neurological control subjects...
  9. ncbi request reprint Studies of potential cerebrospinal fluid molecular markers for Alzheimer's disease
    Leila H Choe
    120 Olin Hall, School of Chemical and Biomolecular Engineering, Ithaca, NY 14583 5201, USA
    Electrophoresis 23:2247-51. 2002
    ..The use of panels of molecular markers derived from proteomic analysis may offer the best prospect for developing molecular diagnostic tests for complex neurodegenerative disorders such as AD...
  10. ncbi request reprint The effect of astrocytes on the induction of barrier properties in aortic endothelial cells
    Gilda Shayan
    Dept of Biomedical Engineering, Cornell University, Ithaca, NY 14853, USA
    Biotechnol Prog 27:1137-45. 2011
    ....
  11. doi request reprint Synthesis and characterization of high-throughput nanofabricated poly(4-hydroxy styrene) membranes for in vitro models of barrier tissue
    Gilda Shayan
    Department of Biomedical Engineering, Cornell University, Ithaca, New York, USA
    Tissue Eng Part C Methods 18:667-76. 2012
    ..It also shows for the first time the potential utility of PHOST as a cell culture substrate without cytotoxicity, and suitability for nanofabrication processes due to temperature stability...
  12. pmc 8-plex quantitation of changes in cerebrospinal fluid protein expression in subjects undergoing intravenous immunoglobulin treatment for Alzheimer's disease
    Leila Choe
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY, USA
    Proteomics 7:3651-60. 2007
    ..One conclusion aided by the visualization tool is that there are differences in considering peptide-based observations versus protein-based observations from quantitative shotgun proteomics studies...
  13. pmc FSscan: a mechanism-based program to identify +1 ribosomal frameshift hotspots
    Pei Yu Liao
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York, USA
    Nucleic Acids Res 37:7302-11. 2009
    ..coli. The results have implications for bioinformatic identification of novel frameshift proteins, ribosomal frameshifting, coding sequence detection and the application of mass spectrometry on studying frameshift proteins...
  14. ncbi request reprint Engineering HlyA hypersecretion in Escherichia coli based on proteomic and microarray analyses
    Pat S Lee
    School of Chemical and Biomolecular Engineering, Cornell University, 120 Olin Hall, Ithaca, New York 14853 5201, USA
    Biotechnol Bioeng 89:195-205. 2005
    ....
  15. ncbi request reprint Cytochalasin D can improve heterologous protein productivity in adherent Chinese hamster ovary cells
    Eric J Hayduk
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York 14853, USA
    Biotechnol Bioeng 90:354-64. 2005
    ..Treatment with 0.5 mug/mL cytochalasin D increased SEAP productivity 2- to 3-fold compared to an amplified control which resulted in an increase in productivity from 52- to 150-fold compared to a nonamplified parent...
  16. doi request reprint Longitudinal analysis of novel Alzheimer's disease proteomic cerebrospinal fluid biomarkers during intravenous immunoglobulin therapy
    Gilda Shayan
    Department of Biomedical Engineering, Cornell University, Ithaca, New York, USA
    Electrophoresis 33:1975-9. 2012
    ..The observed improvements in subjects during 6 months of IVIg therapy and the reversion back to baseline during drug washout provides preliminary evidence regarding the potential use of IVIg as an AD immunotherapy...
  17. pmc The many paths to frameshifting: kinetic modelling and analysis of the effects of different elongation steps on programmed -1 ribosomal frameshifting
    Pei Yu Liao
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853, USA
    Nucleic Acids Res 39:300-12. 2011
    ..A more detailed understanding of the mechanisms underlying -1 PRF may provide insight into developing antiviral therapeutics...
  18. ncbi request reprint Quantitative analysis of protein expression using amine-specific isobaric tags in Escherichia coli cells expressing rhsA elements
    Kunal Aggarwal
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853 5201, USA
    Proteomics 5:2297-308. 2005
    ..Further, a statistical test based on the Grubb's and Rosner's tests was able to discriminate outlier data. The removal of outlier data had no significant effect on the functional categories of proteins that were represented in the study...
  19. ncbi request reprint Proteomic analysis of cerebrospinal fluid changes related to postmortem interval
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853, USA
    Clin Chem 52:1906-13. 2006
    ..The study of proteins with altered production in postmortem cerebrospinal fluid (CSF) compared with antemortem CSF may improve the understanding of biochemical changes that occur immediately after death...
  20. ncbi request reprint Longitudinal effects of intravenous immunoglobulin on Alzheimer's cerebrospinal fluid proteome
    Gilda Shayan
    Department of Biomedical Engineering, Cornell University, Ithaca, NY, USA
    Electrophoresis 35:1821-7. 2014
    ..This study provides preliminary findings regarding a group of CSF proteins that may be associated with the treatment of AD, as well as the potential use of IVIg as an AD immunotherapy. ..
  21. ncbi request reprint Comparison of automated in-gel digest methods for femtomole level samples
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853, USA
    Electrophoresis 24:3508-16. 2003
    ..The digests from SYPRO Ruby-stained gels are also shown to give a higher average peptide intensity if a method with minimal gel plug washing is used...
  22. ncbi request reprint Towards two-dimensional electrophoresis mapping of the cerebrospinal fluid proteome from a single individual
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853 5201, USA
    Electrophoresis 25:2564-75. 2004
    ..A supplemental map created from neurologically normal patients is also presented. A webpage with protein identification and scoring information from both maps is available at http://www.leelab.org/csfmap...
  23. ncbi request reprint Genomics and proteomics in process development: opportunities and challenges
    Prateek Gupta
    School of Chemical and Biomolecular Engineering, Cornell University, 120 Olin Hall, Ithaca, NY 14853, USA
    Trends Biotechnol 25:324-30. 2007
    ....
  24. ncbi request reprint Alzheimer's disease cerebrospinal fluid biomarker discovery: a proteomics approach
    Mark D'Ascenzo
    Cornell University, School of Chemical and Biomolecular Engineering, 120 Olin Hall, Ithaca, NY 14853, USA
    Curr Opin Mol Ther 7:557-64. 2005
    ..The most recent literature involving proteomic discovery of new cerebrospinal fluid biomarkers for Alzheimer's disease is reviewed...
  25. ncbi request reprint Coupling on-chip solid-phase extraction to electrospray mass spectrometry through an integrated electrospray tip
    Yanou Yang
    School of Applied and Engineering Physics, Cornell University, Ithaca, NY, USA
    Electrophoresis 26:3622-30. 2005
    ..The potential application of this device for sample cleanup was demonstrated by pretreatment of urine samples spiked with imipramine...
  26. ncbi request reprint Insights into the relation between mrna and protein expression patterns: II. Experimental observations in Escherichia coli
    Pat S Lee
    Department of Chemical Engineering Cornell University, 120 Olin Hall, Ithaca, New York 14853, USA
    Biotechnol Bioeng 84:834-41. 2003
    ..Furthermore, we found that the use of relative changes in expression could be used to elucidate mechanisms of gene expression regulation for the system studied, even when measurements were made on a small subset of the system...
  27. ncbi request reprint Totally asymmetric exclusion process with extended objects: a model for protein synthesis
    Leah B Shaw
    Department of Physics, Cornell University, Ithaca, New York 14853 2501, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 68:021910. 2003
    ..Finally, we briefly consider approximate approaches to a nonuniform open system with quenched disorder in the particle hopping rates and compare these approaches with Monte Carlo simulations...
  28. doi request reprint Proteomic and physiological experiments to test Thermotoga neapolitana constraint-based model hypotheses of carbon source utilization
    Sarah A Munro
    Dept of Biological and Environmental Engineering, Cornell University, Ithaca, NY 14853, USA
    Biotechnol Prog 28:312-8. 2012
    ..neapolitana constraint-based model to reinstate cellotetraose metabolism in model simulations...
  29. pmc Two-dimensional protein electrophoresis: from molecular pathway discovery to biomarker discovery in neurological disorders
    Leila H Choe
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York 14853, USA
    NeuroRx 3:327-35. 2006
    ..Here we review the major advances in 2-DE methods and discuss specific examples of its application in the study of neurologic diseases...
  30. ncbi request reprint Apolipoprotein E and other cerebrospinal fluid proteins differentiate ante mortem variant Creutzfeldt-Jakob disease from ante mortem sporadic Creutzfeldt-Jakob disease
    Leila H Choe
    120 Olin Hall, School of Chemical and Biomolecular Engineering, Ithaca, NY, USA
    Electrophoresis 23:2242-6. 2002
    ..Analysis of ante mortem CSF may help to differentiate patients with vCJD from those patients with spCJD...
  31. doi request reprint A single nucleotide polymorphism in ycdC alters tRNA synthetase expression and results in hypersecretion in Escherichia coli
    Prateek Gupta
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853, USA
    Biotechnol Prog 28:646-53. 2012
    ..This study demonstrates the power of next generation sequencing to characterize mutants leading to successful metabolic engineering strategies for strain improvement...
  32. doi request reprint Murine in vitro model of the blood-brain barrier for evaluating drug transport
    Gilda Shayan
    Department of Biomedical Engineering, Cornell University, Ithaca, NY, USA
    Eur J Pharm Sci 42:148-55. 2011
    ..These results together establish the utility of this murine model for future drug transport, pathological, and pharmacological characterizations of the BBB...
  33. doi request reprint On-chip coupling of electrochemical pumps and an SU-8 tip for electrospray ionization mass spectrometry
    Seung Min Park
    School of Applied and Engineering Physics, Cornell University, Ithaca, NY 14853, USA
    Biomed Microdevices 10:891-7. 2008
    ..The electrochemical pump and the electrospray tip were tested with electrospray ionization mass spectrometry. Mass spectrometry confirmed the stability of the electrochemical pump and the electrospray tip...
  34. ncbi request reprint Mean-field approaches to the totally asymmetric exclusion process with quenched disorder and large particles
    Leah B Shaw
    Department of Physics, Cornell University, Ithaca, New York 14853 2501, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 70:021901. 2004
    ..The mean-field approach is extended to include two-point correlations between adjacent sites. The two-point results are found to match Monte Carlo simulations more closely...
  35. ncbi request reprint Improved understanding of gene expression regulation using systems biology
    Robert S Kuczenski
    Cornell University, School of Chemical and Biomolecular Engineering, 120 Olin Hall, Ithaca, NY 14853, USA
    Expert Rev Proteomics 2:915-24. 2005
    ..Some of the challenges facing this field and the future opportunities in the systems biology era are highlighted...
  36. ncbi request reprint Kinetic characterization of sequencing grade modified trypsin
    Erin J Finehout
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853 5201, USA
    Proteomics 5:2319-21. 2005
    ..The results indicate that an increase in digestion temperature above 37 degrees C, the temperature traditionally used in digestion methods, could offer an increase in peptides detected...
  37. pmc PERIOD-TIMELESS interval timer may require an additional feedback loop
    Robert S Kuczenski
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York, United States of America
    PLoS Comput Biol 3:e154. 2007
    ..Incorporation of this additional feedback into a full circadian model produced results that are consistent with previous experimental observations of wild-type protein profiles and numerous mutant phenotypes...
  38. ncbi request reprint Escherichia coli--a model system that benefits from and contributes to the evolution of proteomics
    Pat S Lee
    School of Chemical and Biomolecular Engineering, Cornell University, 102 Olin Hall, Ithaca, New York 14853, USA
    Biotechnol Bioeng 84:801-14. 2003
    ....
  39. ncbi request reprint Quantitative and qualitative measure of intralaboratory two-dimensional protein gel reproducibility and the effects of sample preparation, sample load, and image analysis
    Leila H Choe
    Cornell University Chemical and Biomolecular Engineering, Ithaca, NY, USA
    Electrophoresis 24:3500-7. 2003
    ..03 for fully manual analysis to CV = 0.20 for a fully automated analysis. We present a systematic method by which a single laboratory can measure gel-to-gel variability using only three gel runs...
  40. ncbi request reprint Isoelectric focusing in cyclic olefin copolymer microfluidic channels coated by polyacrylamide using a UV photografting method
    Chen Li
    School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY 14853, USA
    Electrophoresis 26:1800-6. 2005
    ..Linear and rapid separation of proteins was achieved in the polyacrylamide-coated COC microfluidic device...
  41. ncbi request reprint Proteome analysis of recombinant Escherichia coli producing human glucagon-like peptide-1
    Dae Hee Lee
    Department of Agricultural Biotechnology and The BioMAX Institute, Seoul National University, Seoul 151 921, South Korea
    J Chromatogr B Analyt Technol Biomed Life Sci 849:323-30. 2007
    ..coli...
  42. ncbi request reprint Functional genomics and proteomics as a foundation for systems biology
    Kunal Aggarwal
    Scool of Chemical and Biomolecular Engineering at Cornell University, USA
    Brief Funct Genomic Proteomic 2:175-84. 2003
    ....
  43. ncbi request reprint Insights into the relation between mRNA and protein expression patterns: I. Theoretical considerations
    Amit Mehra
    Department of Chemical Engineering, Northwestern University, Evanston, Illinois 60208, USA
    Biotechnol Bioeng 84:822-33. 2003
    ....
  44. doi request reprint iTRAQPak: an R based analysis and visualization package for 8-plex isobaric protein expression data
    Mark D'Ascenzo
    Plant Molecular Biology, Penn State University, USA
    Brief Funct Genomic Proteomic 7:127-35. 2008
    ..The utility of this package is demonstrated through its application to the analysis of 8-plex iTRAQ protein expression data obtained from cerebrospinal fluid samples from Alzheimer's disease subjects involved in a Phase I drug trial...
  45. ncbi request reprint Applications of affinity chromatography in proteomics
    Wen Chien Lee
    Department of Chemical Engineering, National Chung Cheng University, Chiayi 621, Taiwan
    Anal Biochem 324:1-10. 2004
    ....