Research Output 1970 2020

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2020

Compact quantum dots for quantitative cytology

Le, P., Chitoor, S., Tu, C., Lim, S. J. & Smith, A. M., Jan 1 2020, Methods in Molecular Biology. Humana Press Inc., p. 147-158 12 p. (Methods in Molecular Biology; vol. 2064).

Research output: Chapter in Book/Report/Conference proceedingChapter

Quantum Dots
Nanoparticles
Cell Biology
Click Chemistry
Fluorescent Dyes
2019

Bacterial expression of membrane-associated cytochrome P450s and their activity assay in nanodiscs

Maroutsos, D., Huff, H. & Das, A., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 47-72 26 p. (Methods in Molecular Biology; vol. 1927).

Research output: Chapter in Book/Report/Conference proceedingChapter

Cytochromes
Membranes
Cytochrome P-450 Enzyme System
Bacteria
Paclitaxel

CHAPTER 2: Design and Engineering of Heme Enzymes with O 2 -dependent Catalytic Activity

Cui, C., Reed, J. H., Mirts, E. N. & Lu, Y., Jan 1 2019, Dioxygen-dependent Heme Enzymes. Ikeda-Saito, M. & Raven, E. (eds.). 13 ed. Royal Society of Chemistry, p. 37-62 26 p. (RSC Metallobiology; vol. 2019-January, no. 13).

Research output: Chapter in Book/Report/Conference proceedingChapter

Heme
Catalyst activity
Enzymes
Oxidoreductases
Biological Phenomena

Construction and Screening of an Antigen-Derived Peptide Library Displayed on Yeast Cell Surface for CD4+ T Cell Epitope Identification

Wen, F., Smith, M. R. & Zhao, H., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 213-234 22 p. (Methods in Molecular Biology; vol. 2024).

Research output: Chapter in Book/Report/Conference proceedingChapter

Peptide Library
T-Lymphocyte Epitopes
Major Histocompatibility Complex
Yeasts
Peptides

Delta integration CRISPR-Cas (Di-CRISPR) in saccharomyces cerevisiae

Shi, S., Liang, Y., Ang, E. L. & Zhao, H., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 73-91 19 p. (Methods in Molecular Biology; vol. 1927).

Research output: Chapter in Book/Report/Conference proceedingChapter

Clustered Regularly Interspaced Short Palindromic Repeats
Saccharomyces cerevisiae
Genetic Engineering
Workflow
Flow Cytometry

Neuropeptidomics of the mammalian brain

Xie, F., Anapindi, K. D. B., Romanova, E. V. & Sweedler, J. V., Jan 1 2019, Neuromethods. Humana Press Inc., p. 161-177 17 p. (Neuromethods; vol. 146).

Research output: Chapter in Book/Report/Conference proceedingChapter

Brain
Peptides
Mass spectrometry
Mass Spectrometry
Liquid chromatography

Novel Anti-inflammatory and Vasodilatory ω-3 Endocannabinoid Epoxide Regioisomers

Carnevale, L. N. & Das, A., Jan 1 2019, Advances in Experimental Medicine and Biology. Springer New York LLC, p. 219-232 14 p. (Advances in Experimental Medicine and Biology; vol. 1161).

Research output: Chapter in Book/Report/Conference proceedingChapter

Endocannabinoids
Epoxy Compounds
Anti-Inflammatory Agents
Acids
Metabolites

Tunneling—Percolation behavior of graphene-encapsulated whiskers as electroconductive fillers for ceramics

Hussainova, I., Ivanov, R., Sudhir Kale, S. & Jasiuk, I. M., Jan 1 2019, Advanced Structured Materials. Springer-Verlag, p. 131-139 9 p. (Advanced Structured Materials; vol. 95).

Research output: Chapter in Book/Report/Conference proceedingChapter

Graphite
Oxides
Graphene
Fillers
Phosmet
2018

Applying advanced dna assembly methods to generate pathway libraries

Eriksen, D. T., Chao, R. & Zhao, H., Mar 15 2018, Synthetic Biology: Parts, Devices and Applications. Wiley-VCH Verlag, p. 331-347 17 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

A practical guide to molecular dynamics simulations of DNA origami systems

Yoo, J., Li, C. Y., Slone, S. M., Maffeo, C. & Aksimentiev, A., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 209-229 21 p. (Methods in Molecular Biology; vol. 1811).

Research output: Chapter in Book/Report/Conference proceedingChapter

Molecular Dynamics Simulation
DNA
Nucleic Acids

Bacterial genome editing with CRISPR-Cas9: Taking clostridium beijerinckii as an example

Zhang, Z. T., Jiménez-Bonilla, P., Seo, S. O., Lu, T., Jin, Y-S., Blaschek, H-P. M. & Wang, Y., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 297-325 29 p. (Methods in Molecular Biology; vol. 1772).

Research output: Chapter in Book/Report/Conference proceedingChapter

Clostridium beijerinckii
Clustered Regularly Interspaced Short Palindromic Repeats
Bacterial Genomes
Guide RNA
Streptococcus pyogenes

Bioinformatics for prohormone and neuropeptide discovery

Southey, B. R., Romanova, E. V., Rodriguez-Zas, S. L. & Sweedler, J. V., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 71-96 26 p. (Methods in Molecular Biology; vol. 1719).

Research output: Chapter in Book/Report/Conference proceedingChapter

Computational Biology
Neuropeptides
Peptide Hormones
Post Translational Protein Processing
Proteomics

Coupling fluxes, enzymes, and regulation in genome-scale metabolic models

Jensen, P. A., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 337-351 15 p. (Methods in Molecular Biology; vol. 1716).

Research output: Chapter in Book/Report/Conference proceedingChapter

Genome
Enzymes
Practice Guidelines
Software

Directed evolution of targeted recombinases for genome engineering

Sirk, S., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 89-102 14 p. (Methods in Molecular Biology; vol. 1867).

Research output: Chapter in Book/Report/Conference proceedingChapter

Recombinases
Genome
Catalytic Domain
DNA
Zinc Fingers

Engineering and evolution of saccharomyces cerevisiae to produce biofuels and chemicals

Turner, T. L., Kim, H., Kong, I. I., Liu, J. J., Zhang, G. C. & Jin, Y-S., Jan 1 2018, Advances in Biochemical Engineering/Biotechnology. Springer Science and Business Media Deutschland GmbH, p. 175-215 41 p. (Advances in Biochemical Engineering/Biotechnology; vol. 162).

Research output: Chapter in Book/Report/Conference proceedingChapter

Biofuels
Yeast
Saccharomyces cerevisiae
Fossil Fuels
Bioconversion

Manufacturing and delivering genome-editing proteins

Liu, J., Liang, Y. J., Ren, P. L. & Gaj, T., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 253-273 21 p. (Methods in Molecular Biology; vol. 1867).

Research output: Chapter in Book/Report/Conference proceedingChapter

Ribonucleoproteins
Dependovirus
Zinc Fingers
Transgenes
Proteins

Metabolic Engineering of Saccharomyces cerevisiae Using a Trifunctional CRISPR/Cas System for Simultaneous Gene Activation, Interference, and Deletion

Schultz, C., Lian, J. & Zhao, H., Jan 1 2018, Methods in Enzymology. Scrutton, N. (ed.). Academic Press Inc., p. 265-276 12 p. (Methods in Enzymology; vol. 608).

Research output: Chapter in Book/Report/Conference proceedingChapter

CRISPR-Cas Systems
Clustered Regularly Interspaced Short Palindromic Repeats
Metabolic engineering
Metabolic Engineering
Gene Deletion

Network dynamics theory of human intelligence

Nikolaidis, A. & Barbey, A. K., Jan 1 2018, The Cambridge Handbook of the Neuroscience of Creativity. Cambridge University Press, p. 382-404 23 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Intelligence
Creativity
Aptitude
Brain
Neuroimaging

Non-targeted identification of d-amino acid-containing peptides through enzymatic screening, chiral amino acid analysis, and LC-MS

Tai, H. C., Checco, J. W. & Sweedler, J. V., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 107-118 12 p. (Methods in Molecular Biology; vol. 1719).

Research output: Chapter in Book/Report/Conference proceedingChapter

Amino Acids
Peptides
Post Translational Protein Processing
Mass Spectrometry

Pathway design, engineering, and optimization

Garcia-Ruiz, E., HamediRad, M. & Zhao, H., Jan 1 2018, Advances in Biochemical Engineering/Biotechnology. Springer Science and Business Media Deutschland GmbH, (Advances in Biochemical Engineering/Biotechnology; vol. 162).

Research output: Chapter in Book/Report/Conference proceedingChapter

Biofuels
Microorganisms
Enzymes
Pharmaceutical Preparations

Targeted gene knock out using nuclease-assisted vector integration: Hemi- and Homozygous deletion of JAG1

Gapinske, M., Tague, N., Winter, J., Underhill, G. H. & Perez Pinera, P., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 233-248 16 p. (Methods in Molecular Biology; vol. 1772).

Research output: Chapter in Book/Report/Conference proceedingChapter

Gene Knockout Techniques
Genome
Technology
Biotechnology
DNA
2017

Acetylated low density lipoprotein and the delivery of lmmunomodulators to macrophages

Rutherford, M. S., Futch, W. S. & Schook, L. B., Jan 1 2017, Lipoproteins as Carriers of Pharmacological Agents. CRC Press, p. 221-223 3 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Macrophages
Acetylmuramyl-Alanyl-Isoglutamine
Endothelial cells
Cells
Thioglycolates

Biosensing based on surface-enhanced raman spectroscopy

Liu, G. L., Zheng, W., Zhang, P. & Chen, F., Jan 1 2017, Biosensors Based on Nanomaterials and Nanodevices. Li, J. & Wu, N. (eds.). CRC Press, p. 111-155 45 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Raman Spectrum Analysis
Raman spectroscopy
drugs
Enzymes
Cell signaling

Chapter 7: Computational Characterization of Molecular Mechanisms of Membrane Transporter Function

Trebesch, N., Vermaas, J. V. & Tajkhorshid, E., Jan 1 2017, Computational Biophysics of Membrane Proteins. Hirst, J. & Domene, C. (eds.). 10 ed. Royal Society of Chemistry, p. 197-236 40 p. (RSC Theoretical and Computational Chemistry Series; vol. 2017-January, no. 10).

Research output: Chapter in Book/Report/Conference proceedingChapter

Membrane Transport Proteins
Membranes
Computational methods
Free energy
Adenosinetriphosphate

Electrokinetic Transport and Fluidic Manipulation in Three Dimensional Integrated Nanofluidic Networks

King, T. L., Jin, X., Nandigana, V. R., Aluru, N. R. & Bohn, P. W., Jan 1 2017, Nanofluidics, 2nd Edition. Ivanov, A., Edel, J., O'Brien, P. & Kim, M. (eds.). 41 ed. Royal Society of Chemistry, p. 37-75 39 p. (RSC Nanoscience and Nanotechnology; vol. 2017-January, no. 41).

Research output: Chapter in Book/Report/Conference proceedingChapter

Nanofluidics
fluidics
electrokinetics
Fluidics
manipulators

Hydrothermal liquefaction (HTL): A promising pathway for biorefinery of algae

Tian, C., Liu, Z. & Zhang, Y., Jan 1 2017, Algal Biofuels: Recent Advances and Future Prospects. Springer International Publishing, p. 361-392 32 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Liquefaction
Algae

Integrated cantilever-based biosensors for the detection of chemical and biological entities

Corbin, E. A., YekrangSafakar, A., Adeniba, O., Gupta, A., Park, K. & Bashir, R., Jan 1 2017, Nanotechnology in Biology and Medicine: Methods, Devices, and Applications, Second Edition. CRC Press, p. 469-529 61 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Biosensing Techniques
Biosensors
Sensors
Vacuum
Air

Nanostructured biointerfaces

Allain, J. P., Echeverry-Rendón, M., Pavón, J. J. & Arias, S. L., Jan 1 2017, Nanopatterning and Nanoscale Devices for Biological Applications. CRC Press, p. 41-72 32 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Biocompatible Materials
Surface chemistry
Extracellular Matrix
Cells
Topology

Qflow cytometry-based receptoromic screening: A high-throughput quantification approach informing biomarker selection and nanosensor development

Chen, S., Weddell, J., Gupta, P., Conard, G., Parkin, J. & Imoukhuede, P. U. II., Jan 1 2017, Methods in Molecular Biology. Humana Press Inc., p. 117-138 22 p. (Methods in Molecular Biology; vol. 1570).

Research output: Chapter in Book/Report/Conference proceedingChapter

Biomarkers
Immunohistochemistry
Calibration
Vascular Endothelial Growth Factor Receptor
Antibody Specificity

Strain development by whole-cell directed evolution

Si, T., Lian, J. & Zhao, H., Jan 1 2017, Directed Enzyme Evolution: Advances and Applications. Springer International Publishing, p. 173-200 28 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Phenotype
Workflow
Screening
Mutation

Surface treatment of metallic biomaterials in contact with blood to enhance hemocompatibility

Allain, J. P. & Echeverry-Rendón, M., Oct 31 2017, Hemocompatibility of Biomaterials for Clinical Applications: Blood-Biomaterials Interactions. Elsevier Inc., p. 279-326 48 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Biocompatible Materials
Metals
Polymers
Equipment and Supplies
Ceramics

“Dipstick” colorimetric detection of metal ions based on immobilization of DNAzyme and gold nanoparticles onto a lateral flow device

Mazumdar, D., Lan, T. & Lu, Y., Jan 1 2017, Methods in Molecular Biology. Humana Press Inc., p. 389-406 18 p. (Methods in Molecular Biology; vol. 1571).

Research output: Chapter in Book/Report/Conference proceedingChapter

Catalytic DNA
Immobilization
Gold
Nanoparticles
Metals
2016

Biocatalysis for Drug Discovery and Development

Liang, Y., Zhang, M. M., Ang, E. L. & Zhao, H., May 13 2016, Green Biocatalysis. Wiley, p. 421-455 35 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Drug products
Enzymes
Pharmaceutical Preparations
Biocatalysts
Chemical reactions

Combined and iterative use of computational design and directed evolution for protein-ligand binding design

Wang, M. & Zhao, H., May 1 2016, Methods in Molecular Biology. Humana Press Inc., p. 139-153 15 p. (Methods in Molecular Biology; vol. 1414).

Research output: Chapter in Book/Report/Conference proceedingChapter

Protein Binding
Switch Genes
Ligands
Two-Hybrid System Techniques
Mutagenesis

Design of Heteronuclear Metalloenzymes

Bhagi-Damodaran, A., Hosseinzadeh, P., Mirts, E., Reed, J., Petrik, I. D. & Lu, Y., Jan 1 2016, Methods in Enzymology. Academic Press Inc., p. 501-537 37 p. (Methods in Enzymology; vol. 580).

Research output: Chapter in Book/Report/Conference proceedingChapter

Scaffolds
Metals
Proteins
Metal ions
Cytochrome-c Peroxidase

Engineered minicellulosomes for consolidated bioprocessing

Liang, Y., Ang, E. L. & Zhao, H., Jul 11 2016, Handbook of Carbohydrate-Modifying Biocatalysts. Pan Stanford Publishing Pte. Ltd., Vol. 2. p. 965-992 28 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Free D-aspartate in nonmammalian animals: Detection, localization, metabolism, and function

Patel, A. V., Kawai, T., Rubakhin, S. & Sweedler, J. V., Jan 1 2016, D-Amino Acids: Physiology, Metabolism, and Application. Springer Japan, p. 173-197 25 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

D-Aspartic Acid
Metabolism
Animals
Amino Acids
Neurotransmitter Agents

Gene delivery method using photo-responsive poly(β-amino ester) as vectors

Zheng, N., Liu, Y. & Cheng, J., Jan 1 2016, Methods in Molecular Biology. Humana Press Inc., p. 259-267 9 p. (Methods in Molecular Biology; vol. 1445).

Research output: Chapter in Book/Report/Conference proceedingChapter

Esters
Polymers
Nucleic Acids
Genes
Transfection

High-Efficiency Genome Editing of Streptomyces Species by an Engineered CRISPR/Cas System

Wang, Y., Cobb, R. E. & Zhao, H., 2016, Methods in Enzymology. O'Connor, S. E. (ed.). Academic Press Inc., p. 271-284 14 p. (Methods in Enzymology; vol. 575).

Research output: Chapter in Book/Report/Conference proceedingChapter

CRISPR-Cas Systems
Clustered Regularly Interspaced Short Palindromic Repeats
Streptomyces
Genes
Microbial Genome

Highly efficient SiRNA delivery mediated by cationic helical polypeptides and polypeptide-based nanosystems

Yin, L., Zheng, N. & Cheng, J., Jan 1 2016, Methods in Molecular Biology. Humana Press Inc., 1 p. (Methods in Molecular Biology; vol. 1364).

Research output: Chapter in Book/Report/Conference proceedingChapter

Small Interfering RNA
Peptides
RNA Interference
Oral Administration
Gene Expression

High-throughput screening or selection methods for evolutionary enzyme engineering

Shi, S., Zhang, H., Ang, E. L. & Zhao, H., May 17 2016, Understanding Enzymes: Function, Design, Engineering and Analysis. Pan Stanford Publishing Pte. Ltd., p. 707-744 38 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

High-throughput Screening
Enzymes
Engineering

Microfluidic methods in single cell biology

Mukherjee, A. & Schroeder, C. M., Jan 1 2016, Microfluidic Methods for Molecular Biology. Springer International Publishing, p. 19-54 36 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Cytology
Microfluidics
Cell Biology
Cells
Molecular imaging

Microfluidics for Studying Pharmacodynamics of Antibiotics

Mohan, R., Desai, A. V., Sanpitakseree, C. & Kenis, P. J. A., Apr 29 2016, Micro- and Nanosystems for Biotechnology. Wiley, p. 177-202 26 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Pharmacodynamics
Microfluidics
Anti-Bacterial Agents
Microbial Sensitivity Tests
Pharmacokinetics

Microscopic Characterization of Membrane Transporter Function by In Silico Modeling and Simulation

Vermaas, J. V., Trebesch, N., Mayne, C. G., Thangapandian, S., Shekhar, M., Mahinthichaichan, P., Baylon, J. L., Jiang, T., Wang, Y., Muller, M. P., Shinn, E., Zhao, Z., Wen, P. C. & Tajkhorshid, E., 2016, Methods in Enzymology. Academic Press Inc., p. 373-428 56 p. (Methods in Enzymology; vol. 578).

Research output: Chapter in Book/Report/Conference proceedingChapter

Membrane Transport Proteins
Computer Simulation
Biological membranes
Membranes
Chemical Phenomena

Molecular imaging with spectral CT nanoprobes

Pan, D., Schmieder, A. H., SenPan, A., Yang, X., Wickline, S. A., Roessl, E., Proksa, R., Schirra, C. O. & Lanza, G. M., Jan 1 2016, Design and Applications of Nanoparticles in Biomedical Imaging. Springer International Publishing, p. 385-402 18 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Nanoprobes
Molecular imaging
Molecular Imaging
Tomography
Contrast Media

Noninvasive optical imaging of stem cell differentiation in biomaterials using photonic crystal surfaces

Choi, J. S., Zhuo, Y., Cunningham, B. T. & Harley, B. A. C., Nov 14 2016, Monitoring and Evaluation of Biomaterials and their Performance In Vivo. Elsevier Inc., p. 195-207 13 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Optics and Photonics
Optical Imaging
Biocompatible Materials
Cell Differentiation
Stem Cells

Theory of ultrasound physics and imaging

Lavarello, R. & Oelze, M. L., Jan 1 2016, Ultrasound Elastography for Biomedical Applications and Medicine. Wiley, p. 9-28 20 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Transducers
Physics
Ultrasonics
Imaging techniques
Ultrasonic imaging

Wave propagation in viscoelastic materials

Wang, Y. & Insana, M., Jan 1 2016, Ultrasound Elastography for Biomedical Applications and Medicine. Wiley, p. 118-127 10 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Wave propagation
Imaging techniques
Tissue
Shear waves
Surface waves
2015

Biomaterial Scaffolds for Tendon Tissue Engineering

Hortensius, R., Mozdzen, L. & Harley, B. A., Jan 1 2015, Tendon Regeneration: Understanding Tissue Physiology and Development to Engineer Functional Substitutes. Elsevier Inc., p. 349-380 32 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Biocompatible Materials
Tissue Engineering
Tendons
Cicatrix
Extracellular Matrix

Biophotonics for assessing breast cancer

Erickson-Bhatt, S. J. & Boppart, S. A., Jun 25 2015, Biophotonics for Medical Applications. Elsevier Inc., p. 175-214 40 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Imaging techniques
Optical tomography
Tumors
Infrared radiation
Mammography