Bioenergetics, Biodesign Center for (BE)

Research Output 2006 2019

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2019

Expanding the Scope of Protein Synthesis Using Modified Ribosomes

Dedkova, L. & Hecht, S., Apr 24 2019, In : Journal of the American Chemical Society. 141, 16, p. 6430-6447 18 p.

Research output: Contribution to journalArticle

Ribosomes
Peptides
Proteins
RNA
Amino acids
1 Citation (Scopus)

In Cellulo Synthesis of Proteins Containing a Fluorescent Oxazole Amino Acid

Chen, S., Ji, X., Gao, M., Dedkova, L. & Hecht, S., Apr 10 2019, In : Journal of the American Chemical Society. 141, 14, p. 5597-5601 5 p.

Research output: Contribution to journalArticle

Oxazoles
Amino acids
Proteins
Amino Acids
Escherichia coli

Influence of substrate temperature on properties of pyrite thin films deposited using a sequential coevaporation technique

Walimbe, A., Wertheim, A., Ravi, A., Kopas, C., Saxena, A., Singh, R., Lehner, S. W., Domenico, J., Makar, J., Carpenter, R. W., Buseck, P. R. & Newman, N., Jan 1 2019, In : Thin Solid Films. 669, p. 49-55 7 p.

Research output: Contribution to journalArticle

Pyrites
pyrites
Thin films
Substrates
thin films
2018

Better Resolution of High-Spin Cobalt Hyperfine at Low Frequency: Co-Doped Ba(Zn1/3Ta2/3)O₃ as a Model Complex

Antholine, W. E., Zhang, S., Gonzales, J. & Newman, N., Nov 9 2018, In : International Journal of Molecular Sciences. 19, 11

Research output: Contribution to journalArticle

Electron Spin Resonance Spectroscopy
Cobalt
Paramagnetic resonance
electron paramagnetic resonance
cobalt
2 Citations (Scopus)

Catalytic conversion of cyanobacteria-derived fatty acids to alkanes for biorenewable synthetic paraffinic kerosene

Schulz, T. C., Oelschlager, M., Thompson, S. T., Vermaas, W., Nielsen, D. & Lamb, H. H., Jan 1 2018, In : Sustainable Energy and Fuels. 2, 4, p. 882-893 12 p.

Research output: Contribution to journalArticle

Open Access
Kerosene
Fatty acids
Paraffins
Purification
Acids

Clean to dirty limit and T c suppression in NdFeAsO0.7F0.3 studied by H c2 analysis

Pallecchi, I., Tarantini, C., Shen, Y., Singh, R., Newman, N., Cheng, P., Jia, Y., Wen, H. H. & Putti, M., Feb 14 2018, In : Superconductor Science and Technology. 31, 3, 034007.

Research output: Contribution to journalArticle

retarding
Irradiation
slopes
Superconducting materials
irradiation
2 Citations (Scopus)

Effect of α-particle irradiation on a NdFeAs(O,F) thin film

Tarantini, C., Iida, K., Sumiya, N., Chihara, M., Hatano, T., Ikuta, H., Singh, R., Newman, N. & Larbalestier, D. C., Feb 5 2018, In : Superconductor Science and Technology. 31, 3, 034002.

Research output: Contribution to journalArticle

Irradiation
Thin films
irradiation
thin films
Point defects
3 Citations (Scopus)

Lipophilic methylene blue analogues enhance mitochondrial function and increase frataxin levels in a cellular model of Friedreich's ataxia

Khdour, O., Bandyopadhyay, I., Chowdhury, S. R., Visavadiya, N. P. & Hecht, S., Jan 1 2018, (Accepted/In press) In : Bioorganic and Medicinal Chemistry.

Research output: Contribution to journalArticle

Friedreich Ataxia
Methylene Blue
Lymphocytes
Neurodegenerative Diseases
Aconitate Hydratase

Magnetic properties of chromium-doped Ni80Fe20 thin films

Devonport, A., Vishina, A., Singh, R., Edwards, M., Zheng, K., Domenico, J., Rizzo, N. D., Kopas, C., van Schilfgaarde, M. & Newman, N., Aug 15 2018, In : Journal of Magnetism and Magnetic Materials. 460, p. 193-202 10 p.

Research output: Contribution to journalArticle

Chromium
chromium
Magnetic properties
magnetic properties
Thin films
5 Citations (Scopus)

Oligomeric amyloid β preferentially targets neuronal and not glial mitochondrial-encoded mRNAs

Mastroeni, D., Nolz, J., Khdour, O., Sekar, S., Delvaux, E., Cuyugan, L., Liang, W. S., Hecht, S. & Coleman, P., Jan 1 2018, (Accepted/In press) In : Alzheimer's and Dementia.

Research output: Contribution to journalArticle

coenzyme Q10
Amyloid
Neuroglia
Neurons
Alzheimer Disease
4 Citations (Scopus)

Poly-ligand profiling differentiates trastuzumab-treated breast cancer patients according to their outcomes

Domenyuk, V., Gatalica, Z., Santhanam, R., Wei, X., Stark, A., Kennedy, P., Toussaint, B., Levenberg, S., Wang, J., Xiao, N., Greil, R., Rinnerthaler, G., Gampenrieder, S. P., Heimberger, A. B., Berry, D. A., Barker, A., Quackenbush, J., Marshall, J. L., Poste, G., Vacirca, J. L. & 9 othersVidal, G. A., Schwartzberg, L. S., Halbert, D. D., Voss, A., Magee, D., Miglarese, M. R., Famulok, M., Mayer, G. & Spetzler, D., Dec 1 2018, In : Nature Communications. 9, 1, 1219.

Research output: Contribution to journalArticle

breast
cancer
Breast Neoplasms
Ligands
ligands
2 Citations (Scopus)

Rapid detection of a dengue virus RNA sequence with single molecule sensitivity using tandem toehold-mediated displacement reactions

Gao, M., Daniel, D., Zou, H., Jiang, S., Lin, S., Huang, C., Hecht, S. & Chen, S., Jan 1 2018, In : Chemical Communications. 54, 8, p. 968-971 4 p.

Research output: Contribution to journalArticle

RNA
Viruses
DNA
Molecules
Amplification

Switching microwave dielectric resonators from a high-Q on state to an off state using low-field electron paramagnetic resonance transitions

Gonzales, J., Zhang, C., Gajare, S. G. & Newman, N., Jul 30 2018, In : Applied Physics Letters. 113, 5, 052903.

Research output: Contribution to journalArticle

microwave switching
Q factors
electron paramagnetic resonance
resonators
impurities
2017
4 Citations (Scopus)

Converging and emerging threats to health security

Raina Macintyre, C., Engells, T. E., Scotch, M., Heslop, D. J., Gumel, A., Poste, G., Chen, X., Herche, W., Steinhöfel, K., Lim, S. & Broom, A., Nov 27 2017, (Accepted/In press) In : Environment Systems and Decisions. p. 1-10 10 p.

Research output: Contribution to journalArticle

biological weapon
regulatory framework
Cold War
medicine
health care
8 Citations (Scopus)

DNA-affibody nanoparticles for inhibiting breast cancer cells overexpressing HER2

Zhang, Y., Jiang, S., Zhang, D., Bai, X., Hecht, S. & Chen, S., 2017, In : Chemical Communications. 53, 3, p. 573-576 4 p.

Research output: Contribution to journalArticle

DNA
Cells
Nanoparticles
Doxorubicin
Molecules
8 Citations (Scopus)

Enhanced Binding Affinity for an i-Motif DNA Substrate Exhibited by a Protein Containing Nucleobase Amino Acids

Bai, X., Talukder, P., Daskalova, S. M., Roy, B., Chen, S., Li, Z., Dedkova, L. & Hecht, S., Apr 5 2017, In : Journal of the American Chemical Society. 139, 13, p. 4611-4614 4 p.

Research output: Contribution to journalArticle

Nucleotide Motifs
Amino acids
DNA
Proteins
Amino Acids
6 Citations (Scopus)

Fundamental mechanisms responsible for the temperature coefficient of resonant frequency in microwave dielectric ceramics

Zhang, S., Sahin, H., Torun, E., Peeters, F., Martien, D., DaPron, T., Dilley, N. & Newman, N., Apr 1 2017, In : Journal of the American Ceramic Society. 100, 4, p. 1508-1516 9 p.

Research output: Contribution to journalArticle

Natural frequencies
Microwaves
Microwave resonators
Magnetic permeability
Temperature
2 Citations (Scopus)

Improvement in the magnetic properties of NiFe thin films on thick Nb electrodes using oxidation and low energy Ar ion milling

Singh, R., Rizzo, N., Bertram, M., Zheng, K. & Newman, N., Nov 18 2017, (Accepted/In press) In : IEEE Magnetics Letters.

Research output: Contribution to journalArticle

Magnetic properties
Ions
Coercive force
Thin films
Oxidation
5 Citations (Scopus)

Incorporation of Phosphorylated Tyrosine into Proteins: In Vitro Translation and Study of Phosphorylated IκB-α and Its Interaction with NF-κB

Chen, S., Maini, R., Bai, X., Nangreave, R. C., Dedkova, L. & Hecht, S., Oct 11 2017, In : Journal of the American Chemical Society. 139, 40, p. 14098-14108 11 p.

Research output: Contribution to journalArticle

Tyrosine
Proteins
Puromycin
Phosphotyrosine
Ribosomes
3 Citations (Scopus)

Influence of substituent heteroatoms on the cytoprotective properties of pyrimidinol antioxidants

Chevalier, A., Khdour, O., Schmierer, M., Bandyopadhyay, I. & Hecht, S., Mar 1 2017, In : Bioorganic and Medicinal Chemistry. 25, 5, p. 1703-1716 14 p.

Research output: Contribution to journalArticle

Antioxidants
Mitochondrial Diseases
Liver Microsomes
Electron Transport
Bioactivity

Inhibition of Human Cancer Cell Growth by Analogues of Antimycin A

Zhang, Y., Chevalier, A., Khdour, O., Soto, L. M. & Hecht, S., May 20 2017, (Accepted/In press) In : Planta Medica.

Research output: Contribution to journalArticle

Antimycin A
Cell growth
Cells
Growth
Mitochondria
1 Citation (Scopus)

Large Uniaxial Anisotropy Induced in Soft Ferromagnetic Thin Films by Oblique Deposition of Underlayer

Singh, R., Rizzo, N. D., Boochakravarthy, A. & Newman, N., Nov 29 2017, (Accepted/In press) In : IEEE Magnetics Letters.

Research output: Contribution to journalArticle

Magnetic devices
Anisotropy
Data storage equipment
Thin films
Ions
2 Citations (Scopus)

Lipophilic methylene violet analogues as modulators of mitochondrial function and dysfunction

Roy Chowdhury, S., Khdour, O., Bandyopadhyay, I. & Hecht, S., Oct 15 2017, In : Bioorganic and Medicinal Chemistry. 25, 20, p. 5537-5547 11 p.

Research output: Contribution to journalArticle

Modulators
Friedreich Ataxia
Lymphocytes
Methylene Blue
Antioxidants
4 Citations (Scopus)

Origin of dielectric loss in Ba(Co1/3Nb2/3)O3 microwave ceramics

Sayyadi-Shahraki, A., Taheri-Nassaj, E., Sharifi, H., Gonzales, J., Kolodiazhnyi, T. & Newman, N., Jan 1 2017, (Accepted/In press) In : Journal of the American Ceramic Society.

Research output: Contribution to journalArticle

Dielectric losses
ceramics
Microwaves
temperature
magnetic field
10 Citations (Scopus)

Plasma Exosome Profiling of Cancer Patients by a Next Generation Systems Biology Approach

Domenyuk, V., Zhong, Z., Stark, A., Xiao, N., O'Neill, H. A., Wei, X., Wang, J., Tinder, T. T., Tonapi, S., Duncan, J., Hornung, T., Hunter, A., Miglarese, M. R., Schorr, J., Halbert, D. D., Quackenbush, J., Poste, G., Berry, D. A., Mayer, G., Famulok, M. & 1 othersSpetzler, D., Feb 20 2017, In : Scientific Reports. 7, 42741.

Research output: Contribution to journalArticle

Exosomes
Systems Biology
Oligodeoxyribonucleotides
Ligands
Neoplasms
2 Citations (Scopus)

Probing the Flexibility of the Catalytic Nucleophile in the Lyase Catalytic Pocket of Human DNA Polymerase β with Unnatural Lysine Analogues

Daskalova, S. M., Bhattacharya, C., Dedkova, L. & Hecht, S., Jan 24 2017, In : Biochemistry. 56, 3, p. 500-513 14 p.

Research output: Contribution to journalArticle

Nucleophiles
Lyases
Schiff Bases
DNA-Directed DNA Polymerase
Lysine
3 Citations (Scopus)

The magnetic, electrical and structural properties of copper-permalloy alloys

Qader, M. A., Vishina, A., Yu, L., Garcia, C., Singh, R., Rizzo, N. D., Huang, M., Chamberlin, R., Belashchenko, K. D., van Schilfgaarde, M. & Newman, N., Nov 15 2017, In : Journal of Magnetism and Magnetic Materials. 442, p. 45-52 8 p.

Research output: Contribution to journalArticle

Copper alloys
Permalloys (trademark)
Structural properties
Magnetic properties
Electric properties
2016

In-situ electron paramagnetic resonance studies of paramagnetic point defects in superconducting microwave resonators

Zhang, S., Kopas, C., Wagner, B., Queen, D. & Newman, N., Sep 19 2016, In : Applied Physics Letters. 109, 12, 122602.

Research output: Contribution to journalArticle

point defects
electron paramagnetic resonance
resonators
microwaves
parallel plates
44 Citations (Scopus)

Mitochondrial Nitroreductase Activity Enables Selective Imaging and Therapeutic Targeting

Chevalier, A., Zhang, Y., Khdour, O., Kaye, J. B. & Hecht, S., Sep 21 2016, In : Journal of the American Chemical Society. 138, 37, p. 12009-12012 4 p.

Research output: Contribution to journalArticle

Nitroreductases
Mitochondria
Imaging techniques
Organelles
Trypanosomiasis
15 Citations (Scopus)

Nuclear but not mitochondrial-encoded OXPHOS genes are altered in aging, mild cognitive impairment, and Alzheimer's disease

Mastroeni, D., Khdour, O., Delvaux, E., Nolz, J., Olsen, G., Berchtold, N., Cotman, C., Hecht, S. & Coleman, P., 2016, (Accepted/In press) In : Alzheimer's and Dementia.

Research output: Contribution to journalArticle

Oxidative Phosphorylation
Alzheimer Disease
Genes
Mitochondrial DNA
Disease Progression
7 Citations (Scopus)

Optimization of pyrimidinol antioxidants as mitochondrial protective agents: ATP production and metabolic stability

Chevalier, A., Alam, M. P., Khdour, O., Schmierer, M., Arce, P. M., Cripe, C. D. & Hecht, S., Nov 1 2016, In : Bioorganic and Medicinal Chemistry. 24, 21, p. 5206-5220 15 p.

Research output: Contribution to journalArticle

Protective Agents
Antioxidants
Adenosine Triphosphate
Mitochondrial Diseases
Mitochondrial Membrane Potential
6 Citations (Scopus)

Prioritization schema for immunotherapy clinical trials in glioblastoma

Hodges, T. R., Ferguson, S. D., Caruso, H. G., Kohanbash, G., Zhou, S., Cloughesy, T. F., Berger, M. S., Poste, G., Khasraw, M., Ba, S., Jiang, T., Mikkelson, T., Yung, W. K. A., de Groot, J. F., Fine, H., Cantley, L. C., Mellinghoff, I. K., Mitchell, D. A., Okada, H. & Heimberger, A. B., May 16 2016, (Accepted/In press) In : OncoImmunology.

Research output: Contribution to journalArticle

Glioblastoma
Immunotherapy
Clinical Trials
Hope
Therapeutics
5 Citations (Scopus)

Selective Functionalization of Antimycin A Through an N-Transacylation Reaction

Chevalier, A., Zhang, Y., Khdour, O. & Hecht, S., May 20 2016, In : Organic Letters. 18, 10, p. 2395-2398 4 p.

Research output: Contribution to journalArticle

Antimycin A
Derivatives
Acylation
lungs
Salicylates
6 Citations (Scopus)

Synthesis and evaluation of a library of fluorescent dipeptidomimetic analogues as substrates for modified bacterial ribosomes

Chowdhury, S. R., Chauhan, P. S., Dedkova, L., Bai, X., Chen, S., Talukder, P. & Hecht, S., May 3 2016, In : Biochemistry. 55, 17, p. 2427-2440 14 p.

Research output: Contribution to journalArticle

Ribosomes
Fluorophores
Libraries
Green Fluorescent Proteins
Oxazoles
7 Citations (Scopus)
darkness
cytochromes
electron transfer
membranes
Membranes
2015
16 Citations (Scopus)

A dedicated type II NADPH dehydrogenase performs the penultimate step in the biosynthesis of vitamin K<inf>1</inf> in synechocystis and arabidopsis

Fatihi, A., Latimer, S., Schmollinger, S., Block, A., Dussault, P. H., Vermaas, W., Merchant, S. S. & Basset, G. J., Jun 1 2015, In : Plant Cell. 27, 6, p. 1730-1741 12 p.

Research output: Contribution to journalArticle

Vitamin K 1
Synechocystis
phylloquinone
NADPH Dehydrogenase
vitamin K
12 Citations (Scopus)

Beyond Ebola: Lessons to mitigate future pandemics

Castillo-Chavez, C., Curtiss, R., Daszak, P., Levin, S. A., Patterson-Lomba, O., Perrings, C., Poste, G. & Towers, S., Jul 1 2015, In : The Lancet Global Health. 3, 7, p. e354-e355

Research output: Contribution to journalArticle

Ebola Hemorrhagic Fever
Ebolavirus
Communicable Disease Control
Pandemics
Global Health
1 Citation (Scopus)

Breaking down silos for improved biomarker development: An interview with George Poste

Poste, G., Nov 1 2015, In : Expert Review of Molecular Diagnostics. 15, 8, p. 975-978 4 p.

Research output: Contribution to journalArticle

Exosomes
Biomarkers
Interviews
21 Citations (Scopus)

Cyanotryptophans as Novel Fluorescent Probes for Studying Protein Conformational Changes and DNA-Protein Interaction

Talukder, P., Chen, S., Roy, B., Yakovchuk, P., Spiering, M. M., Alam, M. P., Madathil, M. M., Bhattacharya, C., Benkovic, S. J. & Hecht, S., Dec 29 2015, In : Biochemistry. 54, 51, p. 7457-7469 13 p.

Research output: Contribution to journalArticle

Fluorescent Dyes
DNA Polymerase I
Heterogeneous-Nuclear Ribonucleoprotein L
Energy Transfer
Energy transfer
8 Citations (Scopus)

Derivatives of mesoxalic acid block translocation of HIV-1 reverse transcriptase

Bernatchez, J. A., Paul, R., Tchesnokov, E. P., Ngure, M., Beilhartz, G. L., Berghuis, A. M., Lavoie, R., Li, L., Auger, A., Melnyk, R. A., Grobler, J. A., Miller, M. D., Hazuda, D. J., Hecht, S. & Götte, M., Jan 16 2015, In : Journal of Biological Chemistry. 290, 3, p. 1474-1484 11 p.

Research output: Contribution to journalArticle

HIV-1
Foscarnet
Derivatives
RNA-Directed DNA Polymerase
Metal ions
10 Citations (Scopus)

Expedited quantification of mutant ribosomal RNA by binary deoxyribozyme (BiDz) sensors

Gerasimova, Y. V., Yakovchuk, P., Dedkova, L., Hecht, S. & Kolpashchikov, D. M., Oct 1 2015, In : RNA. 21, 10, p. 1834-1843 10 p.

Research output: Contribution to journalArticle

Catalytic DNA
Ribosomal RNA
Mutation
Cell Culture Techniques
Molecular Cloning
2 Citations (Scopus)

Fluorescent CD4 probe for potential HIV-1 gp120 protein detection

Wang, Z., Talukder, P., Hecht, S. & Chen, S., Mar 15 2015, In : Bioorganic and Medicinal Chemistry Letters. 25, 6, p. 1182-1185 4 p.

Research output: Contribution to journalArticle

Fluorescent Dyes
Tryptophan
HIV-1
Fluorescence
Evans Blue
11 Citations (Scopus)

Main source of microwave loss in transition-metal-doped Ba(Zn1/3Ta2/3)O3and Ba(Zn1/3Nb2/3)O3at cryogenic temperatures

Zhang, S., Devonport, A. & Newman, N., 2015, In : Journal of the American Ceramic Society. 98, 4, p. 1188-1194 7 p.

Research output: Contribution to journalArticle

Cryogenics
Transition metals
Microwaves
Paramagnetic resonance
Magnetic fields
8 Citations (Scopus)

Nanoporous delafossite CuAlO2 from inorganic/polymer double gels: A desirable high-surface-area p-type transparent electrode material

Das, B., Renaud, A., Volosin, A. M., Yu, L., Newman, N. & Seo, D., Feb 2 2015, In : Inorganic Chemistry. 54, 3, p. 1100-1108 9 p.

Research output: Contribution to journalArticle

Inorganic polymers
electrode materials
crystallinity
photoelectrochemical devices
Gels
9 Citations (Scopus)
Mitochondria
Amyloid
Epigenomics
Antioxidants
Maintenance
23 Citations (Scopus)

Protein Synthesis with Ribosomes Selected for the Incorporation of β-Amino Acids

Maini, R., Chowdhury, S. R., Dedkova, L., Roy, B., Daskalova, S. M., Paul, R., Chen, S. & Hecht, S., Jun 16 2015, In : Biochemistry. 54, 23, p. 3694-3706 13 p.

Research output: Contribution to journalArticle

Puromycin
Ribosomes
Alanine
Tetrahydrofolate Dehydrogenase
Amino Acids
204 Citations (Scopus)

Redesigning photosynthesis to sustainably meet global food and bioenergy demand

Ort, D. R., Merchant, S. S., Alric, J., Barkan, A., Blankenship, R. E., Bock, R., Croce, R., Hanson, M. R., Hibberd, J. M., Long, S. P., Moore, T., Moroney, J., Niyogi, K. K., Parry, M. A. J., Peralta-Yahya, P. P., Prince, R. C., Redding, K., Spalding, M. H., Van Wijk, K. J., Vermaas, W. & 5 othersVon Caemmerer, S., Weber, A. P. M., Yeates, T. O., Yuan, J. S. & Zhu, X. G., Jul 14 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 28, p. 8529-8536 8 p.

Research output: Contribution to journalArticle

Photosynthesis
Synthetic Biology
Food
Biofuels
Population Growth
22 Citations (Scopus)

Ribosome-Mediated Incorporation of Dipeptides and Dipeptide Analogues into Proteins in Vitro

Maini, R., Dedkova, L., Paul, R., Madathil, M. M., Chowdhury, S. R., Chen, S. & Hecht, S., Sep 9 2015, In : Journal of the American Chemical Society. 137, 35, p. 11206-11209 4 p.

Research output: Contribution to journalArticle

Dipeptides
Ribosomes
Proteins
Puromycin
Clone Cells
8 Citations (Scopus)

Synthesis of fluorescent dipeptidomimetics and their ribosomal incorporation into green fluorescent protein

Roy Chowdhury, S., Maini, R., Dedkova, L. & Hecht, S., May 8 2015, In : Bioorganic and Medicinal Chemistry Letters. 25, 21, p. 4715-4718 4 p.

Research output: Contribution to journalArticle

Green Fluorescent Proteins
Oxazoles
Thiazoles
Fluorophores
2,4-bis(4-methoxyphenyl)-1,3,2,4-dithiadiphosphetane-2,4-disulfide
11 Citations (Scopus)
Biomarkers
Research
Precision Medicine
Practice Guidelines
Private Sector