Research Output 1960 2018

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Review article
2018

Alley cropping: Global patterns of species composition and function

Wolz, K. J. & DeLucia, E. H. Jan 15 2018 In : Agriculture, Ecosystems and Environment. 252, p. 61-68 8 p.

Research output: Research - peer-reviewReview article

alley cropping
species diversity
crop
crops
Populus

CryoEM-based hybrid modeling approaches for structure determination

Cassidy, C. K., Himes, B. A., Luthey-Schulten, Z. & Zhang, P. Jun 1 2018 In : Current Opinion in Microbiology. 43, p. 14-23 10 p.

Research output: Research - peer-reviewReview article

Cryoelectron Microscopy
Surveys and Questionnaires

Fatigue behavior of high-entropy alloys: A review

Chen, P. Y., Lee, C., Wang, S. Y., Seifi, M., Lewandowski, J. J., Dahmen, K. A., Jia, H. L., Xie, X., Chen, B. L., Yeh, J. W., Tsai, C. W., Yuan, T. & Liaw, P. K. Feb 1 2018 In : Science China Technological Sciences. 61, 2, p. 168-178 11 p.

Research output: Research - peer-reviewReview article

Entropy
Fatigue of materials
Fatigue crack propagation
Bending (deformation)
Solid solutions

Recent developments in the application of P450 based biocatalysts

Wei, Y., Ang, E. L. & Zhao, H. Apr 1 2018 In : Current Opinion in Chemical Biology. 43, p. 1-7 7 p.

Research output: Research - peer-reviewReview article

Mixed Function Oxygenases
Enzymes
Biological Products
Cytochrome P-450 Enzyme System
Biosynthesis
2017

27-Hydroxycholesterol, an endogenous selective estrogen receptor modulator

He, S. & Nelson, E. R. Oct 1 2017 In : Maturitas. 104, p. 29-35 7 p.

Research output: Research - peer-reviewReview article

Selective Estrogen Receptor Modulators
Estrogen Receptors
Cholesterol
27-hydroxycholesterol
Pharmacology

Adolescence and reward: Making sense of neural and behavioral changes amid the chaos

Walker, D. M., Bell, M. R., Flores, C., Gulley, J. M., Willing, J. & Paul, M. J. Nov 8 2017 In : Journal of Neuroscience. 37, 45, p. 10855-10866 12 p.

Research output: Research - peer-reviewReview article

Reward
Hormones
Pharmaceutical Preparations
Adolescent Development
Social Isolation

Advances in the development of aptamer drug conjugates for targeted drug delivery

Chen, K., Liu, B., Yu, B., Zhong, W., Lu, Y., Zhang, J., Liao, J., Liu, J., Pu, Y., Qiu, L., Zhang, L., Liu, H. & Tan, W. May 1 2017 In : Wiley Interdisciplinary Reviews: Nanomedicine and Nanobiotechnology. 9, 3, e1438

Research output: Research - peer-reviewReview article

Pharmaceutical Preparations
Targeted drug delivery
Therapeutics
Oligonucleotides
Biomarkers

A New Era of Genome Integration - Simply Cut and Paste!

Liu, Z., Liang, Y., Ang, E. L. & Zhao, H. Apr 21 2017 In : ACS Synthetic Biology. 6, 4, p. 601-609 9 p.

Research output: Research - peer-reviewReview article

Ointments
Genome
Genes
Homologous Recombination
Synthetic Biology

Bacteriophage removal efficiency as a validation and operational monitoring tool for virus reduction in wastewater reclamation: Review

Amarasiri, M., Kitajima, M., Nguyen, T. H., Okabe, S. & Sano, D. Jan 1 2017 In : Water Research. 121, p. 258-269 12 p.

Research output: Research - peer-reviewReview article

bacteriophage
virus
wastewater
monitoring
removal

Bio-nano interface: The impact of biological environment on nanomaterials and their delivery properties

Cai, K., Wang, A. Z., Yin, L. & Cheng, J. Oct 10 2017 In : Journal of Controlled Release. 263, p. 211-222 12 p.

Research output: Research - peer-reviewReview article

Nanomedicine
Nanostructures
Medicine

Biosynthetic approach to modeling and understanding metalloproteins using unnatural amino acids

Yu, Y., Cui, C., Wang, J. & Lu, Y. Feb 1 2017 In : Science China Chemistry. 60, 2, p. 188-200 13 p.

Research output: Research - peer-reviewReview article

Metalloproteins
Amino Acids
Azurin
Ribonucleotide Reductases
Catalysts

Breaking the silence: new strategies for discovering novel natural products

Ren, H., Wang, B. & Zhao, H. Dec 1 2017 In : Current Opinion in Biotechnology. 48, p. 21-27 7 p.

Research output: Research - peer-reviewReview article

Biological Products
Genes
Multigene Family
Throughput
Pharmaceutical Preparations

Categorizing Cells on the Basis of their Chemical Profiles: Progress in Single-Cell Mass Spectrometry

Comi, T. J., Do, T. D., Rubakhin, S. S. & Sweedler, J. V. Mar 22 2017 In : Journal of the American Chemical Society. 139, 11, p. 3920-3929 10 p.

Research output: Research - peer-reviewReview article

amplification
metabolite
mass spectrometry
chemical
Metabolites

Clinical translation of handheld optical coherence tomography: Practical considerations and recent advancements

Monroy, G. L., Won, J., Spillman, D. R., Dsouza, R. & Boppart, S. A. Dec 1 2017 In : Journal of Biomedical Optics. 22, 12, 121715

Research output: Research - peer-reviewReview article

plasma diagnostics
medicine
tomography
optical properties
Approximation theory

Computational optical coherence tomography [invited]

Liu, Y. Z., South, F. A., Xu, Y., Scott Carney, P. & Boppart, S. A. Mar 1 2017 In : Biomedical Optics Express. 8, 3, p. 1549-1574 26 p.

Research output: Research - peer-reviewReview article

imaging techniques
tomography
Optical Coherence Tomography
aberration
high speed

Consensus, uncertainties and challenges for perennial bioenergy crops and land use

Whitaker, J., Field, J. L., Bernacchi, C. J., Cerri, C. E. P., Ceulemans, R., Davies, C. A., DeLucia, E. H., Donnison, I. S., McCalmont, J. P., Paustian, K., Rowe, R. L., Smith, P., Thornley, P. & McNamara, N. P. Jan 1 2017 (Accepted/In press) In : GCB Bioenergy. 10, 3, p. 150-164 15 p.

Research output: Research - peer-reviewReview article

energy crops
uncertainty
land use
bioenergy
crop

Developmental Origins of Hypothalamic Cells Controlling Reproduction

Biehl, M. J. & Raetzman, L. T. Mar 1 2017 In : Seminars in Reproductive Medicine. 35, 2, p. 121-129 9 p.

Research output: Research - peer-reviewReview article

Hypothalamus
Reproduction
Kisspeptins
Gonadal Hormones
Anterior Hypothalamus

Dietary fiber and prebiotics and the gastrointestinal microbiota

Holscher, H. D. Mar 4 2017 In : Gut Microbes. 8, 2, p. 172-184 13 p.

Research output: Research - peer-reviewReview article

Prebiotics
Dietary Fiber
Gastrointestinal Microbiome
Microbiota
Polysaccharides

DNAzyme sensors for detection of metal ions in the environment and imaging them in living cells

McGhee, C. E., Loh, K. Y. & Lu, Y. Jun 1 2017 In : Current Opinion in Biotechnology. 45, p. 191-201 11 p.

Research output: Research - peer-reviewReview article

Metal ions
Cells
Imaging techniques
Sensors
Catalytic DNA

Dynamic Thermal management for aerospace technology: Review and outlook

Doty, J., Yerkes, K., Byrd, L., Murthy, J., Alleyne, A., Wolff, M., Heister, S. & Fisher, T. S. Jan 1 2017 In : Journal of Thermophysics and Heat Transfer. 31, 1, p. 86-98 13 p.

Research output: Research - peer-reviewReview article

energy
electric power
aerospace vehicles
chemical energy
propulsion

Engineering biological systems using automated biofoundries

Chao, R., Mishra, S., Si, T. & Zhao, H. Jul 1 2017 In : Metabolic Engineering. 42, p. 98-108 11 p.

Research output: Research - peer-reviewReview article

Foundries
Biological systems
Biotechnology
Industrial plants
Networks (circuits)

Escapement mechanisms and the conversion of disequilibria; the engines of creation

Branscomb, E., Biancalani, T., Goldenfeld, N. & Russell, M. Mar 17 2017 In : Physics Reports. 677, p. 1-60 60 p.

Research output: Research - peer-reviewReview article

engines
energy
cascades
free energy
causes

Fundamental deformation behavior in high-entropy alloys: An overview

Diao, H. Y., Feng, R., Dahmen, K. A. & Liaw, P. K. Oct 1 2017 In : Current Opinion in Solid State and Materials Science. 21, 5, p. 252-266 15 p.

Research output: Research - peer-reviewReview article

Entropy
Mechanical properties
Transition metals
Refractory metals
Twinning

Genome-Scale Metabolic Modeling of Archaea Lends Insight into Diversity of Metabolic Function

Thor, S., Peterson, J. R. & Luthey-Schulten, Z. Jan 1 2017 In : Archaea. 2017, 9763848

Research output: Research - peer-reviewReview article

Archaea
Metabolic Networks and Pathways
Genome
genome
modeling

Glucocorticoids and gut bacteria: “The GALF Hypothesis” in the metagenomic era

Morris, D. J. & Ridlon, J. M. Jan 1 2017 In : Steroids. 125, p. 1-13 13 p.

Research output: Research - peer-reviewReview article

11-beta-Hydroxysteroid Dehydrogenases
Metagenomics
Glucocorticoids
Bacteria
Acids

Go it alone: four-electron oxidations by mononuclear non-heme iron enzymes

Peck, S. C. & van der Donk, W. A. Apr 1 2017 In : Journal of Biological Inorganic Chemistry. 22, 2-3, p. 381-394 14 p.

Research output: Research - peer-reviewReview article

Iron
Oxidation
Electrons
Enzymes
Substrates

Human milk oligosaccharides influence neonatal mucosal and systemic immunity

Donovan, S. M. & Comstock, S. S. Jan 1 2017 In : Annals of Nutrition and Metabolism. 69, 2, p. 42-51 10 p.

Research output: Research - peer-reviewReview article

Mucosal Immunity
Human Milk
Oligosaccharides
Infant Formula
Milk

Individualized knowledge graph: a viable informatics path to precision medicine

Ping, P., Watson, K., Han, J. & Bui, A. Mar 31 2017 In : Circulation Research. 120, 7, p. 1078-1080 3 p.

Research output: Research - peer-reviewReview article

Precision Medicine
Informatics
Data Mining
Artificial Intelligence
Machine Learning

Innovative techniques for evaluating behavioral nutrition interventions

Scherr, R. E., Laugero, K. D., Graham, D. J., Cunningham, B. T., Jahns, L., Lora, K. R., Reicks, M. & Mobley, A. R. Jan 1 2017 In : Advances in Nutrition. 8, 1, p. 113-125 13 p.

Research output: Research - peer-reviewReview article

nutritional intervention
methodology
Biosensing Techniques
Carotenoids
Research Personnel

Integrating Personality Structure, Personality Process, and Personality Development

Baumert, A., Schmitt, M., Perugini, M., Johnson, W., Blum, G., Borkenau, P., Costantini, G., Denissen, J. J. A., Fleeson, W., Grafton, B., Jayawickreme, E., Kurzius, E., MacLeod, C., Miller, L. C., Read, S. J., Roberts, B., Robinson, M. D., Wood, D. & Wrzus, C. Sep 1 2017 In : European Journal of Personality. 31, 5, p. 503-528 26 p.

Research output: Research - peer-reviewReview article

Personality Development
Personality
Psychology
Individuality
Emotions

Integration of microfluidics in animal in vitro embryo production

Wheeler, M. B. & Rubessa, M. Jan 1 2017 In : Molecular Human Reproduction. 23, 4, p. 248-256 9 p.

Research output: Research - peer-reviewReview article

Microfluidics
Embryonic Structures
In Vitro Techniques
Mammalian Embryo
Livestock

Intersections of post-transcriptional gene regulatory mechanisms with intermediary metabolism

Arif, W., Datar, G. & Kalsotra, A. Mar 1 2017 In : Biochimica et Biophysica Acta - Gene Regulatory Mechanisms. 1860, 3, p. 349-362 14 p.

Research output: Research - peer-reviewReview article

Regulator Genes
Enzymes
Metabolism
Genes
Allosteric Regulation

Lamina-Associated Domains: Links with Chromosome Architecture, Heterochromatin, and Gene Repression

van Steensel, B. & Belmont, A. S. May 18 2017 In : Cell. 169, 5, p. 780-791 12 p.

Research output: Research - peer-reviewReview article

Nuclear Lamina
Heterochromatin
Chromosomes
Genes
Gene expression

Limb development: A paradigm of gene regulation

Petit, F., Sears, K. E. & Ahituv, N. Apr 1 2017 In : Nature Reviews Genetics. 18, 4, p. 245-258 14 p.

Research output: Research - peer-reviewReview article

Extremities
Genes
Developmental Biology
Systems Biology
Forelimb

Long-term evolution of viruses: A Janus-faced balance

Nasir, A., Kim, K. M. & Caetano-Anollés, G. Aug 1 2017 In : BioEssays. 39, 8, 1700026

Research output: Research - peer-reviewReview article

Viruses
Long Term Evolution (LTE)
Virus Latency
Symbiosis
Metagenomics

Mechanisms of gene flow in archaea

Wagner, A., Whitaker, R. J., Krause, D. J., Heilers, J. H., Van Wolferen, M., Van Der Does, C. & Albers, S. V. Aug 1 2017 In : Nature Reviews Microbiology. 15, 8, p. 492-501 10 p.

Research output: Research - peer-reviewReview article

Gene Flow
Archaea
Genes
Archaeal DNA
Horizontal Gene Transfer

Mechanisms of Salmonella pathogenesis in animal models

Palmer, A. D. & Slauch, J. M. Nov 17 2017 In : Human and Ecological Risk Assessment. 23, 8, p. 1877-1892 16 p.

Research output: Research - peer-reviewReview article

Salmonella
Animal Models
animal
salmonella
Animals

Metabolic engineering of oleaginous yeasts for production of fuels and chemicals

Shi, S. & Zhao, H. Nov 8 2017 In : Frontiers in Microbiology. 8, NOV, 2185

Research output: Research - peer-reviewReview article

Metabolic Engineering
Yeasts
Genetic Engineering
Lipids
Lipomyces

Metabolic engineering of yeast for lignocellulosic biofuel production

Jin, Y. S. & Cate, J. H. D. Dec 1 2017 In : Current Opinion in Chemical Biology. 41, p. 99-106 8 p.

Research output: Research - peer-reviewReview article

Metabolic Engineering
Biofuels
Yeasts
Metabolic engineering
Biomass

Mimivirus: Leading the way in the discovery of giant viruses of amoebae

Colson, P., La Scola, B., Levasseur, A., Caetano-Anollés, G. & Raoult, D. Mar 13 2017 In : Nature Reviews Microbiology. 15, 4, p. 243-254 12 p.

Research output: Research - peer-reviewReview article

Mimiviridae
Amoeba
Giant Viruses
Viruses
Virophages

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

Bowers, R. M. , Kyrpides, N. C. , Stepanauskas, R. , Harmon-Smith, M. , Doud, D. , Reddy, T. B. K. , Schulz, F. , Jarett, J. , Rivers, A. R. , Eloe-Fadrosh, E. A. , Tringe, S. G. , Ivanova, N. N. , Copeland, A. , Clum, A. , Becraft, E. D. , Malmstrom, R. R. , Birren, B. , Podar, M. , Bork, P. , Weinstock, G. M. & 35 others Garrity, G. M., Dodsworth, J. A., Yooseph, S., Sutton, G., Glöckner, F. O., Gilbert, J. A., Nelson, W. C., Hallam, S. J., Jungbluth, S. P., Ettema, T. J. G., Tighe, S., Konstantinidis, K. T., Liu, W. T., Baker, B. J., Rattei, T., Eisen, J. A., Hedlund, B., McMahon, K. D., Fierer, N., Knight, R., Finn, R., Cochrane, G., Karsch-Mizrachi, I., Tyson, G. W., Rinke, C., Lapidus, A., Meyer, F., Yilmaz, P., Parks, D. H., Eren, A. M., Schriml, L., Banfield, J. F., Hugenholtz, P., Woyke, T. & The Genome Standards Consortium Aug 8 2017 In : Nature Biotechnology. 35, 8, p. 725-731 7 p.

Research output: Research - peer-reviewReview article

Metagenome
Archaea
Genome
Bacteria
Genes

Modification of the Genome of Domestic Animals

Lotti, S. N., Polkoff, K. M., Rubessa, M. & Wheeler, M. B. Jul 3 2017 In : Animal Biotechnology. 28, 3, p. 198-210 13 p.

Research output: Research - peer-reviewReview article

domestic animals
genome
methodology
Domestic Animals
Genome
Myotonic Dystrophy
Penetrance
Genetic Testing
Age of Onset
Phenotype

Nanodiscs in Membrane Biochemistry and Biophysics

Denisov, I. G. & Sligar, S. G. Mar 22 2017 In : Chemical Reviews. 117, 6, p. 4669-4713 45 p.

Research output: Research - peer-reviewReview article

Biochemistry
Membranes
Metabolism
Chemical analysis

Phenotypic plasticity and remodeling in the stress-induced Caenorhabditis elegans dauer

Androwski, R. J., Flatt, K. M. & Schroeder, N. E. Sep 1 2017 In : Wiley Interdisciplinary Reviews: Developmental Biology. 6, 5, e278

Research output: Research - peer-reviewReview article

Caenorhabditis elegans
Osmoregulation
Aptitude
Neuroglia
Neurons

Photonic crystals: Emerging biosensors and their promise for point-of-care applications

Inan, H., Poyraz, M., Inci, F., Lifson, M. A., Baday, M., Cunningham, B. T. & Demirci, U. Jan 21 2017 In : Chemical Society Reviews. 46, 2, p. 366-388 23 p.

Research output: Research - peer-reviewReview article

Photonic crystals
Biosensors
Telemedicine
Intelligent materials
Metamaterials

Potential impacts of changing supply-water quality on drinking water distribution: A review

Liu, G., Zhang, Y., Knibbe, W. J., Feng, C., Liu, W., Medema, G. & van der Meer, W. Jan 1 2017 In : Water Research. 116, p. 135-148 14 p.

Research output: Research - peer-reviewReview article

drinking water
water quality
distribution
Potable water
Water

Potential of global croplands and bioenergy crops for climate change mitigation through deployment for enhanced weathering

Kantola, I. B., Masters, M. D., Beerling, D. J., Long, S. P. & DeLucia, E. H. Apr 1 2017 In : Biology Letters. 13, 4, 0714

Research output: Research - peer-reviewReview article

energy crops
weathering
climate change
cropland
Climate Change

Production of fuels and chemicals from xylose by engineered Saccharomyces cerevisiae: A review and perspective

Kwak, S. & Jin, Y. S. May 11 2017 In : Microbial Cell Factories. 16, 1, 82

Research output: Research - peer-reviewReview article

Xylose
Saccharomyces cerevisiae
Yeasts
Metabolism
Glucose

Recent advances in DNAzyme-based gene silencing

Fan, H., Zhang, X. & Lu, Y. May 1 2017 In : Science China Chemistry. 60, 5, p. 591-601 11 p.

Research output: Research - peer-reviewReview article

Genes
RNA
DNA
Phosphorylation
Single-Stranded DNA