Research Output 1969 2020

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2019

Aging and Central Auditory Disinhibition: Is It a Reflection of Homeostatic Downregulation or Metabolic Vulnerability?

Ibrahim, B. A. & Llano, D. A., Dec 1 2019, In : Brain Sciences. 9, 12, 351.

Research output: Contribution to journalArticle

Open Access
Down-Regulation
Neurons
Speech Perception
Tinnitus
Brain

A ground-up approach to estimate the likelihood of business interruption

Nocera, F. & Gardoni, P., Dec 2019, In : International Journal of Disaster Risk Reduction. 41, 101314.

Research output: Contribution to journalArticle

infrastructure
social system
Industry
functionality
Critical infrastructures

A hybrid de novo genome assembly of the honeybee, Apis mellifera, with chromosome-length scaffolds

Wallberg, A., Bunikis, I., Pettersson, O. V., Mosbech, M. B., Childers, A. K., Evans, J. D., Mikheyev, A. S., Robertson, H. M., Robinson, G. E. & Webster, M. T., Apr 8 2019, In : BMC genomics. 20, 1, 275.

Research output: Contribution to journalArticle

Open Access
Bees
Chromosomes
Chromosome Mapping
Genome
Genomic Structural Variation

Allosteric Interactions in Human Cytochrome P450 CYP3A4: The Role of Phenylalanine 213

Denisov, I. G., Grinkova, Y. V., Nandigrami, P., Shekhar, M., Tajkhorshid, E. & Sligar, S. G., Mar 12 2019, In : Biochemistry. 58, 10, p. 1411-1422 12 p.

Research output: Contribution to journalArticle

Cytochrome P-450 CYP3A
Phenylalanine
Cytochrome P-450 Enzyme System
Progesterone
Carbamazepine

A load-transfer function for the side resistance of drilled shafts in soft rock

Asem, P. & Gardoni, P., Jan 1 2019, In : Soils and Foundations.

Research output: Contribution to journalArticle

soft rock
transfer function
shaft
Transfer functions
Rocks
Tomography
Bone
Thickness measurement
MATLAB
Seed

Analysis of gut microbiome, nutrition and immune status in autism spectrum disorder: a case-control study in Ecuador

Zurita, M. F., Cárdenas, P. A., Sandoval, M. E., Peña, M. C., Fornasini, M., Flores, N., Monaco, M. H., Berding, K., Donovan, S. M., Kuntz, T., Gilbert, J. A. & Baldeón, M. E., Jan 1 2019, (Accepted/In press) In : Gut Microbes.

Research output: Contribution to journalArticle

Ecuador
Nutritional Status
Case-Control Studies
Ruminococcus
Bacteroides

Analysis of Paper-Based Colorimetric Assays with a Smartphone Spectrometer

Woodburn, E. V., Long, K. D. & Cunningham, B. T., Jan 15 2019, In : IEEE Sensors Journal. 19, 2, p. 508-514 7 p., 8494768.

Research output: Contribution to journalArticle

Smartphones
Spectrometers
Assays
strip
Cameras

An application of the theory of normative social behavior to bystander intervention for sexual assault

Reynolds-Tylus, T., Lukacena, K. M. & Quick, B. L., Aug 18 2019, In : Journal of American College Health. 67, 6, p. 551-559 9 p.

Research output: Contribution to journalArticle

Social Behavior
Students
Lenses

Androgen Mediation—and Antiandrogens Mitigation—of the Epidermal Growth Factor Receptor (EGFR) Inhibitor–Induced Rash: Results From a Pilot Randomized Trial and Small Translational Case Series

Le-Rademacher, J. G., Rowland, K. M., Atherton, P. J., Dakhil, C., Sun, Z., Tan, A., Schmidt, L., Nguyen, P. L., Radecki Breitkopf, C., Pittelkow, M., Tindall, D., Menon, S. & Jatoi, A., Jun 1 2019, In : American Journal of Hospice and Palliative Medicine. 36, 6, p. 519-525 7 p.

Research output: Contribution to journalArticle

Androgen Antagonists
Exanthema
Epidermal Growth Factor Receptor
Androgens
Spironolactone

An efficient gene knock-in strategy using 5′-modified double-stranded DNA donors with short homology arms

Yu, Y., Guo, Y., Tian, Q., Lan, Y., Yeh, H., Zhang, M., Tasan, I., Jain, S. & Zhao, H., Dec 23 2019, (Accepted/In press) In : Nature chemical biology.

Research output: Contribution to journalArticle

Gene Knock-In Techniques
Ribonucleoproteins
Neoplastic Stem Cells
HEK293 Cells
DNA

A network of phosphatidylinositol 4,5-bisphosphate binding sites regulates gating of the Ca2+-activated Cl channel ANO1 (TMEM16A)

Yu, K., Jiang, T., Cui, Y. Y., Tajkhorshid, E. & Criss Hartzell, H., Jan 1 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 40, p. 19952-19962 11 p.

Research output: Contribution to journalArticle

Open Access
Molecular Dynamics Simulation
Phosphatidylinositols
Binding Sites
Mutagenesis
Fluids and Secretions

A new implementation for online calculation of manipulator Jacobian

Chembrammel, P. & Kesavadas, T., Feb 2019, In : PloS one. 14, 2, e0212018.

Research output: Contribution to journalArticle

Open Access
robots
Manipulators
Robots
Differentiation (calculus)
Derivatives
Multiresolution analysis
ground motion
wavelet
earthquakes
Earthquakes

An Exploratory Look at the Role of Childcare Providers as a Support and Resource for Breastfeeding Mothers

Lundquist, A., McBride, B. A., Donovan, S. M. & Kieffer, A., Jun 2019, In : Breastfeeding Medicine. 14, 5, p. 313-319 7 p.

Research output: Contribution to journalArticle

Breast Feeding
Mothers
Education
Foster Home Care
Mental Competency

An extended bacterial reductive pyrimidine degradation pathway that enables nitrogen release from β-alanine

Yin, J., Wei, Y., Liu, D., Hu, Y., Lu, Q., Lui Ang, E., Zhao, H. & Zhang, Y., Jan 1 2019, In : Journal of Biological Chemistry. 294, 43, p. 15662-15671 10 p.

Research output: Contribution to journalArticle

Alanine
Nitrogen
Degradation
Bacteria
Uracil

An Internal Replication Examining the Role of Issue Involvement, Relevance, and Additional Requirements to Maintain an Established Freedom among Older Adults

Al-Ghaithi, S. H., Reynolds-Tylus, T. R., Quick, B. L., Gonzalez, A. M. & Nead, K. E., Oct 1 2019, In : Human Communication Research. 45, 4, p. 450-473 24 p.

Research output: Contribution to journalArticle

Health insurance
reactance
Psychological Theory
Costs
threat

A novel technique for in situ uniaxial tests of self-assembled soft biomaterials

Elhebeary, M., Emon, M. A. B., Aydin, O. & Saif, M. T. A., Jan 1 2019, In : Lab on a chip. 19, 7, p. 1153-1161 9 p.

Research output: Contribution to journalArticle

Biocompatible Materials
Biomaterials
Tissue
Collagen
Electric Stimulation

A pathway for isethionate dissimilation in Bacillus krulwichiae

Tong, Y., Wei, Y., Hu, Y., Ang, E. L., Zhao, H. & Zhang, Y., Jan 1 2019, In : Applied and environmental microbiology. 85, 15, e00793-19.

Research output: Contribution to journalArticle

Bacillus (bacteria)
Bacillus
Bacteria
bacterium
bacteria

A Qualitative Examination of African Americans’ Organ Donation-Related Medical Mistrust Beliefs

Williamson, L. D., Bigman, C. A. & Quick, B. L., Oct 20 2019, In : Howard Journal of Communications. 30, 5, p. 430-445 16 p.

Research output: Contribution to journalArticle

organ donation
examination
Transplants
organ transplant
Health

Architecture-Controlled Ring-Opening Polymerization for Dynamic Covalent Poly(disulfide)s

Liu, Y., Jia, Y., Wu, Q. & Moore, J. S., Jan 1 2019, In : Journal of the American Chemical Society. 141, 43, p. 17075-17080 6 p.

Research output: Contribution to journalArticle

Ring opening polymerization
polymerization
Polymerization
Disulfides
Polymers

A rotifer-derived paralytic compound prevents transmission of schistosomiasis to a mammalian host

Gao, J., Yang, N., Lewis, F. A., Yau, P., Collins, J. J., Sweedler, J. V. & Newmark, P. A., Oct 17 2019, In : PLoS biology. 17, 10, e3000485.

Research output: Contribution to journalArticle

Open Access
schistosomiasis
Schistosoma
Schistosomiasis
Rotifera
Cercaria

ASAP: Accelerated Short-Read Alignment on Programmable Hardware

Banerjee, S. S., El-Hadedy, M., Lim, J. B., Kalbarczyk, Z. T., Chen, D., Lumetta, S. S. & Iyer, R. K., Mar 1 2019, In : IEEE Transactions on Computers. 68, 3, p. 331-346 16 p., 8490591.

Research output: Contribution to journalArticle

Alignment
Edit Distance
Hardware
kernel
Field Programmable Gate Array

A speculative feminist approach to design project management

Radzikowska, M., Roberts-Smith, J., Zhou, X. & Ruecker, S., Jan 1 2019, In : Strategic Design Research Journal. 12, 1, p. 94-113 20 p.

Research output: Contribution to journalArticle

Open Access
Project Management
Project management
Human computer interaction
Software Design
Software design
Open Access
management
interview
best practice
research project
planning data

Assessing the Flexibility of the Prochlorosin 2.8 Scaffold for Bioengineering Applications

Hegemann, J. D., Bobeica, S. C., Walker, M. C., Bothwell, I. R. & van der Donk, W. A., May 17 2019, In : ACS synthetic biology. 8, 5, p. 1204-1214 11 p.

Research output: Contribution to journalArticle

Bioengineering
Scaffolds
Peptides
Epitopes
Cyclization

Association of neurologic deficits with surgical outcomes and health-related quality of life after treatment for metastatic epidural spinal cord compression

for the AOSpine Knowledge Forum Tumor, Dec 1 2019, In : Cancer. 125, 23, p. 4224-4231 8 p.

Research output: Contribution to journalArticle

Spinal Injuries
Spinal Cord Compression
Neurologic Manifestations
Quality of Life
Therapeutics

A subtype of oral, laryngeal, esophageal, and lung, squamous cell carcinoma with high levels of TrkB-T1 neurotrophin receptor mRNA

Zhou, Y., Sinha, S., Schwartz, J. L. & Adami, G. R., Jun 20 2019, In : BMC Cancer. 19, 1, 607.

Research output: Contribution to journalArticle

Open Access
Nerve Growth Factor Receptors
Squamous Cell Carcinoma
Lung
Messenger RNA
Neoplasms

Asymptotic analysis for multi-objective sequential stochastic assignment problems

Yu, G., Jacobson, S. H. & Kiyavash, N., Jan 1 2019, In : Stochastics.

Research output: Contribution to journalArticle

Asymptotic analysis
Assignment Problem
Reward
Asymptotic Analysis
n-dimensional

A tetrahedral molecular cage with a responsive vertex

Pattillo, C. C. & Moore, J. S., Jan 1 2019, In : Chemical Science. 10, 29, p. 7043-7048 6 p.

Research output: Contribution to journalArticle

Open Access
Imines
Alkynes
Self assembly

Atoms to Phenotypes: Molecular Design Principles of Cellular Energy Metabolism

Singharoy, A., Maffeo, C., Delgado-Magnero, K. H., Swainsbury, D. J. K., Sener, M., Kleinekathöfer, U., Vant, J. W., Nguyen, J., Hitchcock, A., Isralewitz, B., Teo, I., Chandler, D. E., Stone, J. E., Phillips, J. C., Pogorelov, T. V., Mallus, M. I., Chipot, C., Luthey-Schulten, Z., Tieleman, D. P., Hunter, C. N. & 3 others, Tajkhorshid, E., Aksimentiev, A. & Schulten, K., Nov 14 2019, In : Cell. 179, 5, p. 1098-1111.e23

Research output: Contribution to journalArticle

Chromatophores
Energy conversion
Energy Metabolism
Phenotype
Atoms

A traction force threshold signifies metastatic phenotypic change in multicellular epithelia

Zhang, Y., Shi, X., Zhao, T., Huang, C., Wei, Q., Tang, X., Santy, L. C., Saif, M. T. A. & Zhang, S., Jan 1 2019, In : Soft Matter. 15, 36, p. 7203-7210 8 p.

Research output: Contribution to journalArticle

epithelium
traction
Stiffness
Phase diagrams
thresholds

Automated sensorless single-shot closed-loop adaptive optics microscopy with feedback from computational adaptive optics

Iyer, R. R., Liu, Y. Z. & Boppart, S. A., Apr 29 2019, In : Optics Express. 27, 9, p. 12998-13014 17 p.

Research output: Contribution to journalArticle

adaptive optics
shot
microscopy
deformable mirrors
aberration

Axial shielding of Pd(II) complexes enables perfect stereoretention in Suzuki-Miyaura cross-coupling of Csp 3 boronic acids

Lehmann, J. W., Crouch, I. T., Blair, D. J., Trobe, M., Wang, P., Li, J. & Burke, M., Dec 1 2019, In : Nature communications. 10, 1, 1263.

Research output: Contribution to journalArticle

Open Access
Boronic Acids
cross coupling
Shielding
shielding
acids

Bacteriophage targeting of gut bacterium attenuates alcoholic liver disease

Duan, Y., Llorente, C., Lang, S., Brandl, K., Chu, H., Jiang, L., White, R. C., Clarke, T. H., Nguyen, K., Torralba, M., Shao, Y., Liu, J., Hernandez-Morales, A., Lessor, L., Rahman, I. R., Miyamoto, Y., Ly, M., Gao, B., Sun, W., Kiesel, R. & 26 others, Hutmacher, F., Lee, S., Ventura-Cots, M., Bosques-Padilla, F., Verna, E. C., Abraldes, J. G., Brown, R. S., Vargas, V., Altamirano, J., Caballería, J., Shawcross, D. L., Ho, S. B., Louvet, A., Lucey, M. R., Mathurin, P., Garcia-Tsao, G., Bataller, R., Tu, X. M., Eckmann, L., van der Donk, W. A., Young, R., Lawley, T. D., Stärkel, P., Pride, D., Fouts, D. E. & Schnabl, B., Nov 21 2019, In : Nature. 575, 7783, p. 505-511 7 p.

Research output: Contribution to journalArticle

Alcoholic Hepatitis
Alcoholic Liver Diseases
Bacteriophages
Liver Diseases
Bacteria

Bagging and deep learning in optimal individualized treatment rules

Mi, X., Zou, F. & Zhu, R., Jan 1 2019, In : Biometrics. 75, 2, p. 674-684 11 p.

Research output: Contribution to journalArticle

Bagging
learning
Learning
Decision Rules
neural networks

Baseline correction of ground motions with physics-based correction patterns

Tian, S., Gardoni, P., Li, H. & Yuan, W., Jan 1 2019, In : Geophysical Journal International. 217, 1, p. 668-681 14 p.

Research output: Contribution to journalArticle

ground motion
Global positioning system
physics
Physics
strong motion
Sedimentary rocks
weak rock
stiffness
sedimentary rock
Rocks

Behavioral response to fiber feedingis cohort-dependent and associated with gut microbiota composition in mice

Mailing, L. J., Allen, J. M., Pence, B. D., Rytych, J., Sun, Y., Bhattacharya, T. K., Park, P., Cross, T. W. L., McCusker, R. H., Swanson, K. S., Fahey, G. C., Rhodes, J. S., Kelley, K. W., Johnson, R. W. & Woods, J. A., Feb 1 2019, In : Behavioural Brain Research. 359, p. 731-736 6 p.

Research output: Contribution to journalArticle

Cellulose
Microbiota
Learning
Bilophila
Aptitude

Binding partner- and force-promoted changes in αE-catenin conformation probed by native cysteine labeling

Terekhova, K., Pokutta, S., Kee, Y. S., Li, J., Tajkhorshid, E., Fuller, G., Dunn, A. R. & Weis, W. I., Dec 1 2019, In : Scientific reports. 9, 1, 15375.

Research output: Contribution to journalArticle

Open Access
Catenins
Cysteine
Vinculin
Actins
Cadherins

Biochemical and structural investigation of sulfoacetaldehyde reductase from Klebsiella oxytoca

Zhou, Y., Wei, Y., Lin, L., Xu, T., Ang, E. L., Zhao, H., Yuchi, Z. & Zhang, Y., Jan 1 2019, In : Biochemical Journal. 476, 4, p. 733-746 14 p.

Research output: Contribution to journalArticle

Klebsiella oxytoca
Oxidoreductases
Taurine
NADP
Tail

Biochemical and structural investigation of taurine:2-oxoglutarate aminotransferase from Bifidobacterium kashiwanohense

Li, M., Wei, Y., Yin, J., Lin, L., Zhou, Y., Hua, G., Cao, P., Ang, E. L., Zhao, H., Yuchi, Z. & Zhang, Y., Jan 1 2019, In : Biochemical Journal. 476, 11, p. 1605-1619 15 p.

Research output: Contribution to journalArticle

Bifidobacterium
Taurine
Pyridoxal
Transaminases
Pyridoxal Phosphate

Biodegradable Biliverdin Nanoparticles for Efficient Photoacoustic Imaging

Fathi, P., Knox, H. J., Sar, D., Tripathi, I., Ostadhossein, F., Misra, S. K., Esch, M. B., Chan, J. & Pan, D., Jul 23 2019, In : ACS Nano. 13, 7, p. 7690-7704 15 p.

Research output: Contribution to journalArticle

Biliverdine
Photoacoustic effect
Nanoparticles
Imaging techniques
nanoparticles

Biodiversity of protists and nematodes in the wild nonhuman primate gut

Mann, A. E., Mazel, F., Lemay, M. A., Morien, E., Billy, V., Kowalewski, M., Di Fiore, A., Link, A., Goldberg, T. L., Tecot, S., Baden, A. L., Gomez, A., Sauther, M. L., Cuozzo, F. P., Rice, G. A. O., Dominy, N. J., Stumpf, R., Lewis, R. J., Swedell, L., Amato, K. & 1 others, Wegener Parfrey, L., Jan 1 2019, (Accepted/In press) In : ISME Journal.

Research output: Contribution to journalArticle

protist
Biodiversity
primate
Primates
nematode

Biohybrid valveless pump-bot powered by engineered skeletal muscle

Li, Z., Seo, Y., Aydin, O., Elhebeary, M., Kamm, R. D., Kong, H. & Taher Saif, M. A., Jan 29 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 5, p. 1543-1548 6 p.

Research output: Contribution to journalArticle

Hydrogel
Skeletal Muscle
Muscles
Microfluidics
Muscle Contraction

Biomechanical comparison of three epitendinous suture patterns as adjuncts to a core locking loop suture for repair of canine flexor tendon injuries

Cocca, C. J., Duffy, D. J., Kersh, M. E., Kim, W., Groenewold, A. & Moore, G. E., Oct 1 2019, In : Veterinary Surgery. 48, 7, p. 1245-1252 8 p.

Research output: Contribution to journalArticle

Tendon Injuries
sutures
tendons
Sutures
Canidae

Biosystems design by directed evolution

Wang, Y., Yu, X. & Zhao, H., Jan 1 2019, In : AIChE Journal. e16716.

Research output: Contribution to journalArticle

Genome
Protein Engineering
Screening
Genetic Testing
Biotransformation

Blue light is a universal signal for Escherichia coli chemoreceptors

Perlova, T., Gruebele, M. H. W. & Chemla, Y. R., Jan 1 2019, In : Journal of bacteriology. 201, 11, e0076218.

Research output: Contribution to journalArticle

Escherichia coli
Light
Bacteria
Proton-Motive Force
Tars

Brain activation changes during balance- And attention-demanding tasks in middle- And older-aged adults with multiple sclerosis

Hernandez, M. E., O'Donnell, E., Chaparro, G., Holtzer, R., Izzetoglu, M., Sandroff, B. M. & Motl, R. W., Jan 1 2019, In : Motor Control. 23, 4, p. 498-517 20 p.

Research output: Contribution to journalArticle

Multiple Sclerosis
Walking
Brain
Near-Infrared Spectroscopy
Prefrontal Cortex

Breaking tolerance with engineered class I antigen-presenting molecules

Parks, C. A., Henning, K. R., Pavelko, K. D., Hansen, M. J., Van Keulen, V. P., Reed, B. K., Stone, J. D., Schrum, A. G., Gil, D., Kranz, D. M., Bordner, A. J., Barry, M. A. & Pease, L. R., Feb 19 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 8, p. 3136-3145 10 p.

Research output: Contribution to journalArticle

Histocompatibility Antigens Class I
Peptides
T-Lymphocytes
Autoantigens
Isoantigens