Research Output 1969 2020

2019

Avoiding a Retraction: Some Simple Guidelines on What NOT to Do

Sweedler, J. V., Aug 6 2019, In : Analytical chemistry. 91, 15, p. 9331-9332 2 p.

Research output: Contribution to journalEditorial

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

Backscatter Coefficient Estimation Bias under Acoustic Nonlinearities

Coila, A. & Oelze, M., Oct 2019, 2019 IEEE International Ultrasonics Symposium, IUS 2019. IEEE Computer Society, p. 2019-2022 4 p. 8926055. (IEEE International Ultrasonics Symposium, IUS; vol. 2019-October).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

reflectors
nonlinearity
acoustics
coefficients
scattering

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

BDNF, endurance activity, and mechanisms underlying the evolution of hominin brains

Hill, T. & Polk, J. D., Jan 2019, In : American journal of physical anthropology. 168, p. 47-62 16 p.

Research output: Contribution to journalReview article

endurance
Brain-Derived Neurotrophic Factor
Hominidae
brain
Brain

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

BRACELET: Edge-Cloud Microservice Infrastructure for Aging Scientific Instruments

Nguyen, P., Elgamal, T., Konstanty, S., Nicholson, T., Turner, S., Su, P., Nahrstedt, K., Spila, T., Campbell, R. H., Dallesasse, J., Chan, M. & Mchenry, K., Apr 8 2019, 2019 International Conference on Computing, Networking and Communications, ICNC 2019. Institute of Electrical and Electronics Engineers Inc., p. 692-696 5 p. 8685528. (2019 International Conference on Computing, Networking and Communications, ICNC 2019).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Aging of materials
Network performance
Metadata
Semiconductor materials
Fabrication

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

Building a global alliance of biofoundries

Hillson, N., Caddick, M., Cai, Y., Carrasco, J. A., Chang, M. W., Curach, N. C., Bell, D. J., Le Feuvre, R., Friedman, D. C., Fu, X., Gold, N. D., Herrgård, M. J., Holowko, M. B., Johnson, J. R., Johnson, R. A., Keasling, J. D., Kitney, R. I., Kondo, A., Liu, C., Martin, V. J. J. & 16 others, Menolascina, F., Ogino, C., Patron, N. J., Pavan, M., Poh, C. L., Pretorius, I. S., Rosser, S. J., Scrutton, N. S., Storch, M., Tekotte, H., Travnik, E., Vickers, C. E., Yew, W. S., Yuan, Y., Zhao, H. & Freemont, P. S., Dec 1 2019, In : Nature communications. 10, 1, 2040.

Research output: Contribution to journalComment/debate

Open Access
biotechnology
Biotechnology
organisms
Testing
Research

Bulk-state and single-particle imaging are central to understanding carbon dot photo-physics and elucidating the effects of precursor composition and reaction temperature

Fathi, P., Khamo, J. S., Huang, X., Srivastava, I., Esch, M. B., Zhang, K. & Pan, D., Apr 2019, In : Carbon. 145, p. 572-585 14 p.

Research output: Contribution to journalArticle

Carbon
Physics
Imaging techniques
Chemical analysis
Temperature

Cancer Cells Invade Confined Microchannels via a Self-Directed Mesenchymal-to-Amoeboid Transition

Holle, A. W., Govindan Kutty Devi, N., Clar, K., Fan, A., Saif, T., Kemkemer, R. & Spatz, J. P., Apr 10 2019, In : Nano letters. 19, 4, p. 2280-2290 11 p.

Research output: Contribution to journalArticle

microchannels
Microchannels
cancer
Cells
matrices

CAPTAR: Causal-polytree-based anomaly reasoning for SCADA networks

Ren, W., Yu, T., Yardley, T. & Nahrstedt, K., Oct 2019, 2019 IEEE International Conference on Communications, Control, and Computing Technologies for Smart Grids, SmartGridComm 2019. Institute of Electrical and Electronics Engineers Inc., 8909766. (2019 IEEE International Conference on Communications, Control, and Computing Technologies for Smart Grids, SmartGridComm 2019).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Supervisory Control
data acquisition
Data Acquisition
Anomaly
SCADA systems

Caudit: Continuous auditing of SSH servers to mitigate brute-force attacks

Cao, P. M., Wu, Y., Banerjee, S. S., Azoff, J., Withers, A., Kalbarczyk, Z. T. & Iyer, R. K., Jan 1 2019, Proceedings of the 16th USENIX Symposium on Networked Systems Design and Implementation, NSDI 2019. USENIX Association, p. 667-682 16 p. (Proceedings of the 16th USENIX Symposium on Networked Systems Design and Implementation, NSDI 2019).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Routers
Servers
Monitoring
Network security
Metadata

Characterization of Cas proteins for CRISPR-Cas editing in streptomycetes

Yeo, W. L., Heng, E., Tan, L. L., Lim, Y. W., Lim, Y. H., Hoon, S., Zhao, H., Zhang, M. M. & Wong, F. T., Jan 1 2019, In : Biotechnology and bioengineering. 116, 9, p. 2330-2338 9 p.

Research output: Contribution to journalArticle

Clustered Regularly Interspaced Short Palindromic Repeats
CRISPR-Cas Systems
Genes
Streptococcus thermophilus
Francisella tularensis

Characterization of glutamyl-tRNA–dependent dehydratases using nonreactive substrate mimics

Bothwell, I. R., Cogan, D. P., Kim, T., Reinhardt, C. J., van der Donk, W. A. & Nair, S. K., Aug 27 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 35, p. 17245-17250 6 p.

Research output: Contribution to journalArticle

Open Access
Hydro-Lyases
RNA, Transfer, Glu
Peptides
Nisin
Glutamic Acid

Characterization of Lipid-Protein Interactions and Lipid-Mediated Modulation of Membrane Protein Function through Molecular Simulation

Muller, M. P., Jiang, T., Sun, C., Lihan, M., Pant, S., Mahinthichaichan, P., Trifan, A. & Tajkhorshid, E., May 8 2019, In : Chemical reviews. 119, 9, p. 6086-6161 76 p.

Research output: Contribution to journalReview article

Membrane Proteins
Modulation
Lipids
Proteins
Molecular dynamics
Microspheres
Nanoparticles
Imaging techniques
nanoparticles
magnetic resonance

Characterization of the flavin monooxygenase involved in biosynthesis of the antimalarial FR-900098

Nguyen, K., DeSieno, M. A., Bae, B., Johannes, T. W., Cobb, R. E., Zhao, H. & Nair, S. K., Jan 1 2019, In : Organic and Biomolecular Chemistry. 17, 6, p. 1506-1518 13 p.

Research output: Contribution to journalArticle

dimethylaniline monooxygenase (N-oxide forming)
Flavin-Adenine Dinucleotide
biosynthesis
Biosynthesis
Antimalarials

Characterizing Fatty Liver in vivo in Rabbits, Using Quantitative Ultrasound

Nguyen, T. N., Podkowa, A. S., Tam, A. Y., Arnold, E. C., Miller, R. J., Park, T. H., Do, M. N. & Oelze, M. L., Aug 2019, In : Ultrasound in Medicine and Biology. 45, 8, p. 2049-2062 14 p.

Research output: Contribution to journalArticle

rabbits
Fatty Liver
liver
Rabbits
fats

Charge Transport and Quantum Interference Effects in Oxazole-Terminated Conjugated Oligomers

Li, S., Yu, H., Schwieter, K., Chen, K., Li, B., Liu, Y., Moore, J. S. & Schroeder, C. M., Oct 9 2019, In : Journal of the American Chemical Society. 141, 40, p. 16079-16084 6 p.

Research output: Contribution to journalArticle

Oxazoles
anchor
Oligomers
Charge transfer
Anchors

Chemoselective methylene oxidation in aromatic molecules

Zhao, J., Nanjo, T., de Lucca, E. C. & White, M. C., Mar 1 2019, In : Nature Chemistry. 11, 3, p. 213-221 9 p.

Research output: Contribution to journalArticle

Oxidation
Molecules
Scaffolds
Catalysts
Ethinyl Estradiol

Chronic Exposure of Mice to Bisphenol-A Alters Uterine Fibroblast Growth Factor Signaling and Leads to Aberrant Epithelial Proliferation

Neff, A. M., Blanco, S. C., Flaws, J. A., Bagchi, I. C. & Bagchi, M. K., Jan 1 2019, In : Endocrinology. 160, 5, p. 1234-1246 13 p.

Research output: Contribution to journalArticle

Open Access
Fibroblast Growth Factors
Uterus
Endometrial Hyperplasia
Neural Crest
Steroids

Cilostamide affects in a concentration and exposure time-dependent manner the viability and the kinetics of in vitro maturation of caprine and bovine oocytes

Correia, H. H. V., Vieira, L. A., Mielgo, C. M., Paes, V. M., Alves, B. G., Silva, J. R. V., Wheeler, M. B., Rodrigues, A. P. R. & Figueiredo, J. R., Feb 2019, In : Research in Veterinary Science. 122, p. 22-28 7 p.

Research output: Contribution to journalArticle

Oocytes
exposure duration
oocytes
goats
viability

Circadian rhythm of redox state regulates membrane excitability in hippocampal CA1 neurons

Naseri Kouzehgarani, G., Bothwell, M. Y. & Gillette, M. U., Jan 1 2019, (Accepted/In press) In : European Journal of Neuroscience.

Research output: Contribution to journalArticle

Suprachiasmatic Nucleus
Circadian Rhythm
Oxidation-Reduction
Neurons
Membranes

Cognitive and neural architecture of decision making competence

Román, F. J., Colom, R., Hillman, C. H., Kramer, A. F., Cohen, N. J. & Barbey, A. K., Oct 1 2019, In : NeuroImage. 199, p. 172-183 12 p.

Research output: Contribution to journalArticle

Mental Competency
Decision Making
Intelligence
Individuality
Vocabulary

Colonization of germ-free piglets with commensal lactobacillus amylovorus, lactobacillus mucosae, and probiotic e. Coli nissle 1917 and their interference with salmonella typhimurium

Splichal, I., Donovan, S. M., Splichalova, Z., Bunesova, V. N., Vlkova, E., Jenistova, V., Killer, J., Svejstil, R., Skrivanova, E. & Splichalova, A., Aug 2019, In : Microorganisms. 7, 8, 273.

Research output: Contribution to journalArticle

Open Access
Lactobacillus acidophilus
Probiotics
Lactobacillus
Salmonella typhimurium
Mucous Membrane

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

AstraZeneca-Sanger Drug Combination DREAM Consortium, Dec 1 2019, In : Nature communications. 10, 1, 2674.

Research output: Contribution to journalArticle

Open Access
Pharmacogenetics
Drug Combinations
drugs
cancer
predictions

Comparative analysis of brain and fat body gene splicing patterns in the honey bee, Apis mellifera

Kannan, K., Shook, M., Li, Y., Robinson, G. E. & Ma, J., Jan 1 2019, In : G3: Genes, Genomes, Genetics. 9, 4, p. 1055-1063 9 p.

Research output: Contribution to journalArticle

Open Access
Fat Body
Honey
Bees
Alternative Splicing
Brain

Comparison between optical coherence tomographic and histopathologic appearances of artifacts caused by common surgical conditions and instrumentation

Cocca, C. J., Selmic, L. E., Samuelson, J., Huang, P. C., Wang, J. & Boppart, S. A., Nov 1 2019, In : Veterinary Surgery. 48, 8, p. 1361-1371 11 p.

Research output: Contribution to journalArticle

tomography
Optical Coherence Tomography
instrumentation
Artifacts
scalpels
Open Access
sapphire
quantum wells
optical properties
silicon
photoluminescence

Competition of individual domain folding with inter-domain interaction in WW domain engineered repeat proteins

Dave, K., Gasic, A. G., Cheung, M. S. & Gruebele, M., Jan 1 2019, In : Physical Chemistry Chemical Physics. 21, 44, p. 24393-24405 13 p.

Research output: Contribution to journalArticle

folding
proteins
Agglomeration
Monomers
Proteins

Computational Dissection of Membrane Transport at a Microscopic Level

Jiang, T., Wen, P. C., Trebesch, N., Zhao, Z., Pant, S., Kapoor, K., Shekhar, M. & Tajkhorshid, E., Jan 1 2019, (Accepted/In press) In : Trends in Biochemical Sciences.

Research output: Contribution to journalReview article

Dissection
Membrane Transport Proteins
Membranes
Molecular Dynamics Simulation
Computational methods

Confined and interface optical phonon emission in GaN/InGaN double barrier quantum well heterostructures

Mohamed, A., Park, K., Bayram, C., Dutta, M. & Stroscio, M., Apr 2019, In : PloS one. 14, 4, e0214971.

Research output: Contribution to journalArticle

Open Access
Phonons
Semiconductor quantum wells
Heterojunctions
electrons
Hot electrons

Congress of neurological surgeons systematic review and evidence-based guidelines on the evaluation and treatment of patients with thoracolumbar spine trauma: Operative versus nonoperative treatment

Rabb, C. H., Hoh, D. J., Anderson, P. A., Arnold, P. M., Chi, J. H., Dailey, A. T., Dhall, S. S., Eichholz, K. M., Harrop, J. S., Qureshi, S., Raksin, P. B., Kaiser, M. G. & O'Toole, J. E., Jan 1 2019, In : Clinical Neurosurgery. 84, 1, p. E50-E52

Research output: Contribution to journalReview article

Open Access
Spine
Thorax
Guidelines
Wounds and Injuries
Therapeutics

Congress of neurological surgeons systematic review and evidence-based guidelines on the evaluation and treatment of patients with thoracolumbar spine trauma: Pharmacological treatment

Arnold, P. M., Anderson, P. A., Chi, J. H., Dailey, A. T., Dhall, S. S., Eichholz, K. M., Harrop, J. S., Hoh, D. J., Qureshi, S., Rabb, C. H., Raksin, P. B., Kaiser, M. G. & O'Toole, J. E., Jan 1 2019, In : Clinical Neurosurgery. 84, 1, p. E36-E38

Research output: Contribution to journalReview article

Open Access
Methylprednisolone
Spine
Pharmacology
Guidelines
Wounds and Injuries

Congress of neurological surgeons systematic review and evidence-based guidelines on the evaluation and treatment of patients with thoracolumbar spine trauma: Prophylaxis and treatment of thromboembolic events

Raksin, P. B., Harrop, J. S., Anderson, P. A., Arnold, P. M., Chi, J. H., Dailey, A. T., Dhall, S. S., Eichholz, K. M., Hoh, D. J., Qureshi, S., Rabb, C. H., Kaiser, M. G. & O'Toole, J. E., Jan 1 2019, In : Clinical Neurosurgery. 84, 1, p. E39-E42

Research output: Contribution to journalReview article

Open Access
Venous Thromboembolism
Pulmonary Embolism
Spine
Thorax
Guidelines

Congress of neurological surgeons systematic review and evidence-based guidelines on the evaluation and treatment of patients with thoracolumbar spine trauma: Nonoperative care

Hoh, D. J., Qureshi, S., Anderson, P. A., Arnold, P. M., John, H. C., Dailey, A. T., Dhall, S. S., Eichholz, K. M., Harrop, J. S., Rabb, C. H., Raksin, P. B., Kaiser, M. G. & O'Toole, J. E., Jan 1 2019, In : Clinical Neurosurgery. 84, 1, p. E46-E49

Research output: Contribution to journalReview article

Open Access
Braces
Spine
Guidelines
Wounds and Injuries
Thorax