Research Output 1870 2019

2019
1 Citation (Scopus)

A Bayesian Nonparametric Approach to Single Molecule Förster Resonance Energy Transfer

Sgouralis, I., Madaan, S., Djutanta, F., Kha, R., Hariadi, R. & Presse, S., Jan 24 2019, In : Journal of Physical Chemistry B. 123, 3, p. 675-688 14 p.

Research output: Contribution to journalArticle

Bayes Theorem
Energy Transfer
Photons
Energy transfer
energy transfer

A broader view on jamming: from spring networks to circle packings

F. Hagh, V., Corwin, E. I., Stephenson, K. & Thorpe, M., Jan 1 2019, In : Soft Matter. 15, 15, p. 3076-3084 9 p.

Research output: Contribution to journalArticle

jamming
Jamming
Elastic moduli
Triangulation
bulk modulus

Acclimation of nitrifying biomass to phenol leads to persistent resistance to inhibition

Zou, S., Yan, N., Zhang, C., Zhou, Y., Wu, X., Wang, J., Liu, Y., Zhang, Y. & Rittmann, B., Nov 25 2019, In : Science of the Total Environment. 693, 133622.

Research output: Contribution to journalArticle

Phenol
acclimation
Phenols
phenol
Biomass

Accumbens neuroimmune signaling and dysregulation of astrocytic glutamate transport underlie conditioned nicotine-seeking behavior

Namba, M. D., Kupchik, Y. M., Spencer, S. M., Garcia-Keller, C., Goenaga, J. G., Powell, G. L., Vicino, I. A., Hogue, I. & Gipson-Reichardt, C., Jan 1 2019, In : Addiction Biology. e12797.

Research output: Contribution to journalArticle

Nicotine
Glutamic Acid
Nucleus Accumbens
Acetylcysteine
Cues
4 Citations (Scopus)

Additional changes to taxonomy ratified in a special vote by the International Committee on Taxonomy of Viruses (October 2018)

Siddell, S. G., Walker, P. J., Lefkowitz, E. J., Mushegian, A. R., Adams, M. J., Dutilh, B. E., Gorbalenya, A. E., Harrach, B., Harrison, R. L., Junglen, S., Knowles, N. J., Kropinski, A. M., Krupovic, M., Kuhn, J. H., Nibert, M., Rubino, L., Sabanadzovic, S., Sanfaçon, H., Simmonds, P., Varsani, A. & 2 others, Zerbini, F. M. & Davison, A. J., Jan 1 2019, (Accepted/In press) In : Archives of Virology.

Research output: Contribution to journalArticle

Viruses
1 Citation (Scopus)

A dopamine-responsive signal transduction controls transcription of salmonella enterica serovar typhimurium virulence genes

Yang, D., Kong, Y., Sun, W., Kong, W. & Shi, Y., Mar 1 2019, In : mBio. 10, 2, e02772-18.

Research output: Contribution to journalArticle

Open Access
Salmonella enterica
Virulence
Signal Transduction
Dopamine
Salmonella

A family of small intrinsically disordered proteins involved in flagellum-dependent motility in salmonella enterica

Oguri, T., Kwon, Y., Woo, J. K. K., Prehna, G., Lee, H., Ning, M., Won, K. J., Lee, J., Mei, S., Shi, Y., Jeong, H. & Lee, H., Jan 1 2019, In : Journal of Bacteriology. 201, 2, e00415-18.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Salmonella enterica
Flagella
Proteins
Operon

A Fruitful Discovery: Can Gut Bacteria Control Hyperactive Behavior?

Krajmalnik-Brown, R., Feb 7 2019, In : Molecular Cell. 73, 3, p. 395-397 3 p.

Research output: Contribution to journalShort survey

Lactobacillus brevis
Behavior Control
Carbohydrate Metabolism
Drosophila melanogaster
Diptera
1 Citation (Scopus)

A human organotypic microfluidic tumor model permits investigation of the interplay between patient-derived fibroblasts and breast cancer cells

Truong, D. D., Kratz, A., Park, J., Barrientos, E. S., Saini, H., Nguyen, T., Pockaj, B., Mouneimne, G., LaBaer, J. & Nikkhah, M., Jun 15 2019, In : Cancer Research. 79, 12, p. 3139-3151 13 p.

Research output: Contribution to journalArticle

Microfluidics
Fibroblasts
Breast Neoplasms
Neoplasms
Glycoproteins
2 Citations (Scopus)

Alcohol and nicotine consumption trends in three U.S. communities determined by wastewater-based epidemiology

Chen, J., Venkatesan, A. K. & Halden, R., Mar 15 2019, In : Science of the Total Environment. 656, p. 174-183 10 p.

Research output: Contribution to journalArticle

Nicotine
Epidemiology
epidemiology
alcohol
Wastewater

ALG-1 Influences Accurate mRNA Splicing Patterns in the Caenorhabditis elegans Intestine and Body Muscle Tissues by Modulating Splicing Factor Activities

Kotagama, K., Schorr, A. L., Steber, H. S. & Mangone, M., Jul 1 2019, In : Genetics. 212, 3, p. 931-951 21 p.

Research output: Contribution to journalArticle

Caenorhabditis elegans
MicroRNAs
Intestines
Muscles
Messenger RNA
2 Citations (Scopus)

A nationwide survey of 31 organophosphate esters in sewage sludge from the United States

Wang, Y., Kannan, P., Halden, R. & Kannan, K., Mar 10 2019, In : Science of the Total Environment. 655, p. 446-453 8 p.

Research output: Contribution to journalArticle

Organophosphates
organophosphate
Sewage sludge
ester
Esters
5 Citations (Scopus)

A nationwide survey of the occurrence of melamine and its derivatives in archived sewage sludge from the United States

Zhu, H., Halden, R. & Kannan, K., Feb 1 2019, In : Environmental Pollution. 245, p. 994-999 6 p.

Research output: Contribution to journalArticle

Melamine
Sewage sludge
Sewage
Derivatives
Soil

An emergent understanding of strand displacement in RNA biology

Hong, F. & Sulc, P., Jan 1 2019, In : Journal of Structural Biology.

Research output: Contribution to journalArticle

RNA
Nucleic Acid Conformation
DNA
Clustered Regularly Interspaced Short Palindromic Repeats
RNA Folding

A noninvasive blood-based combinatorial proteomic biomarker assay to detect breast cancer in women over age 50 with BI-RADS 3, 4, or 5 Assessment

Henderson, M. C., Silver, M., Tran, Q., Letsios, E. E., Mulpuri, R., Reese, D. E., Lourenco, A. P., LaBaer, J., Anderson, K., Alpers, J., Costantini, C., Rohatgi, N., Ali, H., Baker, K., Northfelt, D. W., Ghosh, K., Grobmyer, S. R., Polen, W. & Wolf, J. K., Jan 1 2019, In : Clinical Cancer Research. 25, 1, p. 142-149 8 p.

Research output: Contribution to journalArticle

Proteomics
Breast
Biomarkers
Breast Neoplasms
Biopsy
8 Citations (Scopus)

A novel photocatalytic optical hollow-fiber with high photocatalytic activity for enhancement of 4-chlorophenol degradation

Zhong, N., Chen, M., Luo, Y., Wang, Z., Xin, X. & Rittmann, B., Jan 1 2019, In : Chemical Engineering Journal. 355, p. 731-739 9 p.

Research output: Contribution to journalArticle

chlorophenol
Optical fibers
Degradation
degradation
coating

Association of AEBP1 and NRN1 RNA expression with Alzheimer's disease and neurofibrillary tangle density in middle temporal gyrus

Piras, I. S., Krate, J., Delvaux, E., Nolz, J., De Both, M. D., Mastroeni, D., Serrano, G. E., Sue, L. I., Beach, T. G., Coleman, P. & Huentelman, M. J., Sep 15 2019, In : Brain Research. 1719, p. 217-224 8 p.

Research output: Contribution to journalArticle

Neurofibrillary Tangles
Temporal Lobe
Alzheimer Disease
RNA
Untranslated RNA
1 Citation (Scopus)
census data
Censuses
tourism
Agriculture
Taiwan

Author Correction: The wide utility of rabbits as models of human diseases (Experimental & Molecular Medicine, (2018), 50, 5, (66), 10.1038/s12276-018-0094-1)

Esteves, P. J., Abrantes, J., Baldauf, H. M., BenMohamed, L., Chen, Y., Christensen, N., González-Gallego, J., Giacani, L., Hu, J., Kaplan, G., Keppler, O. T., Knight, K. L., Kong, X. P., Lanning, D. K., Le Pendu, J., de Matos, A. L., Liu, J., Liu, S., Lopes, A. M., Lu, S. & 17 others, Lukehart, S., Manabe, Y. C., Neves, F., McFadden, G., Pan, R., Peng, X., de Sousa-Pereira, P., Pinheiro, A., Rahman, M., Ruvoën-Clouet, N., Subbian, S., Tuñón, M. J., van der Loo, W., Vaine, M., Via, L. E., Wang, S. & Mage, R., Jul 1 2019, In : Experimental and Molecular Medicine. 51, 7, 71.

Research output: Contribution to journalComment/debate

Open Access
Molecular Medicine
Licensure
Medicine
Rabbits

Author Correction: Fully oxygenated water columns over continental shelves before the Great Oxidation Event (Nature Geoscience, (2019), 12, 3, (186-191), 10.1038/s41561-019-0309-7)

Ostrander, C. M., Nielsen, S. G., Owens, J. D., Kendall, B., Gordon, G., Romaniello, S. J. & Anbar, A., Jan 1 2019, In : Nature Geoscience.

Research output: Contribution to journalComment/debate

continental shelf
water column
oxidation
2 Citations (Scopus)

Autonomous dynamic control of DNA nanostructure self-assembly

Green, L. N., Subramanian, H. K. K., Mardanlou, V., Kim, J., Hariadi, R. & Franco, E., Jan 1 2019, In : Nature Chemistry.

Research output: Contribution to journalArticle

Self assembly
Nanostructures
DNA
Nucleic acids
Nanotechnology
6 Citations (Scopus)

Autonomously designed free-form 2D DNA origami

Jun, H., Zhang, F., Shepherd, T., Ratanalert, S., Qi, X., Yan, H. & Bathe, M., Jan 1 2019, In : Science Advances. 5, 1, eaav0655.

Research output: Contribution to journalArticle

Open Access
DNA
Nanotechnology

Autonomous screening of groundwater remediation technologies in the subsurface using the In Situ Microcosm Array (ISMA)

Kalinowski, T., McClellan, K., Bruton, T. A., Krajmalnik-Brown, R., Driver, E. M. & Halden, R., Apr 5 2019, In : Journal of Hazardous Materials. 367, p. 668-675 8 p.

Research output: Contribution to journalArticle

Groundwater
Remediation
Aquifers
microcosm
Screening
Synechocystis
Biofilms
biofilm
nutrient content
Food

Bi-directional Recurrent Neural Network Models for Geographic Location Extraction in Biomedical Literature

Magge, A., Weissenbacher, D., Sarker, A., Scotch, M. & Gonzalez-Hernandez, G., Jan 1 2019, In : Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 24, p. 100-111 12 p.

Research output: Contribution to journalArticle

Geographic Locations
Neural Networks (Computer)
Natural Language Processing
Phylogeography
Nucleic Acid Databases

Bimodal Hearing or Bilateral Cochlear Implants? Ask the Patient

Gifford, R. H. & Dorman, M., May 1 2019, In : Ear and hearing. 40, 3, p. 501-516 16 p.

Research output: Contribution to journalArticle

Cochlear Implants
Hearing
Ear
1 Citation (Scopus)

Bioavailable electron donors leached from leaves accelerate biodegradation of pyridine and quinoline

Lu, Q., Zhang, C., Wang, W., Yuan, B., Zhang, Y. & Rittmann, B., Mar 1 2019, In : Science of the Total Environment. 654, p. 473-479 7 p.

Research output: Contribution to journalArticle

Biodegradation
Pyridine
leachate
biodegradation
electron
1 Citation (Scopus)

Biodiversity and dynamics of cyanobacterial communities during blooms in temperate lake (Harsha Lake, Ohio, USA)

Zhu, B., Cao, H., Li, G., Du, W., Xu, G., Domingo, J. S., Gu, H., Xu, N., Duan, S. & Lu, J., Feb 1 2019, In : Harmful Algae. 82, p. 9-18 10 p.

Research output: Contribution to journalArticle

algal bloom
Cylindrospermopsis
Planktothrix
biodiversity
lakes
1 Citation (Scopus)

Building and breaking the cell wall in four acts: A kinesthetic and tactile role-playing exercise for teaching beta-lactam antibiotic mechanism of action and resistance

Popovich, J., Stephens, M., Celaya, H., Suwarno, S., Barclay, S., Yee, E., Dean, D. A., Farris, M. & Haydel, S., Jan 1 2019, In : Journal of Microbiology and Biology Education. 19, 1, 1462.

Research output: Contribution to journalArticle

Open Access
Role Playing
beta-lactam antibiotics
Touch
beta-Lactams
Cell Wall
5 Citations (Scopus)

Calcium isotopic signatures of carbonatite and silicate metasomatism, melt percolation and crustal recycling in the lithospheric mantle

Ionov, D. A., Qi, Y. H., Kang, J. T., Golovin, A. V., Oleinikov, O. B., Zheng, W., Anbar, A., Zhang, Z. F. & Huang, F., Mar 1 2019, In : Geochimica et Cosmochimica Acta. 248, p. 1-13 13 p.

Research output: Contribution to journalArticle

crustal recycling
Silicates
carbonatite
metasomatism
Carbonates
1 Citation (Scopus)

Challenges and Promises of Metal Oxide Nanosensors

Tao, N., Apr 26 2019, In : ACS Sensors. 4, 4, 1 p.

Research output: Contribution to journalEditorial

Nanosensors
Oxides
metal oxides
Metals

Changes to virus taxonomy and the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2019)

Walker, P. J., Siddell, S. G., Lefkowitz, E. J., Mushegian, A. R., Dempsey, D. M., Dutilh, B. E., Harrach, B., Harrison, R. L., Hendrickson, R. C., Junglen, S., Knowles, N. J., Kropinski, A. M., Krupovic, M., Kuhn, J. H., Nibert, M., Rubino, L., Sabanadzovic, S., Simmonds, P., Varsani, A., Zerbini, F. M. & 1 others, Davison, A. J., Jan 1 2019, In : Archives of virology.

Research output: Contribution to journalArticle

Open Access
Terminology
Viruses
RNA Replicase
RNA

Chemical and physical changes of microplastics during sterilization by chlorination

Kelkar, V. P., Rolsky, C. B., Pant, A., Green, M., Tongay, S. & Halden, R., Oct 15 2019, In : Water Research. 114871.

Research output: Contribution to journalArticle

Chlorination
High density polyethylenes
chlorination
Polypropylenes
Polystyrenes

Chronic Dyrk1 Inhibition Delays the Onset of AD-Like Pathology in 3xTg-AD Mice

Velazquez, R., Meechoovet, B., Ow, A., Foley, C., Shaw, A., Smith, B., Oddo, S., Hulme, C. & Dunckley, T., Jan 1 2019, In : Molecular Neurobiology.

Research output: Contribution to journalArticle

Alzheimer Disease
Neurofibrillary Tangles
Pathology
Amyloid Plaques
Amyloid beta-Protein Precursor
1 Citation (Scopus)

Cities of the Southwest are testbeds for urban resilience

Hondula, D., Sabo, J., Quay, R., Chester, M., Georgescu, M., Grimm, N., Harlan, S., Middel, A., Porter, S., Redman, C., Rittmann, B., Ruddell, B. L. & White, D., Mar 1 2019, In : Frontiers in Ecology and the Environment. 17, 2, p. 79-80 2 p.

Research output: Contribution to journalArticle

city

Cochlear Implantation for Single-Sided Deafness: A New Treatment Paradigm

Zeitler, D. M. & Dorman, M., Jan 1 2019, In : Journal of Neurological Surgery, Part B: Skull Base. 80, 2, p. 178-186 9 p.

Research output: Contribution to journalReview article

Cochlear Implantation
Deafness
Quality of Life
Sound Localization
Neuronal Plasticity

Cochlear implantation for single-sided deafness in children and adolescents

Zeitler, D. M., Sladen, D. P., DeJong, M. D., Torres, J. H., Dorman, M. & Carlson, M. L., Mar 1 2019, In : International Journal of Pediatric Otorhinolaryngology. 118, p. 128-133 6 p.

Research output: Contribution to journalArticle

Cochlear Implantation
Deafness
Noise
Tinnitus
Pediatrics
Virology
Vaccinia virus
Virion
Names
HIV-1
3 Citations (Scopus)

Crystal structure of misoprostol bound to the labor inducer prostaglandin E2 receptor

Audet, M., White, K. L., Breton, B., Zarzycka, B., Han, G. W., Lu, Y., Gati, C., Batyuk, A., Popov, P., Velasquez, J., Manahan, D., Hu, H., Weierstall, U., Liu, W., Shui, W., Katritch, V., Cherezov, V., Hanson, M. A. & Stevens, R. C., Jan 1 2019, In : Nature Chemical Biology. 15, 1, p. 11-17 7 p.

Research output: Contribution to journalArticle

Prostaglandin Receptors
Misoprostol
Dinoprostone
Induced Labor
Myometrium
3 Citations (Scopus)

Cyanobacterial biocrust diversity in Mediterranean ecosystems along a latitudinal and climatic gradient

Muñoz-Martín, M. Á., Becerra-Absalón, I., Perona, E., Fernández-Valbuena, L., Garcia-Pichel, F. & Mateo, P., Jan 1 2019, In : New Phytologist. 221, 1, p. 123-141 19 p.

Research output: Contribution to journalArticle

Cyanobacteria
Ecosystem
ecosystems
Microcoleus vaginatus
Scytonema
2 Citations (Scopus)

Deamination reaction mechanisms of protonated amines under hydrothermal conditions

Robinson, K. J., Gould, I., Fecteau, K. M., Hartnett, H., Williams, L. & Shock, E., Jan 1 2019, In : Geochimica et Cosmochimica Acta. 244, p. 113-128 16 p.

Research output: Contribution to journalArticle

Amines
Amino Acids
Reaction kinetics
Substitution reactions
Carbon

Decomposition of amino acids in water with application to in-situ measurements of Enceladus, Europa and other hydrothermally active icy ocean worlds

Truong, N., Monroe, A. A., Glein, C. R., Anbar, A. & Lunine, J. I., Sep 1 2019, In : Icarus. 329, p. 140-147 8 p.

Research output: Contribution to journalArticle

Enceladus
Europa
in situ measurement
amino acids
oceans

Development and application of a high-content virion display human GPCR array

Syu, G. D., Wang, S. C., Ma, G., Liu, S., Pearce, D., Prakash, A., Henson, B., Weng, L. C., Ghosh, D., Ramos, P., Eichinger, D., Pino, I., Dong, X., Xiao, J., Wang, S., Tao, N., Kim, K. S., Desai, P. J. & Zhu, H., Dec 1 2019, In : Nature communications. 10, 1, 1997.

Research output: Contribution to journalArticle

Open Access
G-Protein-Coupled Receptors
Virion
proteins
Ligands
ligands

Dinoflagellate nucleus contains an extensive endomembrane network, the nuclear net

Gavelis, G. S., Herranz, M., Wakeman, K. C., Ripken, C., Mitarai, S., Gile, G., Keeling, P. J. & Leander, B. S., Dec 1 2019, In : Scientific Reports. 9, 1, 839.

Research output: Contribution to journalArticle

Dinoflagellida
Nuclear Envelope
Membranes
Freeze Substitution
Kinetochores

Distributed adaptive search in T Cells: Lessons from ants

Moses, M. E., Cannon, J. L., Gordon, D. M. & Forrest, S., Jan 1 2019, In : Frontiers in Immunology. 10, JUN, 1357.

Research output: Contribution to journalReview article

Open Access
Ants
T-Lymphocytes
Immune System
Social Adjustment
Aptitude

Diverse genomoviruses representing eight new and one known species identified in feces and nests of house finches (Haemorhous mexicanus)

Schmidlin, K., Sepp, T., Khalifeh, A., Smith, K., Fontenele, R. S., McGraw, K. & Varsani, A., Jan 1 2019, In : Archives of virology.

Research output: Contribution to journalArticle

Finches
Feces
Birds
Southwestern United States
DNA Viruses
2 Citations (Scopus)

Diverse single-stranded DNA viruses associated with honey bees (Apis mellifera)

Kraberger, S., Cook, C. N., Schmidlin, K., Fontenele, R. S., Bautista, J., Smith, B. & Varsani, A., Jul 1 2019, In : Infection, Genetics and Evolution. 71, p. 179-188 10 p.

Research output: Contribution to journalArticle

ssDNA viruses
Microviridae
DNA Viruses
Honey
Bees

DNA-affibody nanoparticle delivery system for cisplatin-based breast cancer chemotherapy

Zhang, C., Zhang, H. L., Han, M. N., Yang, X. L., Pei, C. H., Xu, Z. D., Du, J., Li, W. & Chen, S., Jan 1 2019, In : RSC Advances. 9, 4, p. 1982-1989 8 p.

Research output: Contribution to journalArticle

Open Access
Chemotherapy
Cisplatin
DNA
Nanoparticles
Toxicity
1 Citation (Scopus)

DNA methylation changes associated with Parkinson’s disease progression: outcomes from the first longitudinal genome-wide methylation analysis in blood

Harvard Biomarkers Study investigators are listed in the Acknowledgement section, Jan 1 2019, In : Epigenetics.

Research output: Contribution to journalArticle

DNA Methylation
Methylation
Parkinson Disease
Disease Progression
Genome