Biodesign Institute (BDI)

Research Output 1870 2019

2019

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

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

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

Analysis of recombination processes in polytype gallium arsenide nanowires

Vulic, N. & Goodnick, S., Feb 1 2019, In : Nano Energy. 56, p. 196-206 11 p.

Research output: Contribution to journalArticle

Gallium arsenide
Nanowires
Photoluminescence
Energy gap
Defects
1 Citation (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
1 Citation (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

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
4 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

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
1 Citation (Scopus)

Beyond news contents: The role of social context for fake news detection

Shu, K., Wang, S. & Liu, H., Jan 30 2019, WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining. Association for Computing Machinery, Inc, p. 312-320 9 p. (WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining).

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

Ecosystems
Costs
Experiments

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

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

Effects of light intensity on soluble microbial products produced by Synechocystis sp. PCC 6803 and associated heterotrophic communities

Cahill, B., Straka, L., Maldonado Ortiz, J., Krajmalnik-Brown, R. & Rittmann, B., Mar 1 2019, In : Algal Research. 38, 101409.

Research output: Contribution to journalArticle

Synechocystis sp. PCC 6803
Synechocystis
microbial communities
light intensity
algae

Effects of vibrotactile feedback and grasp interface compliance on perception and control of a sensorized myoelectric hand

Pena, A. E., Rincon-Gonzalez, L., Abbas, J. & Jung, R., Jan 1 2019, In : PLoS One. 14, 1, e0210956.

Research output: Contribution to journalArticle

Hand Strength
compliance
Compliance
hands
Hand

Electron-acceptor loadings affect chloroform dechlorination in a hydrogen-based membrane biofilm reactor

Lai, Y. J. S., Ontiveros-Valencia, A., Coskun, T., Zhou, C. & Rittmann, B., Jan 1 2019, In : Biotechnology and Bioengineering.

Research output: Contribution to journalArticle

Dechlorination
Biofilms
Chloroform
Chlorine compounds
Hydrogen
1 Citation (Scopus)

Electro-selective fermentation enhances lipid extraction and biohydrogenation of Scenedesmus acutus biomass

Liu, Y., Lai, Y. J. S., Barbosa, T. S., Chandra, R., Parameswaran, P. & Rittmann, B., Mar 1 2019, In : Algal Research. 38, 101397.

Research output: Contribution to journalArticle

biohydrogenation
Scenedesmus
fermentation
biomass
lipids

Energy recovery in the form of N 2 O by denitrifying bacteria

Yu, C., Qiao, S., Yang, Y., Jin, R., Zhou, J. & Rittmann, B., Sep 1 2019, In : Chemical Engineering Journal. 371, p. 500-506 7 p.

Research output: Contribution to journalArticle

Ethylenediaminetetraacetic acid
nitrous oxide
EDTA
Bacteria
Cytochromes c

Evaluation of a toxoid fusion protein vaccine produced in plants to protect poultry against necrotic enteritis

Hunter, J. G. L., Wilde, S., Tafoya, A. M., Horsman, J., Yousif, M., Diamos, A. G., Roland, K. L. & Mason, H., Jan 1 2019, In : PeerJ. 2019, 3, e6600.

Research output: Contribution to journalArticle

Open Access
Toxoids
necrotic enteritis
Poultry
toxoids
Enteritis

Evaluation of the performance of classification algorithms for XFEL single-particle imaging data

Shi, Y., Yin, K., Tai, X., DeMirci, H., Hosseinizadeh, A., Hogue, B., Li, H., Ourmazd, A., Schwander, P., Vartanyants, I. A., Yoon, C. H., Aquila, A. & Liu, H., Jan 1 2019, In : IUCrJ. 6, p. 331-340 10 p.

Research output: Contribution to journalArticle

Open Access
X ray lasers
Free electron lasers
free electron lasers
Lasers
X-Rays
Denitrification
Nitrates
calcium acetate
denitrification
Carbonates

Fake News: Fundamental theories, detection strategies and challenges

Zhou, X., Zafarani, R., Shu, K. & Liu, H., Jan 30 2019, WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining. Association for Computing Machinery, Inc, p. 836-837 2 p. (WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining).

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

Information science
Social sciences
Information retrieval
Computer science
Data mining

FakeNewsTracker: a tool for fake news collection, detection, and visualization

Shu, K., Mahudeswaran, D. & Liu, H., Mar 1 2019, In : Computational and Mathematical Organization Theory. 25, 1, p. 60-71 12 p.

Research output: Contribution to journalArticle

Social Media
Visualization
Costs
Propagation
Predict

Gate controlling of quantum interference and direct observation of anti-resonances in single molecule charge transport

Li, Y., Buerkle, M., Li, G., Rostamian, A., Wang, H., Wang, Z., Bowler, D. R., Miyazaki, T., Xiang, L., Asai, Y., Zhou, G. & Tao, N., Jan 1 2019, In : Nature materials.

Research output: Contribution to journalArticle

Fermi level
Charge transfer
Molecular orbitals
interference
Molecules

High-Throughput Profiling of Circulating Antibody Signatures for Stroke Diagnosis Using Small Volumes of Whole Blood

O’Connell, G. C., Stafford, P., Walsh, K. B., Adeoye, O. & Barr, T. L., Jan 1 2019, In : Neurotherapeutics.

Research output: Contribution to journalArticle

Blood Volume
Stroke
Antibodies
Triage
Sensitivity and Specificity

Interactive anomaly detection on attributed networks

Ding, K., Li, J. & Liu, H., Jan 30 2019, WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining. Association for Computing Machinery, Inc, p. 357-365 9 p. (WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining).

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

Intrusion detection
Labeling
Failure analysis
Costs
Experiments

Linked variational autoencoders for inferring substitutable and supplementary items

Rakesh, V., Wang, S., Shu, K. & Liu, H., Jan 30 2019, WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining. Association for Computing Machinery, Inc, p. 438-446 9 p. (WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining).

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

Collaborative filtering
Neural networks
Controllers
Experiments
Deep learning

Long-term benefit of Microbiota Transfer Therapy on autism symptoms and gut microbiota

Kang, D. W., Adams, J., Coleman, D. M., Pollard, E. L., Maldonado, J., McDonough-Means, S., Caporaso, J. G. & Krajmalnik-Brown, R., Dec 1 2019, In : Scientific reports. 9, 1, 5821.

Research output: Contribution to journalArticle

Open Access
Microbiota
Autistic Disorder
Therapeutics
Prevotella
Behavioral Symptoms

Maternal choline supplementation ameliorates Alzheimer’s disease pathology by reducing brain homocysteine levels across multiple generations

Velazquez, R., Ferreira, E., Winslow, W., Dave, N., Piras, I. S., Naymik, M., Huentelman, M. J., Tran, A., Caccamo, A. & Oddo, S., Jan 1 2019, (Accepted/In press) In : Molecular Psychiatry.

Research output: Contribution to journalArticle

Homocysteine
Choline
Alzheimer Disease
Mothers
Pathology

Methane oxidation coupled to perchlorate reduction in a membrane biofilm batch reactor

Lv, P. L., Shi, L. D., Wang, Z., Rittmann, B. & Zhao, H. P., Jun 1 2019, In : Science of the Total Environment. 667, p. 9-15 7 p.

Research output: Contribution to journalArticle

perchlorate
Methane
Batch reactors
Biofilms
biofilm

Microbiological processes in reactive modeling

Rittmann, B. & VanBriesen, J. M., Feb 26 2019, Reactive Transport in Porous Media. Walter de Gruyter GmbH, Vol. 34. p. 311-334 24 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

modeling
Open Access
death
leaves
proteins
viruses
nucleotides
1 Citation (Scopus)

Nationwide reconnaissance of five parabens, triclosan, triclocarban and its transformation products in sewage sludge from China

Chen, J., Meng, X. Z., Bergman, A. & Halden, R., Mar 5 2019, In : Journal of Hazardous Materials. 365, p. 502-510 9 p.

Research output: Contribution to journalArticle

Parabens
Triclosan
Sewage sludge
Sewage
China

Neutralizing the polarization effect of diamond diode detectors using periodic forward bias pulses

Holmes, J. M., Dutta, M., Koeck, F. A., Benipal, M. K., Hathwar, R., Brown, J., Fox, B., Johnson, H., Zaniewski, A., Alarcon, R., Chowdhury, S., Goodnick, S. & Nemanich, R., Apr 1 2019, In : Diamond and Related Materials. 94, p. 162-165 4 p.

Research output: Contribution to journalArticle

Diamond
Diamonds
Diodes
Polarization
Detectors

Nonequilibrium electron and phonon dynamics in advanced concept solar cells

Hathwar, R., Zou, Y., Jirauschek, C. & Goodnick, S., Feb 27 2019, In : Journal of Physics D: Applied Physics. 52, 9, 093001.

Research output: Contribution to journalReview article

Relaxation processes
Phonons
Semiconductor quantum wells
Nanowires
Solar cells

Optical Imaging of Charges with Atomically Thin Molybdenum Disulfide

Zhu, H., Zhang, F., Wang, H., Lu, Z., Chen, H. Y., Li, J. & Tao, N., Jan 1 2019, (Accepted/In press) In : ACS Nano.

Research output: Contribution to journalArticle

molybdenum disulfides
Molybdenum
Imaging techniques
Molecules
Charge distribution

Project honeybee: Clinical applications for wearable biosensors

Hartwell, L., Ross, H. M. & LaBelle, J., Jun 1 2019, In : Biomedical Microdevices. 21, 2, 37.

Research output: Contribution to journalArticle

Biosensing Techniques
Biosensors
Nursing
Equipment and Supplies
Research
Cationic surfactants
Chain length
surfactant
Biomass
Agglomeration

Protecting user privacy: An approach for untraceable web browsing history and unambiguous user profiles

Beigi, G., Guo, R., Nou, A., Zhang, Y. & Liu, H., Jan 30 2019, WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining. Association for Computing Machinery, Inc, p. 213-221 9 p. (WSDM 2019 - Proceedings of the 12th ACM International Conference on Web Search and Data Mining).

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

History
Internet service providers
Websites
Internet
Communication

Rapidly processed stool swabs approximate stool microbiota profiles

Bokulich, N. A., Maldonado, J., Kang, D. W., Krajmalnik-Brown, R. & Caporaso, J. G., Mar 1 2019, In : mSphere. 4, 2, e00208-19.

Research output: Contribution to journalArticle

Open Access
Microbiota
Temperature
Enterobacteriaceae
rRNA Genes
Gastrointestinal Microbiome

Redox Engineering of Cytochrome c using DNA Nanostructure-Based Charged Encapsulation and Spatial Control

Ge, Z., Su, Z., Simmons, C. R., Li, J., Jiang, S., Li, W., Yang, Y., Liu, Y., Chiu, W., Fan, C. & Yan, H., Apr 17 2019, In : ACS Applied Materials and Interfaces. 11, 15, p. 13874-13880 7 p.

Research output: Contribution to journalArticle

Cytochromes c
Encapsulation
Nanostructures
DNA
Proteins

Retrospective nationwide occurrence of fipronil and its degradates in U.S. wastewater and sewage sludge from 2001 - 2016

Sadaria, A. M., Labban, C. W., Steele, J. C., Maurer, M. M. & Halden, R., May 15 2019, In : Water Research. p. 465-473 9 p.

Research output: Contribution to journalArticle

Environmental Protection Agency
Sewage sludge
Effluents
Wastewater
Pest control

Role of contacts in long-range protein conductance

Zhang, B., Song, W., Pang, P., Lai, H., Chen, Q., Zhang, P. & Lindsay, S., Jan 1 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 13, p. 5886-5891 6 p.

Research output: Contribution to journalArticle

Open Access
Electrodes
Proteins
Ebolavirus
Ligands
HIV Antibodies

Role of hydrogen (H 2 ) mass transfer in microbiological H 2 -threshold studies

Karadagli, F., Marcus, A. & Rittmann, B., Jan 1 2019, In : Biodegradation.

Research output: Contribution to journalArticle

mass transfer
Hydrogen
Mass transfer
Gases
hydrogen

The role of ultrasound-treated sludge for accelerating quinoline mono-oxygenation

Zhang, Y., Wang, Y., Lu, Q., Zhang, C., Yan, N., Zhang, Y. & Rittmann, B., Mar 1 2019, In : Journal of Environmental Management. 233, p. 561-566 6 p.

Research output: Contribution to journalArticle

Oxygenation
oxygenation
Biodegradation
Ultrasonics
sludge

The smoke detector principle

Nesse, R., Jan 21 2019, In : Evolution, Medicine and Public Health. 2019, 1, 1 p.

Research output: Contribution to journalComment/debate

Open Access
smoke
Smoke
detectors
detector

Third generation impedimetric sensor employing direct electron transfer type glucose dehydrogenase

Ito, Y., Okuda-Shimazaki, J., Tsugawa, W., Loew, N., Shitanda, I., Lin, C. E., LaBelle, J. & Sode, K., Mar 15 2019, In : Biosensors and Bioelectronics. 129, p. 189-197 9 p.

Research output: Contribution to journalArticle

Glucose 1-Dehydrogenase
Glucose
Enzyme sensors
Electrons
Dielectric Spectroscopy

Tinbergen's four questions

Nesse, R., Jan 21 2019, In : Evolution, Medicine and Public Health. 2019, 1, 1 p.

Research output: Contribution to journalComment/debate

Open Access