Featured Publications
Observability and Controllability of Nonlinear Networks: The Role of Symmetry
Whalen A, Brennan S, Sauer T, Schiff S. Observability and Controllability of Nonlinear Networks: The Role of Symmetry. Physical Review X 2015, 5: 011005. PMID: 30443436, PMCID: PMC6234006, DOI: 10.1103/physrevx.5.011005.Peer-Reviewed Original ResearchNonlinear networksMathematical modelPresence of symmetryComplex nonlinear networksRole of symmetryNetworked systemsExplicit symmetryLinear networkSuch subspacesPresent theoryRotational symmetryStructural controllabilityObservabilityReal systemComplex networksSymmetryControllabilityObserver modelNonlinear measuresSuch networksSubspaceModel behaviorNetwork observationsNetworkModelControl of Spreading Depression with Electrical Fields
Whalen A, Xiao Y, Kadji H, Dahlem M, Gluckman B, Schiff S. Control of Spreading Depression with Electrical Fields. Scientific Reports 2018, 8: 8769. PMID: 29884896, PMCID: PMC5993812, DOI: 10.1038/s41598-018-26986-1.Peer-Reviewed Original ResearchConceptsElectric fieldField polarityDC electric fieldElectric field polarityElectrical controlOptical imagingPropagation pathIntrinsic optical imagingOpposite signDepression propagatesElectrical fieldField terminationElectro-chemical gradientPropagation velocityPropagatesFieldTraumatic brain injuryPropagationConfinementMore superficial layersDepression propagationBrain injurySynaptic transmissionBrain slicesWavesThermal effects on neurons during stimulation of the brain
Kim T, Kadji H, Whalen A, Ashourvan A, Freeman E, Fried S, Tadigadapa S, Schiff S. Thermal effects on neurons during stimulation of the brain. Journal Of Neural Engineering 2022, 19: 056029. PMID: 36126646, PMCID: PMC9855718, DOI: 10.1088/1741-2552/ac9339.Peer-Reviewed Original ResearchConceptsThermal effectsJoule heatingMagnetic coilsRate dependencyElectrical interactionsSmall thermal effectsTemperature changesDissipation of energyNumerical modelingRange of frequenciesThermal energyMagnetic fieldDC drivingMagnetic inductionElectrical currentStatic magnetic fieldSmall temperature increaseTemperature increaseAccurate modulationCoilEnergy depositionHeatingConductorsTransient effectsElectrodeMEMS micro-coils for magnetic neurostimulation
Liu X, Whalen A, Ryu S, Lee S, Fried S, Kim K, Cai C, Lauritzen M, Bertram N, Chang B, Yu T, Han A. MEMS micro-coils for magnetic neurostimulation. Biosensors And Bioelectronics 2023, 227: 115143. PMID: 36805270, DOI: 10.1016/j.bios.2023.115143.Peer-Reviewed Original ResearchConceptsMEMS fabrication processHigh power efficiencyPhysical vapor depositionDRIE processThick metal filmSOI waferALD aluminaFabrication processParylene CCoil resistanceDevice fabricationProcess technologyLithography stepAl wireProbe fabricationMask fabricationPower efficiencyVapor depositionMetal filmsHigh conductivityLeak resistanceFabricationDesign changesCoil deviceMaskless photolithographyThermal safety considerations for implantable micro-coil design
Whalen A, Fried S. Thermal safety considerations for implantable micro-coil design. Journal Of Neural Engineering 2023, 20: 046017. PMID: 37451256, PMCID: PMC10467159, DOI: 10.1088/1741-2552/ace79a.Peer-Reviewed Original ResearchConceptsWire materialThermal gradientThermal impactActive implantable medical devicesMicro-magnetic stimulationFinite element modelingFine-wire thermocouplesImplantable medical devicesTemperature increaseElement modelingWire thermocouplesConductor materialBent wiresSafe designSafety limitsVoltage amplitudeNumerical modelingWire coilPlatinum/iridiumThermal profileConstruction geometrySuch devicesHigh temperaturePromising novel technologyMedical devices
2023
Paenibacillus spp infection among infants with postinfectious hydrocephalus in Uganda: an observational case-control study
Morton S, Hehnly C, Burgoine K, Ssentongo P, Ericson J, Kumar M, Hagmann C, Fronterre C, Smith J, Movassagh M, Streck N, Bebell L, Bazira J, Kumbakumba E, Bajunirwe F, Mulondo R, Mbabazi-Kabachelor E, Nsubuga B, Natukwatsa D, Nalule E, Magombe J, Erickson T, Ngonzi J, Ochora M, Olupot-Olupot P, Onen J, Ssenyonga P, Mugamba J, Warf B, Kulkarni A, Lane J, Whalen A, Zhang L, Sheldon K, Meier F, Kiwanuka J, Broach J, Paulson J, Schiff S. Paenibacillus spp infection among infants with postinfectious hydrocephalus in Uganda: an observational case-control study. The Lancet Microbe 2023, 4: e601-e611. PMID: 37348522, PMCID: PMC10529524, DOI: 10.1016/s2666-5247(23)00106-4.Peer-Reviewed Original ResearchConceptsMother-newborn pairsPostinfectious hydrocephalusCerebrospinal fluidNeonatal sepsisSpp infectionUgandan infantsMaternal bloodObservational case-control studyHospital OfficeInfant's cerebrospinal fluidBurden of morbidityCase-control studyRoute of infectionSubset of participantsMaternal feverCranial ultrasoundNeonatal infectionSepsis cohortOptimise treatmentTransplacental transmissionCord bloodObservational studyPlacental samplesSepsisHydrocephalusVerification of operational numerical weather prediction model forecasts of precipitation using satellite rainfall estimates over Africa
Wang Y, Gueye M, Greybush S, Greatrex H, Whalen A, Ssentongo P, Zhang F, Jenkins G, Schiff S. Verification of operational numerical weather prediction model forecasts of precipitation using satellite rainfall estimates over Africa. Meteorological Applications 2023, 30 DOI: 10.1002/met.2112.Peer-Reviewed Original ResearchAfrican Rainfall Climatology Version 2Inter-Tropical Convergence ZoneNumerical weather modelsNumerical weather prediction model forecastsMedium-Range Weather ForecastsSatellite rainfall estimatesModel rainfall forecastShort-term forecastsComplete spatial coverageClimate-related diseasesAfrican rainfallRainfall estimatesRainfall forecastsConvergence zoneRainfall observationsSeasonal timescalesModel forecastsWeather forecastsDaily forecastsWeather modelsEuropean CentreAbstract RainfallForecast modelSitu observationsSpatial coverage
2021
Identifiability of Infection Model Parameters Early in an Epidemic
Sauer T, Berry T, Ebeigbe D, Norton M, Whalen A, Schiff S. Identifiability of Infection Model Parameters Early in an Epidemic. SIAM Journal On Control And Optimization 2021, 0: s27-s48. PMID: 36338855, PMCID: PMC9634856, DOI: 10.1137/20m1353289.Peer-Reviewed Original ResearchPan-African evolution of within- and between-country COVID-19 dynamics
Ssentongo P, Fronterre C, Geronimo A, Greybush S, Mbabazi P, Muvawala J, Nahalamba S, Omadi P, Opar B, Sinnar S, Wang Y, Whalen A, Held L, Jewell C, Muwanguzi A, Greatrex H, Norton M, Diggle P, Schiff S. Pan-African evolution of within- and between-country COVID-19 dynamics. Proceedings Of The National Academy Of Sciences Of The United States Of America 2021, 118: e2026664118. PMID: 34187879, PMCID: PMC8285917, DOI: 10.1073/pnas.2026664118.Peer-Reviewed Original ResearchThe impact of synchronous versus asynchronous electrical stimulation in artificial vision
Moleirinho S, Whalen A, Fried S, Pezaris J. The impact of synchronous versus asynchronous electrical stimulation in artificial vision. Journal Of Neural Engineering 2021, 18: 051001. PMID: 33900206, DOI: 10.1088/1741-2552/abecf1.Peer-Reviewed Original ResearchCorrection: Association of vitamin A deficiency with early childhood stunting in Uganda: A population-based cross-sectional study
Ssentongo P, Ba D, Ssentongo A, Fronterre C, Whalen A, Yang Y, Ericson J, Chinchilli V. Correction: Association of vitamin A deficiency with early childhood stunting in Uganda: A population-based cross-sectional study. PLOS ONE 2021, 16: e0250138. PMID: 33831117, PMCID: PMC8031318, DOI: 10.1371/journal.pone.0250138.Peer-Reviewed Original Research
2020
Paenibacillus infection with frequent viral coinfection contributes to postinfectious hydrocephalus in Ugandan infants
Paulson J, Williams B, Hehnly C, Mishra N, Sinnar S, Zhang L, Ssentongo P, Mbabazi-Kabachelor E, Wijetunge D, von Bredow B, Mulondo R, Kiwanuka J, Bajunirwe F, Bazira J, Bebell L, Burgoine K, Couto-Rodriguez M, Ericson J, Erickson T, Ferrari M, Gladstone M, Guo C, Haran M, Hornig M, Isaacs A, Kaaya B, Kangere S, Kulkarni A, Kumbakumba E, Li X, Limbrick D, Magombe J, Morton S, Mugamba J, Ng J, Olupot-Olupot P, Onen J, Peterson M, Roy F, Sheldon K, Townsend R, Weeks A, Whalen A, Quackenbush J, Ssenyonga P, Galperin M, Almeida M, Atkins H, Warf B, Lipkin W, Broach J, Schiff S. Paenibacillus infection with frequent viral coinfection contributes to postinfectious hydrocephalus in Ugandan infants. Science Translational Medicine 2020, 12 PMID: 32998967, PMCID: PMC7774825, DOI: 10.1126/scitranslmed.aba0565.Peer-Reviewed Original ResearchConceptsPostinfectious hydrocephalusCSF samplesPIH casesPotential causative organismsCerebrospinal fluid accumulationCytomegalovirus coinfectionUgandan infantsNeonatal sepsisSurgical palliationNeonatal infectionInfant casesOptimal treatmentInfant cohortCommon causeCausative organismPediatric hydrocephalusFluid accumulationHydrocephalusAnaerobic bacterial isolatesControl casesInfectionFacultative anaerobic bacterial isolatesInfantsParasitic DNADiseaseAssociation of vitamin A deficiency with early childhood stunting in Uganda: A population-based cross-sectional study
Ssentongo P, Ba D, Ssentongo A, Fronterre C, Whalen A, Yang Y, Ericson J, Chinchilli V. Association of vitamin A deficiency with early childhood stunting in Uganda: A population-based cross-sectional study. PLOS ONE 2020, 15: e0233615. PMID: 32470055, PMCID: PMC7259702, DOI: 10.1371/journal.pone.0233615.Peer-Reviewed Original ResearchConceptsAssociation of vitaminPrevalence of VADChildhood protein-energy malnutritionEffective preventive strategiesProtein-energy malnutritionPotential confoundersEpidemiologic linkHigh prevalenceHealth SurveyPreventive strategiesHigher oddsLinear mixed-effects modelsUnderweightVADMixed-effects modelsCross-sectional data
2016
Effects of Symmetry on the Structural Controllability of Neural Networks: A Perspective
Whalen A, Brennan S, Sauer T, Schiff S. Effects of Symmetry on the Structural Controllability of Neural Networks: A Perspective. Proceedings Of The 2010 American Control Conference 2016, 2016: 5785-5790. PMID: 29176923, PMCID: PMC5699861, DOI: 10.1109/acc.2016.7526576.Peer-Reviewed Original ResearchGroup representation theoryStructural controllabilityMan-made networksDynamical systemsOptimal actuatorRepresentation theoryEffect of symmetryControl inputExplicit symmetryCritical actuatorsEngineering systemsComplex networksSymmetryControllabilityMinimum numberActuatorsCoupling structureStructural symmetryNeural networkNetworkRecent workTheorySystemBroad interest
2012
Observability of Neuronal Network Motifs
Whalen A, Brennan S, Sauer T, Schiff S. Observability of Neuronal Network Motifs. 2012, 2012: 1-5. PMID: 25909092, PMCID: PMC4405257, DOI: 10.1109/ciss.2012.6310923.Peer-Reviewed Original ResearchNetwork observabilitySystem phase spaceFull network informationNetwork dynamicsNodal dynamicsNeuronal network motifsNodal equationsPhase spaceObservability metricsLimited measurement dataNeuron motifsConnection topologyObservabilitySmall neuronal networksNetwork motifsSuch networksMeasurement dataSymmetryDynamicsTopologyOrders of magnitudeEquationsNonlinearityFuture experimental workNetwork information