2024
Engineering Principles and Bioengineering in Global Health
Harper J, Schiff S. Engineering Principles and Bioengineering in Global Health. Neurosurgery Clinics Of North America 2024, 35: 481-488. PMID: 39244320, PMCID: PMC11386904, DOI: 10.1016/j.nec.2024.05.010.Peer-Reviewed Original ResearchPaediatric hydrocephalus
Kahle K, Klinge P, Koschnitzky J, Kulkarni A, MacAulay N, Robinson S, Schiff S, Strahle J. Paediatric hydrocephalus. Nature Reviews Disease Primers 2024, 10: 35. PMID: 38755194, DOI: 10.1038/s41572-024-00519-9.Peer-Reviewed Original ResearchConceptsSymptoms of elevated intracranial pressureCerebrospinal fluidCentral nervous system infectionChoroid plexus cauterizationEndoscopic third ventriculostomyNervous system infectionNonsurgical treatment strategiesElevated intracranial pressureLong-term outcomesNeural tube defectsCSF-brain interfaceFetal hydrocephalusUtero treatmentAcquired hydrocephalusCSF secretionSurgical closureCSF shuntingHead circumferenceThird ventriculostomyCongenital hydrocephalusAssociated with blockageGene mutationsCerebral ventricleTreatment strategiesCSF pathwaysThe genetic basis of hydrocephalus: genes, pathways, mechanisms, and global impact
Hale A, Boudreau H, Devulapalli R, Duy P, Atchley T, Dewan M, Goolam M, Fieggen G, Spader H, Smith A, Blount J, Johnston J, Rocque B, Rozzelle C, Chong Z, Strahle J, Schiff S, Kahle K. The genetic basis of hydrocephalus: genes, pathways, mechanisms, and global impact. Fluids And Barriers Of The CNS 2024, 21: 24. PMID: 38439105, PMCID: PMC10913327, DOI: 10.1186/s12987-024-00513-z.Peer-Reviewed Original ResearchConceptsCerebrospinal fluidOverview of genesEtiology of HCPathogenesis of HCChoroid plexus cauterizationEndoscopic third ventriculostomyIncreased intracranial pressureGenetic architectureGenetic basisImpact of geneticsVentricular shuntSurgical treatmentThird ventriculostomyPhenotypic heterogeneityHeterogeneous diseasePharmacological treatmentGenetic syndromesMolecular pathogenesisIntracranial pressureHydrocephalusTherapeutic measuresGenesGeneticsBrain injuryPathway
2023
Detection of Intracerebral Hemorrhage Using Low-Field, Portable Magnetic Resonance Imaging in Patients With Stroke
Mazurek M, Parasuram N, Peng T, Beekman R, Yadlapalli V, Sorby-Adams A, Lalwani D, Zabinska J, Gilmore E, Petersen N, Falcone G, Sujijantarat N, Matouk C, Payabvash S, Sze G, Schiff S, Iglesias J, Rosen M, de Havenon A, Kimberly W, Sheth K. Detection of Intracerebral Hemorrhage Using Low-Field, Portable Magnetic Resonance Imaging in Patients With Stroke. Stroke 2023, 54: 2832-2841. PMID: 37795593, PMCID: PMC11103256, DOI: 10.1161/strokeaha.123.043146.Peer-Reviewed Original ResearchmbQTL: an R/Bioconductor package for microbial quantitative trait loci (QTL) estimation
Movassagh M, Schiff S, Paulson J. mbQTL: an R/Bioconductor package for microbial quantitative trait loci (QTL) estimation. Bioinformatics 2023, 39: btad565. PMID: 37707523, PMCID: PMC10516520, DOI: 10.1093/bioinformatics/btad565.Peer-Reviewed Original ResearchConceptsSingle nucleotide variationsRNA sequencingMicrobial abundance dataQuantitative trait lociSingle nucleotide polymorphism dataRibosomal RNA sequencingField of genomicsWhole-genome sequencingEvidence of interplayMutational profileTrait lociMicrobial communitiesMicrobial abundancePolymorphism dataMicrobial populationsGenome sequencingAbundance dataFirst R packageHuman geneticsBioconductor packageGenetic variantsMicrobiome dataSequencingR packageAbundancePublisher Correction: Brain imaging with portable low-field MRI
Kimberly W, Sorby-Adams A, Webb A, Wu E, Beekman R, Bowry R, Schiff S, de Havenon A, Shen F, Sze G, Schaefer P, Iglesias J, Rosen M, Sheth K. Publisher Correction: Brain imaging with portable low-field MRI. Nature Reviews Bioengineering 2023, 1: 680-680. DOI: 10.1038/s44222-023-00100-1.Peer-Reviewed Original ResearchBrain imaging with portable low-field MRI
Kimberly W, Sorby-Adams A, Webb A, Wu E, Beekman R, Bowry R, Schiff S, de Havenon A, Shen F, Sze G, Schaefer P, Iglesias J, Rosen M, Sheth K. Brain imaging with portable low-field MRI. Nature Reviews Bioengineering 2023, 1: 617-630. PMID: 37705717, PMCID: PMC10497072, DOI: 10.1038/s44222-023-00086-w.Peer-Reviewed Original ResearchSparse k-space dataK-space dataImage reconstructionUseful diagnostic imagesReconstruction algorithmLow power requirementsNew applicationsLF-MRIDiagnostic imagesNew approachNew opportunitiesHardwareConventional systemMachineOngoing developmentPower requirementsAlgorithmImagesTechnological innovationFurther innovationNoise cancellationNoise ratioTechnologyRequirementsInformationPaenibacillus 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 samplesSepsisHydrocephalusPortable MRI to assess optic chiasm decompression after endoscopic endonasal resection of sellar and suprasellar lesions.
Hong C, Lamsam L, Yadlapalli V, Parasuram N, Mazurek M, Chavva I, Lalwani D, Zabinska J, Schiff S, Manes R, Vining E, Rimmer R, Kimberly W, Sheth K, Omay S. Portable MRI to assess optic chiasm decompression after endoscopic endonasal resection of sellar and suprasellar lesions. Journal Of Neurosurgery 2023, 139: 1664-1670. PMID: 37347618, DOI: 10.3171/2023.5.jns23174.Peer-Reviewed Original ResearchConceptsEndoscopic endonasal surgeryOptic nerve decompressionEndonasal surgerySuprasellar lesionsNerve decompressionOptic chiasmThird ventricleConventional MRIOptic chiasm compressionEndoscopic endonasal resectionChiasm compressionPreoperative imagingSingle institutionEndonasal resectionMRI availabilityRoutine MRISignificant interrater reliabilitySuprasellar pathologiesSurgeryNeurosurgical oncologyLinear mixed-effects modelsPortable MRIPatientsMRIMixed-effects modelsNeonatal Paenibacilliosis: Paenibacillus Infection as a Novel Cause of Sepsis in Term Neonates With High Risk of Sequelae in Uganda
Ericson J, Burgoine K, Kumbakumba E, Ochora M, Hehnly C, Bajunirwe F, Bazira J, Fronterre C, Hagmann C, Kulkarni A, Kumar M, Magombe J, Mbabazi-Kabachelor E, Morton S, Movassagh M, Mugamba J, Mulondo R, Natukwatsa D, Kaaya B, Olupot-Olupot P, Onen J, Sheldon K, Smith J, Ssentongo P, Ssenyonga P, Warf B, Wegoye E, Zhang L, Kiwanuka J, Paulson J, Broach J, Schiff S. Neonatal Paenibacilliosis: Paenibacillus Infection as a Novel Cause of Sepsis in Term Neonates With High Risk of Sequelae in Uganda. Clinical Infectious Diseases 2023, 77: 768-775. PMID: 37279589, PMCID: PMC10495130, DOI: 10.1093/cid/ciad337.Peer-Reviewed Original ResearchConceptsNeonatal sepsisPostinfectious hydrocephalusCerebrospinal fluidSigns of sepsisFull-term neonatesOptimal antibiotic treatmentUgandan referral hospitalQuantitative polymerase chain reactionNeonatal characteristicsClinical sepsisTerm neonatesUnderdiagnosed causeAntibiotic choiceMedian ageReferral hospitalUgandan hospitalNeurodevelopmental impairmentAdverse outcomesSpecimen typesAntibiotic treatmentPolymerase chain reactionClinical signsUnusual pathogensSepsisHigh riskInfection diagnosis in hydrocephalus CT images: a domain enriched attention learning approach
Yu M, Peterson M, Cherukuri V, Hehnly C, Mbabazi-Kabachelor E, Mulondo R, Kaaya B, Broach J, Schiff S, Monga V. Infection diagnosis in hydrocephalus CT images: a domain enriched attention learning approach. Journal Of Neural Engineering 2023, 20: 10.1088/1741-2552/acd9ee. PMID: 37253355, PMCID: PMC11099590, DOI: 10.1088/1741-2552/acd9ee.Peer-Reviewed Original ResearchIdentification of White Matter Hyperintensities in Routine Emergency Department Visits Using Portable Bedside Magnetic Resonance Imaging
de Havenon A, Parasuram N, Crawford A, Mazurek M, Chavva I, Yadlapalli V, Iglesias J, Rosen M, Falcone G, Payabvash S, Sze G, Sharma R, Schiff S, Safdar B, Wira C, Kimberly W, Sheth K. Identification of White Matter Hyperintensities in Routine Emergency Department Visits Using Portable Bedside Magnetic Resonance Imaging. Journal Of The American Heart Association 2023, 12: e029242. PMID: 37218590, PMCID: PMC10381997, DOI: 10.1161/jaha.122.029242.Peer-Reviewed Original ResearchConceptsWhite matter hyperintensitiesMagnetic resonance imagingSevere white matter hyperintensitiesConventional magnetic resonance imagingResonance imagingRetrospective cohortEmergency departmentMatter hyperintensitiesVascular risk factorsProspective observational studyVascular cognitive impairmentTesla magnetic resonance imagingArea Deprivation IndexProspective cohortAdult patientsAcute careRisk factorsCardiovascular diseaseObservational studyCognitive impairmentPatientsCare magnetic resonance imagingIntermodality agreementCohortDeprivation indexOn-site construction of a point-of-care low-field MRI system in Africa
Obungoloch J, Muhumuza I, Teeuwisse W, Harper J, van Gijzen M, Schiff S, Webb A, O'Reilly T. On-site construction of a point-of-care low-field MRI system in Africa. Proceedings Of The International Society For Magnetic Resonance In Medicine ... Scientific Meeting And Exhibition. 2023 DOI: 10.58530/2023/0299.Peer-Reviewed Original ResearchOn‐site construction of a point‐of‐care low‐field MRI system in Africa
Obungoloch J, Muhumuza I, Teeuwisse W, Harper J, Etoku I, Asiimwe R, Tusiime P, Gombya G, Mugume C, Namutebi M, Nassejje M, Nayebare M, Kavuma J, Bukyana B, Natukunda F, Ninsiima P, Muwanguzi A, Omadi P, van Gijzen M, Schiff S, Webb A, O'Reilly T. On‐site construction of a point‐of‐care low‐field MRI system in Africa. NMR In Biomedicine 2023, 36: e4917. PMID: 36914258, PMCID: PMC10330026, DOI: 10.1002/nbm.4917.Peer-Reviewed Original ResearchFuture of Neurology & Technology: Neuroimaging Made Accessible Using Low-Field, Portable MRI
Parasuram N, Crawford A, Mazurek M, Chavva I, Beekman R, Gilmore E, Petersen N, Payabvash S, Sze G, Eugenio Iglesias J, Omay S, Matouk C, Longbrake E, de Havenon A, Schiff S, Rosen M, Kimberly W, Sheth K. Future of Neurology & Technology: Neuroimaging Made Accessible Using Low-Field, Portable MRI. Neurology 2023, 100: 1067-1071. PMID: 36720639, PMCID: PMC10259275, DOI: 10.1212/wnl.0000000000207074.Peer-Reviewed Original ResearchVerification 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
2022
Type IV Pili Are a Critical Virulence Factor in Clinical Isolates of Paenibacillus thiaminolyticus
Hehnly C, Shi A, Ssentongo P, Zhang L, Isaacs A, Morton S, Streck N, Erdmann-Gilmore P, Tolstoy I, Townsend R, Limbrick D, Paulson J, Ericson J, Galperin M, Schiff S, Broach J. Type IV Pili Are a Critical Virulence Factor in Clinical Isolates of Paenibacillus thiaminolyticus. MBio 2022, 13: e02688-22. PMID: 36374038, PMCID: PMC9765702, DOI: 10.1128/mbio.02688-22.Peer-Reviewed Original ResearchConceptsPostinfectious hydrocephalusClinical isolatesVirulence factorsCritical virulence factorPotential virulence factorsPoor long-term outcomesPrevention of hydrocephalusLong-term outcomesBacterial pathogensDevastating sequelaeNeonatal sepsisMiddle-income countriesNeonatal infectionSurgical interventionReference strainsNovel bacterial pathogensAfrican cohortBeta-lactamase genesChildhood mortalityHydrocephalusTherapeutic targetInfectionVirulent strainDevastating diseaseWhole-genome sequencingThermal 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 effectsElectrodeDifferential richness inference for 16S rRNA marker gene surveys
Kumar M, Slud E, Hehnly C, Zhang L, Broach J, Irizarry R, Schiff S, Paulson J. Differential richness inference for 16S rRNA marker gene surveys. Genome Biology 2022, 23: 166. PMID: 35915508, PMCID: PMC9344657, DOI: 10.1186/s13059-022-02722-x.Peer-Reviewed Original ResearchConceptsMarker gene surveysRRNA marker gene surveysGene surveysMicrobial assemblagesSpecies discoveryMicrobial taxaMicrobial communitiesMicrobiome surveysRichness estimationSequencing readsDiversity measuresTaxaGenus abundanceMicrobiome dataR packageAbundanceRichnessDiscoveryDiversityReadsAssemblagesObserved numberExperimental evidenceAccumulationInferenceDeep Learning Applications for Acute Stroke Management
Chavva IR, Crawford AL, Mazurek MH, Yuen MM, Prabhat AM, Payabvash S, Sze G, Falcone GJ, Matouk CC, de Havenon A, Kim JA, Sharma R, Schiff SJ, Rosen MS, Kalpathy‐Cramer J, Gonzalez J, Kimberly WT, Sheth KN. Deep Learning Applications for Acute Stroke Management. Annals Of Neurology 2022, 92: 574-587. PMID: 35689531, DOI: 10.1002/ana.26435.Peer-Reviewed Original ResearchConceptsDeep machine learningDeep learning applicationsMedical image analysisDeep neural networksPixel-wise labelingAcute stroke managementReal-world examplesDL applicationsDL approachMachine learningLearning applicationsDL modelsNeural networkStroke managementLesion segmentationMaximal utilityImage analysisElectronic medical record dataInter-rater variabilityCause of disabilityMedical record dataRelevant clinical featuresStroke detectionAdvanced neuroimaging techniquesDecision making