2024
Paediatric 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 packageAbundancePaenibacillus 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 indexFuture 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 Research
2022
Deep 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 makingmirTarRnaSeq: An R/Bioconductor Statistical Package for miRNA-mRNA Target Identification and Interaction Analysis
Movassagh M, Morton S, Hehnly C, Smith J, Doan T, Irizarry R, Broach J, Schiff S, Bailey J, Paulson J. mirTarRnaSeq: An R/Bioconductor Statistical Package for miRNA-mRNA Target Identification and Interaction Analysis. BMC Genomics 2022, 23: 439. PMID: 35698050, PMCID: PMC9191533, DOI: 10.1186/s12864-022-08558-w.Peer-Reviewed Original ResearchConceptsSARS-CoV-2 infectionLung epithelial cellsEpithelial cellsHuman lung epithelial cellsSARS-CoV-2NK cellsStatistical PackageEBV miRNAsT cellsImmune pathwaysB cellsClinical relevanceSample cohortCD34 cellsStomach adenocarcinomaEndothelial cellsTime pointsInfectionCOVID-19CellsCD4AdenocarcinomaPatientsCD19CytokinesCytomegalovirus infections in infants in Uganda: Newborn-mother pairs, neonates with sepsis, and infants with hydrocephalus
Hehnly C, Ssentongo P, Bebell L, Burgoine K, Bazira J, Fronterre C, Kumbakumba E, Mulondo R, Mbabazi-Kabachelor E, Morton S, Ngonzi J, Ochora M, Olupot-Olupot P, Mugamba J, Onen J, Roberts D, Sheldon K, Sinnar S, Smith J, Ssenyonga P, Kiwanuka J, Paulson J, Meier F, Ericson J, Broach J, Schiff S. Cytomegalovirus infections in infants in Uganda: Newborn-mother pairs, neonates with sepsis, and infants with hydrocephalus. International Journal Of Infectious Diseases 2022, 118: 24-33. PMID: 35150915, PMCID: PMC9058984, DOI: 10.1016/j.ijid.2022.02.005.Peer-Reviewed Original ResearchConceptsNewborn-mother pairsCMV prevalenceClinical sepsisCytomegalovirus infectionCerebrospinal fluidPrevalence of CMVQuantitative PCRCMV positivityPostinfectious hydrocephalusVaginal sheddingCMV infectionHIV seropositivityNeonatal ageMaternal ageMaternal vaginalRisk factorsMedical CenterLong-term consequencesMother pairsSepsisNeonatesInfantsPrevalenceHydrocephalusCMV
2021
Assessing the utility of low resolution brain imaging: treatment of infant hydrocephalus
Harper JR, Cherukuri V, O’Reilly T, Yu M, Mbabazi-Kabachelor E, Mulando R, Sheth KN, Webb AG, Warf BC, Kulkarni AV, Monga V, Schiff SJ. Assessing the utility of low resolution brain imaging: treatment of infant hydrocephalus. NeuroImage Clinical 2021, 32: 102896. PMID: 34911199, PMCID: PMC8646178, DOI: 10.1016/j.nicl.2021.102896.Peer-Reviewed Original ResearchConceptsDeep learning enhancementLow-quality imagesDeep learningQuality imagesDeep learning algorithmsEnhanced imageRole of machineLearning enhancementImage qualityLearning algorithmAcceptable image qualityReconstruction errorImage resolutionImagesAlgorithmCT imagesLearningCT counterpartsNoise ratioTreatment planningPlanningNew standardStructural errorsExperienced pediatric neurosurgeonsMachinePreoperative risk and postoperative outcome from subdural fluid collections in African infants with postinfectious hydrocephalus.
Lane J, Ssentongo P, Peterson M, Harper J, Mbabazi-Kabachelor E, Mugamba J, Ssenyonga P, Onen J, Donnelly R, Levenbach J, Cherukuri V, Monga V, Kulkarni A, Warf B, Schiff S. Preoperative risk and postoperative outcome from subdural fluid collections in African infants with postinfectious hydrocephalus. Journal Of Neurosurgery Pediatrics 2021, 29: 31-39. PMID: 34598146, PMCID: PMC9078082, DOI: 10.3171/2021.7.peds21209.Peer-Reviewed Original ResearchVaginal microbiome topic modeling of laboring Ugandan women with and without fever
Movassagh M, Bebell L, Burgoine K, Hehnly C, Zhang L, Moran K, Sheldon K, Sinnar S, Mbabazi-Kabachelor E, Kumbakumba E, Bazira J, Ochora M, Mulondo R, Nsubuga B, Weeks A, Gladstone M, Olupot-Olupot P, Ngonzi J, Roberts D, Meier F, Irizarry R, Broach J, Schiff S, Paulson J. Vaginal microbiome topic modeling of laboring Ugandan women with and without fever. Npj Biofilms And Microbiomes 2021, 7: 75. PMID: 34508087, PMCID: PMC8433417, DOI: 10.1038/s41522-021-00244-1.Peer-Reviewed Original ResearchConceptsIntrapartum feverClinical variablesHigh prevalenceVaginal microbiomeUgandan womenLonger labour durationMaternal clinical featuresYoung maternal ageDuration of pregnancyOnset of laborMicrobial communitiesVaginal microbial communitiesAfebrile mothersFebrile mothersPeripartum courseMaternal feverNeonatal outcomesLabor durationClinical featuresMaternal ageVaginal microbesFeverOutcome riskVeillonella genusMicrobiome influencesCongenital Cytomegalovirus Infection Burden and Epidemiologic Risk Factors in Countries With Universal Screening
Ssentongo P, Hehnly C, Birungi P, Roach M, Spady J, Fronterre C, Wang M, Murray-Kolb L, Al-Shaar L, Chinchilli V, Broach J, Ericson J, Schiff S. Congenital Cytomegalovirus Infection Burden and Epidemiologic Risk Factors in Countries With Universal Screening. JAMA Network Open 2021, 4: e2120736. PMID: 34424308, PMCID: PMC8383138, DOI: 10.1001/jamanetworkopen.2021.20736.Peer-Reviewed Original ResearchConceptsPrevalence of cCMVHigh-income countriesBirth prevalenceUniversal screeningInfection burdenHIV prevalenceRisk factorsBlood samplesCommon congenital infectionMaternal CMV seroprevalenceCongenital cytomegalovirus infectionEpidemiologic risk factorsPooled overall prevalenceNewcastle-Ottawa ScaleSystematic Reviews databasesMeta-Analyses (PRISMA) guidelinesPooled birth prevalenceMEDLINE/PubMedPreferred Reporting ItemsLow socioeconomic statusWorld Bank income levelsLower ratesCMV seroprevalenceCongenital infectionCohort studyNormal childhood brain growth and a universal sex and anthropomorphic relationship to cerebrospinal fluid
Peterson M, Cherukuri V, Paulson J, Ssentongo P, Kulkarni A, Warf B, Monga V, Schiff S. Normal childhood brain growth and a universal sex and anthropomorphic relationship to cerebrospinal fluid. Journal Of Neurosurgery Pediatrics 2021, 28: 458-468. PMID: 34243147, PMCID: PMC8594737, DOI: 10.3171/2021.2.peds201006.Peer-Reviewed Original ResearchMeSH KeywordsAdolescentAlgorithmsAnalysis of VarianceAnthropometryBody WeightBrainCerebrospinal FluidChildChild DevelopmentChild, PreschoolCohort StudiesFemaleFunctional LateralityHumansHydrocephalusInfantInfant, NewbornMagnetic Resonance ImagingMaleOrgan SizePopulationReference StandardsSex CharacteristicsConceptsBrain growthBrain volumeFluid accumulationRatio of brainHealthy pediatric subjectsTotal brain volumeAge 18 yearsYears of ageRegional brain volumesNormal brain growthAge-dependent relationshipCSF accumulationPediatric subjectsChildhood diseasesCerebrospinal fluidCSF volumeCongenital disorderVolume trajectoriesEarly childhoodNormative growth curvesNumerous conditionsSexMagnetic resonanceBrain sizePan-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 ResearchGlobal, regional and national epidemiology and prevalence of child stunting, wasting and underweight in low- and middle-income countries, 2006–2018
Ssentongo P, Ssentongo A, Ba D, Ericson J, Na M, Gao X, Fronterre C, Chinchilli V, Schiff S. Global, regional and national epidemiology and prevalence of child stunting, wasting and underweight in low- and middle-income countries, 2006–2018. Scientific Reports 2021, 11: 5204. PMID: 33664313, PMCID: PMC7933191, DOI: 10.1038/s41598-021-84302-w.Peer-Reviewed Original Research