2025
Age-invariant genes: multi-tissue identification and characterization of murine reference genes
González J, Thrush-Evensen K, Meer M, Levine M, Higgins-Chen A. Age-invariant genes: multi-tissue identification and characterization of murine reference genes. Aging 2025, 17: 170-202. PMID: 39873648, PMCID: PMC11810070, DOI: 10.18632/aging.206192.Peer-Reviewed Original ResearchMeSH KeywordsAgingAnimalsGene Expression ProfilingMaleMiceMice, Inbred C57BLOrgan SpecificityReference StandardsTranscriptomeConceptsRNA-seq datasetsReference genesRNA-seqHallmarks of agingPathway enrichment analysisGenes-thoseCpG islandsShorter transcriptRT-qPCRMolecular functionsExpression studiesGene normalizationTissue-specificEnrichment analysisMouse tissuesGenesMurine tissuesAged tissuesHallmarksYoung organismsLifespanTranscriptionCpGTissuePathway
2024
The Science Behind the Standardization of Chest Protectors: Is Marketing Alone Enough to Sell Chest Protectors?... Not Anymore!
Trejo-Paredes C, Lampert R. The Science Behind the Standardization of Chest Protectors: Is Marketing Alone Enough to Sell Chest Protectors?... Not Anymore! Circulation Arrhythmia And Electrophysiology 2024, 17: e012844. PMID: 38497218, DOI: 10.1161/circep.124.012844.Peer-Reviewed Original Research
2023
Definitions, acceptability, limitations, and guidance in the use and reporting of surrogate end points in trials: a scoping review
Manyara A, Davies P, Stewart D, Weir C, Young A, Wells V, Blazeby J, Butcher N, Bujkiewicz S, Chan A, Collins G, Dawoud D, Offringa M, Ouwens M, Ross J, Taylor R, Ciani O. Definitions, acceptability, limitations, and guidance in the use and reporting of surrogate end points in trials: a scoping review. Journal Of Clinical Epidemiology 2023, 160: 83-99. PMID: 37380118, DOI: 10.1016/j.jclinepi.2023.06.013.Peer-Reviewed Original ResearchA draft human pangenome reference
Liao W, Asri M, Ebler J, Doerr D, Haukness M, Hickey G, Lu S, Lucas J, Monlong J, Abel H, Buonaiuto S, Chang X, Cheng H, Chu J, Colonna V, Eizenga J, Feng X, Fischer C, Fulton R, Garg S, Groza C, Guarracino A, Harvey W, Heumos S, Howe K, Jain M, Lu T, Markello C, Martin F, Mitchell M, Munson K, Mwaniki M, Novak A, Olsen H, Pesout T, Porubsky D, Prins P, Sibbesen J, Sirén J, Tomlinson C, Villani F, Vollger M, Antonacci-Fulton L, Baid G, Baker C, Belyaeva A, Billis K, Carroll A, Chang P, Cody S, Cook D, Cook-Deegan R, Cornejo O, Diekhans M, Ebert P, Fairley S, Fedrigo O, Felsenfeld A, Formenti G, Frankish A, Gao Y, Garrison N, Giron C, Green R, Haggerty L, Hoekzema K, Hourlier T, Ji H, Kenny E, Koenig B, Kolesnikov A, Korbel J, Kordosky J, Koren S, Lee H, Lewis A, Magalhães H, Marco-Sola S, Marijon P, McCartney A, McDaniel J, Mountcastle J, Nattestad M, Nurk S, Olson N, Popejoy A, Puiu D, Rautiainen M, Regier A, Rhie A, Sacco S, Sanders A, Schneider V, Schultz B, Shafin K, Smith M, Sofia H, Abou Tayoun A, Thibaud-Nissen F, Tricomi F, Wagner J, Walenz B, Wood J, Zimin A, Bourque G, Chaisson M, Flicek P, Phillippy A, Zook J, Eichler E, Haussler D, Wang T, Jarvis E, Miga K, Garrison E, Marschall T, Hall I, Li H, Paten B. A draft human pangenome reference. Nature 2023, 617: 312-324. PMID: 37165242, PMCID: PMC10172123, DOI: 10.1038/s41586-023-05896-x.Peer-Reviewed Original ResearchNeeds and Considerations for Standardization of Kidney Disease Education in Patients with Advanced CKD
Shukla A, Cavanaugh K, Jia H, Hale-Gallardo J, Wadhwa A, Fischer M, Reule S, Palevsky P, Fried L, Crowley S. Needs and Considerations for Standardization of Kidney Disease Education in Patients with Advanced CKD. Clinical Journal Of The American Society Of Nephrology 2023, 18: 1234-1243. PMID: 37150877, PMCID: PMC10564354, DOI: 10.2215/cjn.0000000000000170.Peer-Reviewed Original ResearchMeSH KeywordsHemodialysis, HomeHumansReference StandardsRenal InsufficiencyRenal Insufficiency, ChronicUnited StatesConceptsAdvanced CKDHome dialysis useKidney failureDialysis useHome dialysisComprehensive patient educationKidney disease educationHome dialysis utilizationKidney diseasePatient awarenessDialysis utilizationPatient educationDisease educationHealth advocacy organizationsNephrology communityPatientsCKDEducation protocolRoutine implementationDialysisLimited awarenessSignificant barriersFailurePragmatic guidanceInformed utilizationMoving toward standardization: physician reporting of sleep studies.
Lastra A, Ingram D, Park J, James E, Matthews C, Canapari C, Mansukhani M, Stahl S. Moving toward standardization: physician reporting of sleep studies. Journal Of Clinical Sleep Medicine 2023, 19: 595-603. PMID: 36546360, PMCID: PMC9978423, DOI: 10.5664/jcsm.10442.Peer-Reviewed Original ResearchConceptsSleep studiesPhysician reportingDurable medical equipment companiesEvidence-based clinical recommendationsSleep medicine specialistsSleep centerClinical recommendationsMedicine specialistsPatient careMedical equipment companiesPatientsCareCaregiversStructured reportingWindow of opportunityReportReportingWide variationClear reportStudyCliniciansSleepPhysiciansRecipients
2022
Semi-automated assembly of high-quality diploid human reference genomes
Jarvis E, Formenti G, Rhie A, Guarracino A, Yang C, Wood J, Tracey A, Thibaud-Nissen F, Vollger M, Porubsky D, Cheng H, Asri M, Logsdon G, Carnevali P, Chaisson M, Chin C, Cody S, Collins J, Ebert P, Escalona M, Fedrigo O, Fulton R, Fulton L, Garg S, Gerton J, Ghurye J, Granat A, Green R, Harvey W, Hasenfeld P, Hastie A, Haukness M, Jaeger E, Jain M, Kirsche M, Kolmogorov M, Korbel J, Koren S, Korlach J, Lee J, Li D, Lindsay T, Lucas J, Luo F, Marschall T, Mitchell M, McDaniel J, Nie F, Olsen H, Olson N, Pesout T, Potapova T, Puiu D, Regier A, Ruan J, Salzberg S, Sanders A, Schatz M, Schmitt A, Schneider V, Selvaraj S, Shafin K, Shumate A, Stitziel N, Stober C, Torrance J, Wagner J, Wang J, Wenger A, Xiao C, Zimin A, Zhang G, Wang T, Li H, Garrison E, Haussler D, Hall I, Zook J, Eichler E, Phillippy A, Paten B, Howe K, Miga K. Semi-automated assembly of high-quality diploid human reference genomes. Nature 2022, 611: 519-531. PMID: 36261518, PMCID: PMC9668749, DOI: 10.1038/s41586-022-05325-5.Peer-Reviewed Original ResearchConceptsDiploid genome assemblyGenome assemblyProtein-coding genesGlobal genetic variationCurrent human reference genomeDiploid human genomeHigh-quality assemblyAccurate long readsNon-synonymous amino acid changesHuman reference genomeAmino acid changesMost chromosomesReference assemblyReference genomeHuman genomeCentromeric regionsGenetic variationHigh diversityGenome sequencingLong readsSingle nucleotideGenomeAcid changesManual curationBiological genomesStandardization of presurgical language fMRI in Greek population: Mapping of six critical regions
Gkiatis K, Garganis K, Benjamin CF, Karanasiou I, Kondylidis N, Harushukuri J, Matsopoulos GK. Standardization of presurgical language fMRI in Greek population: Mapping of six critical regions. Brain And Behavior 2022, 12: e2609. PMID: 35587046, PMCID: PMC9226851, DOI: 10.1002/brb3.2609.Peer-Reviewed Original ResearchMeSH KeywordsBrain MappingFunctional LateralityGreeceHumansLanguageMagnetic Resonance ImagingReference StandardsConceptsLanguage mappingFunctional magnetic resonance imagingPresurgical language mappingMother tongueLanguage systemWernicke-LichtheimLanguage regionsLanguage functional magnetic resonance imagingGreekLanguage lateralizationHealthy right-handed volunteersGreek populationRight-handed volunteersMagnetic resonance imagingClinical setupEloquent cortexFMRI acquisitionContralateral cerebellumPresurgical evaluationAppropriate tasksGreek patientsWada testResonance imagingNoninvasive alternativeFMRI protocol
2021
Increased Detection of Mycobacterium tuberculosis Disease Using a Tissue-Based Laboratory-Developed Polymerase Chain Reaction Assay Compared to Standard Diagnostics.
Mackow NA, Abi-Raad R, Kerantzas CA, Hui P, Malinis M, Azar MM. Increased Detection of Mycobacterium tuberculosis Disease Using a Tissue-Based Laboratory-Developed Polymerase Chain Reaction Assay Compared to Standard Diagnostics. American Journal Of Tropical Medicine And Hygiene 2021, 105: 1657-1661. PMID: 34544041, PMCID: PMC8641361, DOI: 10.4269/ajtmh.21-0104.Peer-Reviewed Original ResearchMeSH KeywordsAdultAgedCulture TechniquesFemaleHumansLungLymph NodesMaleMiddle AgedMycobacterium tuberculosisPleuraReal-Time Polymerase Chain ReactionReference StandardsRetrospective StudiesSensitivity and SpecificitySputumTuberculosisTuberculosis, Lymph NodeTuberculosis, Multidrug-ResistantTuberculosis, PleuralTuberculosis, PulmonaryConceptsComposite reference standardMTB PCRAFB cultureMycobacterium tuberculosisPolymerase chain reactionAcid-fast bacilli smearMycobacterium tuberculosis diseasePositive AFB cultureChain reactionReal-time polymerase chain reactionStandard diagnosticsBacilli smearMTB casesTuberculosis diseaseClinical sensitivityLong turnaround timeXpertClinical performanceReference standardPCRVariable sensitivityTurnaround timeLymphPatientsTuberculosisStandardization of PD-L1 immunohistochemistry
Martinez-Morilla S, Moutafi M, Rimm DL. Standardization of PD-L1 immunohistochemistry. Modern Pathology 2021, 35: 294-295. PMID: 34508229, PMCID: PMC8860739, DOI: 10.1038/s41379-021-00917-4.Peer-Reviewed Original ResearchDefinition of a critical bleed in patients with immune thrombocytopenia: Communication from the ISTH SSC Subcommittee on Platelet Immunology
Sirotich E, Guyatt G, Gabe C, Ye Z, Beck C, Breakey V, Cooper N, Cuker A, Charness J, de Wit K, DiRaimo J, Fein S, Grace R, Hassan Z, Jamula E, Kang M, Manski C, O'Connor C, Pai M, Paynter D, Porter S, Pruitt B, Strachan G, Webert K, Yan J, Kelton J, Bakchoul T, Arnold D. Definition of a critical bleed in patients with immune thrombocytopenia: Communication from the ISTH SSC Subcommittee on Platelet Immunology. Journal Of Thrombosis And Haemostasis 2021, 19: 2082-2088. PMID: 34327824, DOI: 10.1111/jth.15368.Peer-Reviewed Original ResearchMeSH KeywordsCommunicationHemorrhageHumansPurpura, Thrombocytopenic, IdiopathicReference StandardsThrombocytopeniaConceptsImmune thrombocytopeniaSevere thrombocytopeniaGuideline panelCritical anatomical sitesLow platelet countISTH SSC SubcommitteeBleeding eventsMajor bleedsOngoing bleedPlatelet immunologyCompartment syndromeHemodynamic instabilityRespiratory compromisePhysiologic riskPlatelet countAutoimmune diseasesUrgent treatmentPatient representativesAnatomical sitesThrombocytopeniaUpcoming guidelinesPatientsBleedStandardized definitionsClinical expertsNormal 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 sizeReliability of histopathologic diagnosis of fibrotic interstitial lung disease: an international collaborative standardization project
Camp R, Smith ML, Larsen BT, Roden AC, Farver C, Moreira AL, Attanoos R, Pillappa R, Sansano I, Fabro AT, Homer RJ. Reliability of histopathologic diagnosis of fibrotic interstitial lung disease: an international collaborative standardization project. BMC Pulmonary Medicine 2021, 21: 184. PMID: 34074264, PMCID: PMC8170950, DOI: 10.1186/s12890-021-01522-6.Peer-Reviewed Original ResearchMeSH KeywordsHumansIdiopathic Pulmonary FibrosisInternationalityLung Diseases, InterstitialObserver VariationReference StandardsReproducibility of ResultsConceptsFibrotic ILDInterobserver variationHistopathologic diagnosisUsual interstitial pneumonia/idiopathic pulmonary fibrosisFibrotic interstitial lung diseaseCurrent histopathologic criteriaUIP/IPFIdiopathic pulmonary fibrosisInterstitial lung diseaseDiagnosis of ILDExtent of inflammationPattern of fibrosisSignificant interobserver variationSpecific diagnostic featuresILD evaluationPulmonary fibrosisLung diseaseHistopathologic evaluationHistopathologic criteriaDiagnostic guidelinesTissue-based diagnosticsDiagnosisILDFibrosisInternet-based approachesSensitive and Feasible Specimen Collection and Testing Strategies for Diagnosing Tuberculosis in Young Children
Song R, Click ES, McCarthy KD, Heilig CM, Mchembere W, Smith JP, Fajans M, Musau SK, Okeyo E, Okumu A, Orwa J, Gethi D, Odeny L, Lee SH, Perez-Velez CM, Wright CA, Cain KP. Sensitive and Feasible Specimen Collection and Testing Strategies for Diagnosing Tuberculosis in Young Children. JAMA Pediatrics 2021, 175: e206069. PMID: 33616611, PMCID: PMC7900937, DOI: 10.1001/jamapediatrics.2020.6069.Peer-Reviewed Original ResearchConceptsGastric aspiratesNPA samplesResource-limited settingsCurrent reference standardDiagnostic yieldTuberculosis diagnosisXpert MTB/RIFCross-sectional diagnostic studyReference standardNasopharyngeal aspirate samplesSymptoms of tuberculosisMycobacteria growth indicator tube (MGIT) cultureMTB/RIFIncremental diagnostic yieldPositive test resultsYoung childrenSpecimen typesInvasive specimenCervical lymphadenopathyMedian ageMycobacterium tuberculosis complexParenchymal abnormalitiesConsecutive seriesOutpatient settingAspirate samplesIdentifying Medicare beneficiaries with dementia
Moura LMVR, Festa N, Price M, Volya M, Benson NM, Zafar S, Weiss M, Blacker D, Normand S, Newhouse JP, Hsu J. Identifying Medicare beneficiaries with dementia. Journal Of The American Geriatrics Society 2021, 69: 2240-2251. PMID: 33901296, PMCID: PMC8373730, DOI: 10.1111/jgs.17183.Peer-Reviewed Original ResearchConceptsClaims-based definitionEligible populationElectronic health recordsAccountable care organizationsMedical recordsDiagnostic codesMedicare beneficiariesReference standardICD-10 diagnostic codesICD-9 definitionRetrospective observational studyIndividual-level linkageService Medicare beneficiariesPatients' medical recordsClaims-based diagnosesClinical reference standardNon-Hispanic whitesPretest likelihoodDementia statusObservational studyInternational ClassificationAverage ageDementia diagnosisStandardized reviewDementiaSaliva as a gold-standard sample for SARS-CoV-2 detection
Tan SH, Allicock O, Armstrong-Hough M, Wyllie AL. Saliva as a gold-standard sample for SARS-CoV-2 detection. The Lancet Respiratory Medicine 2021, 9: 562-564. PMID: 33887248, PMCID: PMC8055204, DOI: 10.1016/s2213-2600(21)00178-8.Peer-Reviewed Original Research
2020
SNMMI Procedure Standard/EANM Practice Guideline on Pediatric 18F-FDG PET/CT for Oncology 1.0
Vali R, Alessio A, Balza R, Borgwardt L, Bar-Sever Z, Czachowski M, Jehanno N, Kurch L, Pandit-Taskar N, Parisi M, Piccardo A, Seghers V, Shulkin B, Zucchetta P, Lim R. SNMMI Procedure Standard/EANM Practice Guideline on Pediatric 18F-FDG PET/CT for Oncology 1.0. Journal Of Nuclear Medicine 2020, 62: 99-110. PMID: 33334912, PMCID: PMC8679588, DOI: 10.2967/jnumed.120.254110.Peer-Reviewed Original ResearchConceptsEuropean Association of Nuclear MedicineF-FDG PET/CTF-FDGComputerized tomographyTechnology subsequent to publicationEvidence-based recommendationsLevel of trainingNuclear medicineLevel of evidenceDiagnostic nuclear medicine imagingPractice of medicineComplexity of human conditionsMedicine careStandard of careScience of nuclear medicineLegal standard of careCourse of actionMedicine practiceConsensus processPractice guidelinesSociety of Nuclear MedicinePediatric oncologyMedical professionalsClinician guidelinesApplications of nuclear medicineLocal conformal autoencoder for standardized data coordinates
Peterfreund E, Lindenbaum O, Dietrich F, Bertalan T, Gavish M, Kevrekidis IG, Coifman RR. Local conformal autoencoder for standardized data coordinates. Proceedings Of The National Academy Of Sciences Of The United States Of America 2020, 117: 30918-30927. PMID: 33229581, PMCID: PMC7733838, DOI: 10.1073/pnas.2014627117.Peer-Reviewed Original ResearchInformation Loss in Harmonizing Granular Race and Ethnicity Data: Descriptive Study of Standards
Wang K, Nardini H, Post L, Edwards T, Nunez-Smith M, Brandt C. Information Loss in Harmonizing Granular Race and Ethnicity Data: Descriptive Study of Standards. Journal Of Medical Internet Research 2020, 22: e14591. PMID: 32706693, PMCID: PMC7399950, DOI: 10.2196/14591.Peer-Reviewed Original ResearchHER2 Testing in Endometrial Serous Carcinoma: Time for Standardized Pathology Practice to Meet the Clinical Demand
Buza N. HER2 Testing in Endometrial Serous Carcinoma: Time for Standardized Pathology Practice to Meet the Clinical Demand. Archives Of Pathology & Laboratory Medicine 2020, 145: 687-691. PMID: 32649220, DOI: 10.5858/arpa.2020-0207-ra.Peer-Reviewed Original ResearchConceptsEndometrial serous carcinomaSerous carcinomaHER2 protein expressionHER2 testingNational Comprehensive Cancer Network clinical guidelinesProlonged progression-free survivalHuman epidermal growth factor receptor 2Epidermal growth factor receptor 2Gene amplificationStandard chemotherapy regimenProgression-free survivalProtein expressionAppropriate patient selectionGrowth factor receptor 2Recent clinical trialsSuccessful clinical outcomeHER2 protein overexpressionFactor receptor 2HER2 scoring criteriaHER2 therapyChemotherapy regimenEndometrial cancerClinical outcomesPatient selectionAggressive subtype
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