2024
SymTC: A symbiotic Transformer-CNN net for instance segmentation of lumbar spine MRI
Chen J, Qian L, Ma L, Urakov T, Gu W, Liang L. SymTC: A symbiotic Transformer-CNN net for instance segmentation of lumbar spine MRI. Computers In Biology And Medicine 2024, 179: 108795. PMID: 38955128, DOI: 10.1016/j.compbiomed.2024.108795.Peer-Reviewed Original ResearchConvolutional neural networkDeep neural networksImage segmentation modelNeural networkSegmentation modelConvolutional neural network layersSelf-attention moduleEfficient image segmentationIn-house datasetModule of TransformerMR image datasetsHigher Dice scoresImage datasetsImage segmentationTransformation layerAccurate segmentationPersistent low back painDice scoreIndividual instancesAutomated wayLumbar spine MRILow back painDatasetHausdorff distanceLumbar MR imagesA sequential geometry-reconstruction-based deep learning approach to improve accuracy and consistence of lumbar spine MRI image segmentation
Qian L, Chen J, Ma L, Urakov T, Liang L. A sequential geometry-reconstruction-based deep learning approach to improve accuracy and consistence of lumbar spine MRI image segmentation. Progress In Biomedical Optics And Imaging 2024, 12926: 1292634-1292634-8. DOI: 10.1117/12.3007064.Peer-Reviewed Original ResearchDeep learning approachImage segmentationLearning approachMedical image segmentationSelf-attention mechanismAccurate semantic segmentationImage feature extractionMRI image segmentationPosition embeddingsSemantic segmentationSwin-UnetFeature extractionErroneous fragmentsSpine MRI imagesShape representationNeural networkSegmentation resultsTexture similaritySegmentation modelAttention UNetMRI imagesGeometry reconstructionInternal informationIrrelevant informationImage featuresPatient-specific analysis of bicuspid aortic valve hemodynamics using a fully coupled fluid-structure interaction model
Qin T, Mao W, Caballero A, Kamioka N, Lerakis S, Lain S, Elefteriades J, Liang L, Sun W. Patient-specific analysis of bicuspid aortic valve hemodynamics using a fully coupled fluid-structure interaction model. Computers In Biology And Medicine 2024, 172: 108191. PMID: 38457932, DOI: 10.1016/j.compbiomed.2024.108191.Peer-Reviewed Original ResearchFluid-structure interactionBicuspid aortic valveRecirculation vortexFluid-structure interaction modelAscending aortaFlow displacementBAV hemodynamicsBicuspid aortic valve patientsPeak systolicAbnormal blood flow patternsCongenital heart diseaseAscending aortic aneurysmJet angleHelical flow motionsFlow structureSystolic jetAortic wall abnormalitiesFlow motionAortic valve hemodynamicsFlow patternsValvular dysfunctionPeak velocityAortic aneurysmAortic rootAortic valveChapter 13 Analysis of aortic rupture: A computational biomechanics perspective
Liu M, Sun W, Elefteriades J, Liang L. Chapter 13 Analysis of aortic rupture: A computational biomechanics perspective. 2024, 265-288. DOI: 10.1016/b978-0-323-95484-6.00007-5.Peer-Reviewed Original Research
2022
Brainstem serotonin neurons selectively gate retinal information flow to thalamus
Reggiani J, Jiang Q, Barbini M, Lutas A, Liang L, Fernando J, Deng F, Wan J, Li Y, Chen C, Andermann M. Brainstem serotonin neurons selectively gate retinal information flow to thalamus. Neuron 2022, 111: 711-726.e11. PMID: 36584680, PMCID: PMC10131437, DOI: 10.1016/j.neuron.2022.12.006.Peer-Reviewed Original ResearchConceptsVisual information streamsRetinal ganglion cell typesBrainstem serotonin neuronsFiber photometry recordingsGanglion cell typesTwo-photon calcium imagingSerotonin neuronsVisual thalamusGlutamate releaseSerotonergic axonsRGC axonsSerotonin axonsThalamocortical neuronsAxon stimulationAwake micePresynaptic terminalsCalcium imagingOptogenetic stimulationCalcium activityLocal visual stimuliAxonsThalamusBoutonsVisual stimuliNeuronsA regularization method to improve adversarial robustness of neural networks for ECG signal classification
Ma L, Liang L. A regularization method to improve adversarial robustness of neural networks for ECG signal classification. Computers In Biology And Medicine 2022, 144: 105345. PMID: 35240379, DOI: 10.1016/j.compbiomed.2022.105345.Peer-Reviewed Original ResearchConceptsDeep neural networksECG signal classificationAdversarial noiseAdversarial attacksNeural networkAdversarial robustness of neural networksSignal classificationAccuracy of deep neural networksRobustness of neural networksField of computer visionImprove DNN robustnessSignal classification applicationsMIT-BIH datasetNovel regularization methodClass label predictionRegularization methodLife-critical applicationsInterpretation of electrocardiograms (ECGAdversarial perturbationsAdversarial robustnessComputer visionClassification applicationsReduction of accuracyPublic datasetsProjected GradientMating-driven variability in olfactory local interneuron wiring
Chou YH, Yang CJ, Huang HW, Liou NF, Panganiban MR, Luginbuhl D, Yin Y, Taisz I, Liang L, Jefferis GSXE, Luo L. Mating-driven variability in olfactory local interneuron wiring. Science Advances 2022, 8: eabm7723. PMID: 35179957, PMCID: PMC8856614, DOI: 10.1126/sciadv.abm7723.Peer-Reviewed Original Research
2021
Adversarial robustness study of convolutional neural network for lumbar disk shape reconstruction from MR images
Chen J, Qian L, Urakov T, Gu W, Liang L. Adversarial robustness study of convolutional neural network for lumbar disk shape reconstruction from MR images. Progress In Biomedical Optics And Imaging 2021, 11596: 1159615-1159615-13. DOI: 10.1117/12.2580852.Peer-Reviewed Original ResearchOut-of-distributionDeep neural networksConvolutional neural networkDeep neural network classifierAdversarial attacksIn-distributionNeural networkStudy of convolutional neural networksShape reconstructionRepresentative CNNsTraining setMedical image analysis systemsConvolutional neural network robustnessData augmentation methodMedical image analysisMachine learning technologyAdversarial samplesAdversarial trainingAmount of noiseInput imageClean imagesNoisy imagesAugmentation methodDataset sizeTraining dataset
2020
CQ-VAE: Coordinate Quantized VAE for Uncertainty Estimation with Application to Disk Shape Analysis from Lumbar Spine MRI Images
Qian L, Chen J, Urakov T, Gu W, Liang L. CQ-VAE: Coordinate Quantized VAE for Uncertainty Estimation with Application to Disk Shape Analysis from Lumbar Spine MRI Images. 2020, 00: 580-585. DOI: 10.1109/icmla51294.2020.00097.Peer-Reviewed Original ResearchContinuous latent spaceLatent spaceVariational autoencoderImage datasetsHuman expertsTraining samplesSpine MRI imagesProbabilistic outputsMatching algorithmMedical imagesProbability distributionRepresentation of ambiguityGenerative modelOutput distributionProbabilistic componentDiscrete probability distributionsDeterministic pathImage interpretationUncertainty estimationShape analysisMRI imagesMedical applicationsAutoencoderImagesBackpropagationEnhance CNN Robustness Against Noises for Classification of 12-Lead ECG with Variable Length
Ma L, Liang L. Enhance CNN Robustness Against Noises for Classification of 12-Lead ECG with Variable Length. 2020, 00: 839-846. DOI: 10.1109/icmla51294.2020.00137.Peer-Reviewed Original ResearchDeep neural networksAdversarial noiseDefense methodsClassification accuracyClassification accuracy of deep neural networksRobustness of deep neural networksAccuracy of deep neural networksImprove robustnessElectrocardiogram signal classificationInterpretation of ECG signalsClass label predictionLife-critical applicationsRobust against noiseClassification taskClassification challengeF1 scoreNeural networkCustom CNNSignal classificationAverage accuracyCNNClean dataECG signalsAutomatic interpretationEvaluation resultsOrganization, Function, and Development of the Mouse Retinogeniculate Synapse
Liang L, Chen C. Organization, Function, and Development of the Mouse Retinogeniculate Synapse. Annual Review Of Vision Science 2020, 6: 261-285. PMID: 32936733, DOI: 10.1146/annurev-vision-121219-081753.Peer-Reviewed Original ResearchConceptsRetinogeniculate synapseDistinct retinal ganglion cell typesRetinal ganglion cell typesGanglion cell typesImage-forming pathwayVisual thalamusThalamocortical neuronsVisual pathwayExperimental modelCircuit organizationThalamusSynapseMiceCell typesFunctional organizationRecent studiesPowerful experimental modelCurrent understandingVisual spaceVisual experiencePathwayNeuronsRGCsRetinal Inputs to the Thalamus Are Selectively Gated by Arousal
Liang L, Fratzl A, Reggiani JDS, El Mansour O, Chen C, Andermann ML. Retinal Inputs to the Thalamus Are Selectively Gated by Arousal. Current Biology 2020, 30: 3923-3934.e9. PMID: 32795442, PMCID: PMC7665906, DOI: 10.1016/j.cub.2020.07.065.Peer-Reviewed Original ResearchConceptsVisual thalamusVisual responsesMajority of boutonsTwo-photon calciumCentral visual processingArousal stateIntermediate spatial frequenciesEnhancement of responsesAxonal boutonsRetinal axonsRetinal inputDifferent pupil sizesVisual pathwayThalamusBoutonsMouse thalamusVisual processingMagnitude of responseVisual information channelsDistinct subsetsEarly stagesPupil sizeNeural activityDifferential modulationBehavioral states
2019
A Proof of Concept Study of Using Machine-Learning in Artificial Aortic Valve Design: From Leaflet Design to Stress Analysis
Liang L, Sun B. A Proof of Concept Study of Using Machine-Learning in Artificial Aortic Valve Design: From Leaflet Design to Stress Analysis. Bioengineering 2019, 6: 104. PMID: 31717333, PMCID: PMC6955850, DOI: 10.3390/bioengineering6040104.Peer-Reviewed Original ResearchDeep neural networksML modelsNeural networkMachine learningStress analysisFinite elementProcess of numerical modelingTranscatheter aortic valve designsTranscatheter aortic valveComputational stress analysisTranscatheter aortic valve leafletsAnimal implantation studiesArtificial heart valvesMonte Carlo cross-validationStress distributionDesign parametersMachine-learningML approachesValve designNumerical modelDeformed geometryHeart valvesBenchtop testingLife-saving medical devicesPhysical tests
2018
A Fine-Scale Functional Logic to Convergence from Retina to Thalamus
Liang L, Fratzl A, Goldey G, Ramesh RN, Sugden AU, Morgan JL, Chen C, Andermann ML. A Fine-Scale Functional Logic to Convergence from Retina to Thalamus. Cell 2018, 173: 1343-1355.e24. PMID: 29856953, PMCID: PMC6003778, DOI: 10.1016/j.cell.2018.04.041.Peer-Reviewed Original ResearchConceptsAxonal boutonsRetinal ganglion cellsTwo-photon calciumImage-forming visionClusters of boutonsVisual thalamusGanglion cellsRetinal axonsBouton clustersThalamusMouse thalamusIndividual axonsDifferent axonsFeature selectivityBoutonsFine-scale organizationAxonsDendritic domainsUltrastructural analysisRetina
2017
In Vivo Imaging of CNS Injury and Disease
Akassoglou K, Merlini M, Rafalski VA, Real R, Liang L, Jin Y, Dougherty SE, De Paola V, Linden DJ, Misgeld T, Zheng B. In Vivo Imaging of CNS Injury and Disease. Journal Of Neuroscience 2017, 37: 10808-10816. PMID: 29118209, PMCID: PMC5678013, DOI: 10.1523/jneurosci.1826-17.2017.Peer-Reviewed Original ResearchConceptsCNS injuryNeural transplantationGlial responseNeurovascular unitAxonal degenerationSpinal cordMammalian CNSRodent brainCellular responsesInjuryDiseaseVivo imagingImagingOptical imagingNeuroinflammationResponseMini-SymposiumTransplantationGlialCordTherapyCNSDegenerationImportant new insightsBrain
2013
High-speed laser microsurgery of alert fruit flies for fluorescence imaging of neural activity
Sinha S, Liang L, Ho ET, Urbanek KE, Luo L, Baer TM, Schnitzer MJ. High-speed laser microsurgery of alert fruit flies for fluorescence imaging of neural activity. Proceedings Of The National Academy Of Sciences Of The United States Of America 2013, 110: 18374-18379. PMID: 24167298, PMCID: PMC3832030, DOI: 10.1073/pnas.1216287110.Peer-Reviewed Original ResearchConceptsLive animalsCellular functionsFruit flySmall organismsMushroom bodiesKenyon cellsFliesAntennal lobeLive organismsOrganismsNeuronal plasticityHigh-throughput preparationMouse craniumExperimental throughputFluorescence imagingMicrosurgical openingLaser microsurgeryAntsVivo microscopy studiesNematodesAnimalsTwo-photon microscopySpeciesPhototaxisOptical experimentationGABAergic Projection Neurons Route Selective Olfactory Inputs to Specific Higher-Order Neurons
Liang L, Li Y, Potter CJ, Yizhar O, Deisseroth K, Tsien RW, Luo L. GABAergic Projection Neurons Route Selective Olfactory Inputs to Specific Higher-Order Neurons. Neuron 2013, 79: 917-931. PMID: 24012005, PMCID: PMC3838762, DOI: 10.1016/j.neuron.2013.06.014.Peer-Reviewed Original ResearchConceptsLateral horn neuronsInhibitory projection neuronsInnate olfactory behaviorsInhibitory tonePresynaptic inhibitionDrosophila olfactory systemHigher-order neuronsProjection neuronsAxon terminalsAntennal lobe glomeruliLateral hornConnection specificityDetectable suppressionOlfactory inputOdor responsesNeuronsOlfactory informationOlfactory systemHigher centersParallel inhibitionDifferential effectsDownstream circuitsInhibition motifCircuit motifsInhibitionLinking Cell Fate, Trajectory Choice, and Target Selection: Genetic Analysis of Sema-2b in Olfactory Axon Targeting
Joo WJ, Sweeney LB, Liang L, Luo L. Linking Cell Fate, Trajectory Choice, and Target Selection: Genetic Analysis of Sema-2b in Olfactory Axon Targeting. Neuron 2013, 78: 673-686. PMID: 23719164, PMCID: PMC3727417, DOI: 10.1016/j.neuron.2013.03.022.Peer-Reviewed Original ResearchConceptsNeural circuit assemblySema-2bCell fateSpecific cell fatesCircuit assemblyORN classesTemporal regulationTrajectory choiceSema-2aAxon bundle formationGenetic analysisAxon targetingAxon-axon interactionsNeuron developmentCellular mechanismsGuidance moleculesORN axonsSemaphorinsSynaptic targetsFateAssemblyTarget selectionPostsynaptic target neuronsAxonal trajectoriesRegulation
2010
The Q System: A Repressible Binary System for Transgene Expression, Lineage Tracing, and Mosaic Analysis
Potter CJ, Tasic B, Russler EV, Liang L, Luo L. The Q System: A Repressible Binary System for Transgene Expression, Lineage Tracing, and Mosaic Analysis. Cell 2010, 141: 536-548. PMID: 20434990, PMCID: PMC2883883, DOI: 10.1016/j.cell.2010.02.025.Peer-Reviewed Original ResearchConceptsMARCM analysisQa gene clusterCell division patternsBinary expression systemTransgene expression patternsTransgene expressionGAL4 systemGene functionMosaic analysisGene clusterRegulatory genesMammalian cellsCell divisionDivision patternsLow basal expressionLineage tracingExpression systemExpression patternsNeuronal lineageOlfactory attractionCell growthBasal expressionDrosophilaRepressionExpressionThe olfactory circuit of the fruit fly Drosophila melanogaster
Liang L, Luo L. The olfactory circuit of the fruit fly Drosophila melanogaster. Science China Life Sciences 2010, 53: 472-484. PMID: 20596914, DOI: 10.1007/s11427-010-0099-z.Peer-Reviewed Original Research