prediction of brain age using resting-state functional ... · 1 douglas mental health research...

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1 Douglas Mental Health Research Institute, McGill University, Montreal, QC, Canada; 2 Northwestern University, Chicago, US; 3 Knight Alzheimer's Disease Research Center, Washington University School of Medicine, St. Louis, US * These authors contributed equally to the work Prediction of brain age using resting-state functional connectivity reveals accelerated aging in the preclinical phase of autosomal dominant Alzheimer’s disease, irrespectively of amyloid pathology Using resting-state fMRI graph metrics, we developed a model that can predict brain age across the whole lifespan. Applying this model to predict brain aging in the context of preclinical AD revealed that the presymptomatic phase of ADAD is characterized by accelerated functional brain aging. This phenomenon is independent from, and might therefore precede, Aβ accumulation. In individuals at risk of sporadic AD, neither APOE4 genotype or Aβ burden was associated with accelerated brain aging. Further studies will be needed to better understand the factors modulating accelerated functional brain aging in the context of preclinical AD. Overlaps exist between the neural systems vulnerable to aging and Alzheimer's disease (AD). It is a matter of debate whether aging and AD progression are independent phenomena. We aimed at developing a model able to predict brain aging from resting- state functional connectivity (rsfMRI). We then used the difference between the predicted age and the chronological age to test whether presymptomatic autosomal dominant AD (ADAD) mutation carriers have premature aging (DIAN cohort). We also tested if the beta- amyloid (Aβ) status (positive or negative) contributes to the discrepancy between the age estimated from brain functional connectivity and the actual age. We repeated these analyses in asymptomatic individuals at risk of sporadic AD, assessing both the effect of APOE4 genotype and Aβ burden (PREVENT-AD cohort). Funding Julie Gonneaud, 1 * Etienne Vachon-Presseau, 1,2 * Alexis Baria, 1 Alexa Pichet Binette, 1 Tammie Benzinger, 3 John Morris, 3 Randall Bateman, 3 John Breitner, 1 Judes Poirier, 1 and Sylvia Villeneuve 1 for the Alzheimer’s Disease Neuroimaging Initiative, the Dominantly Inherited Alzheimer Network and the PREVENT-AD Research Group Neural Network development Model performance – Brain Age prediction against actual age across data sets Background and objectives Brain Aging in the preclinical phase of AD Summary and conclusions Brain Age Predictive Model Increase in the number of features and architecture complexity introduced overfitting (i.e. lowest root mean square error in the training set but highest error in the validation set). The model using 10 features and 2 layers of 5 and 2 nodes was the one showing the better generalizability (i.e. providing the lowest error in the validation set) and was selected for the final model. Regression tree ensembles 1.00 .80 .60 .40 .20 .00 Support vector machine 1.00 .80 .60 .40 .20 .00 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 Root mean square error in the different sets as function of the number of features and network architecture Features (i.e. graph metrics) ranked by importance Cohorts Training set Validation set Testing set DIAN mut. noncarriers 105 [19-69 yo] - 30 [18-61 yo] DIAN mutation carriers - - 128 [20-58 yo] PREVENT-AD 36 [55-78 yo] - 257 [55-84 yo] CamCAN 602 [18-87 yo] - 100 [18-88 yo] ADNI 30 [65-90 yo] - 15 [66-94 yo] ICBM - 47 [19-79 yo] - Total sample 773 [18-90 yo] 47 [19-79 yo] 530 [18-94 yo] Data sets. Sample size [age-range] Actual Age (years) 100 80 60 40 20 0 Predicted Age (years) 100 80 60 40 20 0 Actual Age (years) 100 80 60 40 20 0 Predicted Age (years) 100 80 60 40 20 0 Training set Validation set (ICBM) 1) Sub-graph centrality 2) Positive-weighted clustering coefficient 3) Binarized assortativity 4) Weighted modularity coefficient 5) Small worldness 6) Flow coefficient 7) Betweenness centrality 8) Negative-weighted participation coefficient 9) Positive-weighted diversity coefficient 10) Negative-weighted clustering coefficient 11) Eigen vector centrality 12) Binarized efficiency 13) Weighted assortativity 14) Negative-weighted gateway coefficient 15) Binarized clustering coefficient 16) Resilience 17) Binarized modularity coefficient 18) Participation coefficient 19) Negative-weighted diversity coefficient 20) Positive-weighted participation coefficient 21) Characteristic path diameter 22) Characteristic path eccentricity 23) Characteristic path radius 24) Positive-weighted gateway coefficient 25) Characteristic path lambda 26) Characteristic path efficiency DIAN mutation noncarriers DIAN mutation carriers Sample size 30 128 Actual Age 39.07 ± 11.39 34.27 ± 9.56* Predicted Age 36.92 ± 15.61 42.36 ± 14.43 t DIAN mutation noncarriers Aβ- DIAN mutation carriers Aβ- DIAN mutation carriers Aβ+ Sample size 28 77 40 Actual Age 38.86 ± 11.74 33.01 ± 8.96** 38.20 ± 9.39†† Predicted Age 37.89 –15.43 40.83 ± 12.89 45.68 ± 16.30*† PREVENT-AD Aβ- PREVENT-AD Aβ+ Sample size 51 11 Actual Age 62.82 ± 4.25 65.45 ± 6.22 Predicted Age 68.89 ± 6.07 70.09 ± 3.09 PREVENT-AD APOE4 noncarriers PREVENT-AD APOE4 carriers Sample size 148 108 Actual Age 63.93 ± 5.75 63.05 ± 4.78 Predicted Age 68.96 ± 5.14 68.46 ± 5.01 Authors have no disclosure. Acknowledgments: We would like to thank all the participants, the collaborators from the DIAN and PREVENT-AD studies and all members of the Villeneuve lab who contributed to this study. contact : [email protected] | poster downloadable @ villeneuvelab.com Model was built on the training set, optimized based on its generalizability in the validation set and, finally, the model’s predictions were analyzed in the testing set. Are genetic mutation and Aβ burden associated with accelerated brain aging in preclinical ADAD? Are genetic risk factor and Aβ burden associated with accelerated brain aging in individuals at risk of sporadic AD? R 2 = 0.53 rmse = 14.01 R 2 = 0.49 rmse = 13.84 R 2 = -.23 rmse = 16.88 Acutal Age (years) 100 80 60 40 20 0 Predicted Age (years) 100 80 60 40 20 0 R 2 = 0.36 rmse = 13.02 Predicted age was overestimated in DIAN mutation carriers while it was under-estimated in noncarriers. The overestimation in mutation carriers was not associated with Aβ status or load. Predicted age was overestimated in the PREVENT-AD with no difference between APOE4 carriers (the main genetic risk factor of sporadic AD) and noncarriers. Different from mutation noncarriers at t p<.10, *p<.05, **p<.01; Different from mutation carriers Aβ- at p<.05, †† p<.01, ns: not significant amyloid_positivity 1 0 30 20 10 0 -10 -20 -30 mutation/apoe 1 0 30 20 10 0 -10 -20 -30 Group_amyloid_mut MUT_pos MUT_neg 1_NC_neg 60 40 20 0 -20 -40 -60 Predicted age overestimation in the PREVENT-AD did not differ either between Aβ positive and negative individuals. Mutation arriers Aβ- group DIAN_mut 1_DIAN_n dif' 60 40 20 0 -20 -40 -60 PIB_fSUVR_TOT_CORTMEAN 2,2 2,0 1,8 1,6 1,4 1,2 1,0 dif' 60 40 20 0 -20 -40 -60 3,0 2,5 2,0 1,5 1,0 30 20 10 0 -10 -20 -30 F 2,142 = 8.44 p = .004 p = .06 p = .92 F 1,60 <1 P = 0.57 Aβ- Aβ+ APOE4 carriers Mutation noncarriers Aβ- Mutation carriers Aβ+ Mutation noncarriers Mutation carriers 60 40 20 0 -20 -40 -60 Predicted Age Difference p p = .03 r = -.12 p = 0.22 r = -.11 p = 0.45 F 1,254 <1 p = .97 APOE4 noncarriers Predicted Age Difference 30 20 10 0 -10 -20 -30 Predicted Age Difference 30 20 10 0 -10 -20 -30 30 20 10 0 -10 -20 -30 60 40 20 0 -20 -40 -60 Predicted Age Difference Predicted Age Difference 60 40 20 0 -20 -40 -60 Predicted Age Difference Mean neocortical Aβ [PIB-PET] Mean neocortical Aβ [NAV4964-PET] 1.0 1.2 1.4 1.6 1.8 2.0 2.2 1.0 1.5 2.0 2.5 3.0 DIAN mutation noncarriers DIAN mutation carriers PREVENT-AD CamCAN ADNI Test set Training set 5 10 15 20 25 5 5 2 10 10 2 10 5 15 15 2 15 5 Validation set 5 10 15 20 25 Number of features 5 5 2 10 10 2 10 5 15 15 2 15 5 Null set 5 10 15 20 25 5 5 2 10 10 2 10 5 15 15 2 15 5 10 11 12 13 14 15 16 17 18 Neural Network Architecture Root mean square error (rmse) Participants and Methods Resting-state functional magnetic resonance imaging (rsfMRI) scans were collected in 1,350 cognitively normal participants from 18 to 94 years old provided by the DIAN, PREVENT-AD, Cam-CAN, ADNI, and ICBM cohorts to train and test a “Brain Age” predictive model. Cohorts Dominantly Inherited Alzheimer Network is a multisite longitudinal study which enrolls individuals aged 18 and older who have a biological parent that carries a genetic mutation responsible for autosomal dominant AD (ADAD). Cognitively normal mutation carriers and noncarriers were included in the present study. Pre-symptomatic Evaluation of Experimental or Novel Treatments for Alzheimer’s Disease is a monocentric longitudinal cohort which includes cognitively normal older individuals aged 55 and older with a family history of sporadic AD. Cambridge Centre for Ageing and Neuroscience is a large-scale monocentric research project including cognitively normal individuals aged 18 to 88 years old. Alzheimer’s Disease Neuroimaging Initiative is a multisite longitudinal study which enrolls cognitively normal and impaired older individuals. Only cognitively normal older adults were included in the present study. International Consortium for Brain Mapping is a multisite study. Cognitively normal individuals aged 19 to 85 form the Montreal’s site archived in the 1000 Functional Connectomes Project’s repository were included in the present study. Resting-state functional MRI (rsfMRI) Resting-state scans were all preprocessed with NIAK (http://niak.simexp-lab.org/) Averaged BOLD signals were extracted using the Power and Peterson parcellation (Power et al., 2011). Some ROIs were removed due to low coverage resulting in a 238x238 Pearson correlation matrix. 26 graph metrics were then extracted using the Brain Connectivity Toolbox (Rubinov & Sporn, 2010; https:// sites.google.com/site/bctnet/) Amyloid (Aβ) Positron emission tomography (PET) Aβ scans were acquired using C 11 -PIB in DIAN (N=145) and F 18 - NAV4694 in PREVENT-AD (N=62). Standardized uptake value ratios (SUVR; reference region: cerebellum grey matter) were averaged across frontal, temporal, parietal and posterior cingulate cortices to obtain a global index of Aβ burden. Neural Network was trained to predict age Neural networks were constructed using Matlab (https://www.mathworks.com/products/deep-learning.html) PIB-PET NAV4964-PET Mean neocortical Aβ extraction

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Page 1: Prediction of brain age using resting-state functional ... · 1 Douglas Mental Health Research Institute, McGill University, Montreal, QC, Canada; 2 Northwestern University, Chicago,

1 Douglas Mental Health Research Institute, McGill University, Montreal, QC, Canada; 2 Northwestern University, Chicago, US; 3 Knight Alzheimer's Disease Research Center, Washington University School of Medicine, St. Louis, US * These authors contributed equally to the work

Prediction of brain age using resting-state functional connectivity reveals accelerated aging in the preclinical phase of autosomal dominant Alzheimer’s disease, irrespectively of amyloid pathology

Usingresting-statefMRIgraphmetrics,wedevelopedamodelthatcanpredictbrainageacrossthewholelifespan.ApplyingthismodeltopredictbrainaginginthecontextofpreclinicalADrevealedthatthepresymptomaticphaseofADADischaracterizedbyacceleratedfunctionalbrainaging.Thisphenomenonisindependentfrom,andmightthereforeprecede,Aβaccumulation.

InindividualsatriskofsporadicAD,neitherAPOE4genotypeorAβburdenwasassociatedwithacceleratedbrainaging.

FurtherstudieswillbeneededtobetterunderstandthefactorsmodulatingacceleratedfunctionalbrainaginginthecontextofpreclinicalAD.

Overlaps exist between the neural systems vulnerable to aging andAlzheimer's disease(AD). It is a matter of debate whether aging and AD progression are independentphenomena.We aimed at developing amodel able to predict brain aging from resting-statefunctionalconnectivity(rsfMRI).Wethenusedthedifferencebetweenthepredictedageand thechronologicalage to testwhetherpresymptomaticautosomaldominantAD(ADAD)mutationcarriershaveprematureaging(DIANcohort).Wealsotestedifthebeta-amyloid(Aβ)status(positiveornegative)contributestothediscrepancybetweentheageestimated from brain functional connectivity and the actual age. We repeated theseanalyses inasymptomatic individualsat riskof sporadicAD,assessingboth theeffectofAPOE4genotypeandAβburden(PREVENT-ADcohort).

Funding

Julie Gonneaud,1* Etienne Vachon-Presseau,1,2* Alexis Baria,1 Alexa Pichet Binette,1 Tammie Benzinger,3 John Morris,3 Randall Bateman,3 John Breitner,1 Judes Poirier,1 and Sylvia Villeneuve1 for the Alzheimer’s Disease Neuroimaging Initiative, the Dominantly Inherited Alzheimer Network and the PREVENT-AD Research Group

NeuralNetworkdevelopment

Modelperformance–BrainAgepredictionagainstactualageacrossdatasets

Background and objectives Brain Aging in the preclinical phase of AD

Summary and conclusions

Brain Age Predictive Model

Increase in the number of features andarchitecture complexity introducedoverfitting(i.e. lowestrootmeansquareerrorinthetrainingsetbuthighesterrorinthevalidationset).Themodelusing10featuresand2layersof 5 and 2 nodes was the one showingthebetter generalizability (i.e. providingthe lowest error in the validation set)andwasselectedforthefinalmodel.

Regression tree ensembles1.00.80.60.40.20.00

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Rootmeansquareerrorinthedifferentsetsasfunctionofthenumberoffeaturesandnetworkarchitecture

Features(i.e.graphmetrics)rankedbyimportance

Cohorts Trainingset

Validationset

Testingset

DIANmut.noncarriers 105[19-69yo] - 30

[18-61yo]

DIANmutationcarriers - - 128[20-58yo]

PREVENT-AD 36[55-78yo] - 257

[55-84yo]

CamCAN 602[18-87yo] - 100

[18-88yo]

ADNI 30[65-90yo] - 15

[66-94yo]

ICBM - 47[19-79yo] -

Totalsample 773[18-90yo]

47[19-79yo]

530[18-94yo]

Datasets.Samplesize[age-range]

Actual Age (years)100806040200

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Trainingset Validationset(ICBM)

1)Sub-graphcentrality2)Positive-weightedclusteringcoefficient3)Binarizedassortativity4)Weightedmodularitycoefficient5)Smallworldness6)Flowcoefficient7)Betweennesscentrality8)Negative-weightedparticipationcoefficient9)Positive-weighteddiversitycoefficient10)Negative-weightedclusteringcoefficient11)Eigenvectorcentrality12)Binarizedefficiency13)Weightedassortativity14)Negative-weightedgatewaycoefficient15)Binarizedclusteringcoefficient16)Resilience17)Binarizedmodularitycoefficient18)Participationcoefficient19)Negative-weighteddiversitycoefficient20)Positive-weightedparticipationcoefficient21)Characteristicpathdiameter22)Characteristicpatheccentricity23)Characteristicpathradius24)Positive-weightedgatewaycoefficient25)Characteristicpathlambda26)Characteristicpathefficiency

DIANmutationnoncarriers

DIANmutationcarriers

Samplesize 30 128

ActualAge 39.07±11.39 34.27±9.56*

PredictedAge 36.92±15.61 42.36±14.43t

DIANmutationnoncarriersAβ-

DIANmutationcarriersAβ-

DIANmutationcarriersAβ+

Samplesize 28 77 40

ActualAge 38.86±11.74 33.01±8.96** 38.20±9.39††

PredictedAge 37.89–15.43 40.83±12.89 45.68±16.30*†

PREVENT-ADAβ-

PREVENT-ADAβ+

Samplesize 51 11

ActualAge 62.82±4.25 65.45±6.22

PredictedAge 68.89±6.07 70.09±3.09

PREVENT-ADAPOE4noncarriers

PREVENT-ADAPOE4carriers

Samplesize 148 108

ActualAge 63.93±5.75 63.05±4.78

PredictedAge 68.96±5.14 68.46±5.01

Authors have no disclosure. Acknowledgments: We would like to thank all the participants, the collaborators from the DIAN and PREVENT-AD studies and all members of the Villeneuve lab who contributed to this study.

contact : [email protected] | poster downloadable @ villeneuvelab.com

Model was built on the training set, optimized based on itsgeneralizability in the validation set and, finally, the model’spredictionswereanalyzedinthetestingset.

AregeneticmutationandAβburdenassociatedwithacceleratedbrainaginginpreclinicalADAD?

AregeneticriskfactorandAβburdenassociatedwithacceleratedbrainaginginindividualsatriskofsporadicAD?

R2=0.53rmse=14.01

R2=0.49rmse=13.84

R2=-.23rmse=16.88

Acutal Age (years)100806040200

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R2=0.36rmse=13.02

Predicted age was overestimated inDIAN mutation carriers while it wasunder-estimatedinnoncarriers.

The overestimation inmutation carrierswas not associatedwithAβstatusorload.

Predicted age was overestimated in thePREVENT-ADwithnodifferencebetweenAPOE4 carriers (the main genetic riskfactorofsporadicAD)andnoncarriers.

Differentfrommutationnoncarriersattp<.10,*p<.05,**p<.01;DifferentfrommutationcarriersAβ-at†p<.05,††p<.01,ns:notsignificant

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Predicted age overestimation in the PREVENT-AD did notdiffereitherbetweenAβpositiveandnegativeindividuals.

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F2,142=8.44p=.004

p=.06

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F1,60<1P=0.57

Aβ- Aβ+ APOE4carriers

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MeanneocorticalAβ[PIB-PET]

MeanneocorticalAβ[NAV4964-PET]

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DIANmutationnoncarriersDIANmutationcarriersPREVENT-ADCamCANADNI

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Participants and Methods Resting-state functional magnetic resonance imaging (rsfMRI) scans were collected in 1,350cognitivelynormalparticipantsfrom18to94yearsoldprovidedbytheDIAN,PREVENT-AD,Cam-CAN,ADNI,andICBMcohortstotrainandtesta“BrainAge”predictivemodel.

CohortsDominantlyInheritedAlzheimerNetwork isamultisite longitudinalstudywhichenrolls individualsaged18andolderwhohaveabiologicalparentthatcarriesageneticmutationresponsibleforautosomaldominantAD(ADAD).Cognitivelynormalmutationcarriersandnoncarrierswereincludedinthepresentstudy.Pre-symptomaticEvaluationofExperimentalorNovelTreatmentsforAlzheimer’sDiseaseisamonocentriclongitudinalcohortwhichincludescognitivelynormalolderindividualsaged55andolderwithafamilyhistoryofsporadicAD.Cambridge Centre for Ageing and Neuroscience is a large-scale monocentric research project includingcognitivelynormalindividualsaged18to88yearsold.Alzheimer’sDiseaseNeuroimagingInitiativeisamultisitelongitudinalstudywhichenrollscognitivelynormalandimpairedolderindividuals.Onlycognitivelynormalolderadultswereincludedinthepresentstudy.InternationalConsortiumforBrainMappingisamultisitestudy.Cognitivelynormalindividualsaged19to85formtheMontreal’ssitearchivedinthe1000FunctionalConnectomesProject’srepositorywereincludedinthepresentstudy.

Resting-statefunctionalMRI(rsfMRI)

Resting-statescanswereallpreprocessedwithNIAK(http://niak.simexp-lab.org/)

Averaged BOLD signals were extracted using thePowerandPetersonparcellation(Poweretal.,2011).Some ROIs were removed due to low coverageresultingina238x238Pearsoncorrelationmatrix.

26graphmetricswerethenextractedusingtheBrainConnectivityToolbox(Rubinov&Sporn,2010;https://sites.google.com/site/bctnet/)

Amyloid(Aβ)Positronemissiontomography(PET)

AβscanswereacquiredusingC11-PIBinDIAN(N=145)andF18-NAV4694inPREVENT-AD(N=62).Standardized uptake value ratios (SUVR; reference region:cerebellum grey matter) were averaged across frontal,temporal,parietalandposteriorcingulatecorticestoobtainaglobalindexofAβburden.

NeuralNetworkwastrainedtopredictage

NeuralnetworkswereconstructedusingMatlab(https://www.mathworks.com/products/deep-learning.html)

PIB-PETNAV4964-PET

MeanneocorticalAβextraction