Ascoli,G.A.(2006).Mobilizingthe
base ofneurosciencedata:thecase
of neuronalmorphologies. Nat.Rev.
Neurosci. 7, 318–324.
Ascoli,G.A.,Donohue,D.,and
Halavi,M.(2007).NeuroMor-
pho.Org–Acentralresourcefor
neuronalmorphologies. J. Neurosci.
27, 9247–9251.
Ascoli,G.A.,Krichmar,J.,Scorcioni,
R., Nasuto,S.J.,andSenft,S.
(2001). Computergenerationand
quantitativemorphometricanalysis
of virtualneurons. Anat.Embryol.
204, 283–301.
Barrett,W.A.,andMortensen,E.N.
(1997). Interactivelive-wirebound-
aryextraction. Med.ImageAnal. 1,
331–341.
Bas, E.,andErdogmus,D.(2011).
Principalcurvesasskeletons
of tubularobjects:locally
characterizingthestructures
of axons. Neuroinformatics 9,
181–191.
Brown,K.M.,Barrionuevo,G.,Canty,
A. J.,DePaola,V.,Hirsch,J.A.,Jef-
feris,G.S.,Lu,J.,Snippe,M.,Sugi-
hara,I.,andAscoli,G.A.(2011).The
DIADEM datasets:representative
lightmicroscopyimagesofneuronal
morphologytoadvanceautomation
of digitalreconstructions. Neuroin-
formatics 9, 143–157.
Brown,K.M.,Donohue,D.E.,
D’Alessandro,G.,andAscoli,G.A.
(2005). Across-platformfreeware
toolfordigitalreconstruction
of neuronalarborizationsfrom
image stacks. Neuroinformatics 3,
343–359.
Cannon, R.C.,Turner,D.A.,Pyapali,
G. K.,andWheal,H.V.(1998).
Anon-linearchiveofreconstructed
hippocampal neurons. J. Neurosci.
Methods 84, 49–54.
Chothani, P.,Mehta,V.,andStepa-
nyants,A.(2011).Automated
tracingofneuritesfromlight
microscopystacksofimages.
Neuroinformatics 9, 263–278.
Denk,W.,Strickler,J.H.,andWebb,W.
W.(1990).Two-photonlaserscan-
ning fluorescencemicroscopy. Sci-
ence 248, 73–76.
Desmond, N.L.,Heydenreich,M.S.,
and Levy,W.B.(1990).Quantitative
characterizationofthehippocampal
CA1 pyramidalcelldendriticfieldin
stratummoleculare. Anat.Rec. 226,
26A.
Desmond, N.L.,andLevy,W.B.(1982).
A quantitativeanatomicalstudyof
the granulecelldendriticfieldsofthe
ratdentategyrususinganovelprob-
abilistic method. J. Comp.Neurol.
212, 131–145.
Dijkstra,E.(1959).Anoteontwo
problemsinconnexionwithgraphs.
Numer.Math. 1, 269–270.
Donohue,D.,andAscoli,G.A.(2011).
Automatedreconstructionofneu-
ronalmorphology:anoverview.
BrainRes.Rev. 67, 94–102.
Falcao,A.X.,Udupa,J.K.,Samarasek-
era,S.,andSharma,S.(1998).User-
steeredimagesegmentationpara-
digms:livewireandlivelane. Graph.
Models 60, 233–260.
Freeman,W.T.,andAdelson,E.H.
(1991). Thedesignanduseofsteer-
able filters. IEEE Trans.PatternAnal.
Mach.Intell. 13, 891–906.
Gillette,T.A.,Brown,K.M.,andAscoli,
G. A.(2011a).TheDIADEMmetric:
comparingmultiplereconstructions
of thesameneuron. Neuroinformat-
ics 9, 233–245.
Gillette,T.A.,Brown,K.M.,Svo-
boda, K.,Liu,Y.,andAscoli,G.
A. (2011b).DIADEMchallenge.Org:
a compendiumofresourcesfoster-
ing thecontinuousdevelopmentof
automatedneuronalreconstruction.
Neuroinformatics 9, 303–304.
Jaeger,D.(2000).“Accuratereconstruc-
tion ofneuronalmorphology,”in
ComputationalNeuroscience:Realis-
ticModelingforExperimentalists, ed.
E. DeSchutter(BocaRaton:Lewis
Publishers,Inc.),159–178.
Kaspirzhny,A.V.,Gogan,P.,Horcholle-
Bossavit,G.,andTyc-Dumont,S.
(2002). Neuronalmorphologydata
bases: morphologicalnoiseand
assessment ofdataquality. Network
13, 357–380.
Kaufmann,E.W.,andMoser,W.H.
(2000). Dendriticanomaliesindis-
ordersassociatedwithmentalretar-
dation. Cereb.Cortex 10, 981–991.
Libri,V.,Constanti,A.,Calaminici,M.,
and Nistic,G.(1994).Acompari-
son ofthemuscarinicresponseand
morphologicalpropertiesofiden-
tified cellsintheguinea-pigolfac-
torycortexinvitro. Neuroscience 59,
331–347.
Liu, Y.(2011).TheDIADEMand
beyond.Neuroinformatics 9, 99–102.
Lu,J.(2011).Neuronaltracingforcon-
nectomicstudies. Neuroinformatics
9, 159–166.
Meijering,E.(2010).Neurontracingin
perspective,cytometrypartA.77A,
693–704.
Meijering,E.,Jacob,M.,Sarria,J.C.F.,
Steiner,P.,Hirling,H.,andUnser,M.
(2004). Designandvalidationofa
toolforneuritetracingandanalysis
in fluorescencemicroscopyimages.
Cytometry 58A, 167–176.
Miller,R.G.Jr.(1991). Simultaneous
StatisticalInference. NewYork:
Springer-Verlag.
Myatt,D.R.,Nasuto,S.J.,andMay-
bank, S.J.(2006).“Towardstheauto-
matic reconstructionofdendritic
treesusingparticlefilters,”in Pro-
ceedingsofNonlinearStatisticalSig-
nal ProcessingWorkshop2006(on
CD-ROM), Cambridge.
Narayanaswamy,A.,Wang,Y.,and
Roysam,B.(2011).3-Dimagepre-
processingalgorithmsforimproved
automatedtracingofneuronal
arbors.Neuroinformatics 9,219–231.
Nasuto,S.J.,Knape,R.,Krichmar,J.
L., andAscoli,G.A.(2001).Rela-
tion betweenneuronalmorphol-
ogyandelectrophysiologyinthe
KainatelesionmodelofAlzheimer’s
Disease. Neurocomputing 38–40,
1477–1487.
Peng,H.,Long,F.,Zhao,T.,andMyers,
E. (2011).Proof-editingisthebottle-
neck of3Dneuronreconstruction:
the problemandsolutions. Neuroin-
formatics 9, 103–105.
Rodriguez,A.,Ehlenberger,D.,Kelli-
her,K.,Einstein,M.,Henderson,S.
C., Morrison,J.H.,Hof,P.R.,and
Wearne,S.L.(2003).Automated
reconstructionofthree-dimensional
neuronalmorphologyfromlaser
scanning microscopyimages. Meth-
ods 30, 94–105.
Ropireddy,D.,Scorcioni,R.,Lasher,
B.,Buzsáki,G.,andAscoli,G.
(2011). Axonalmorphometryof
hippocampal pyramidalneurons
semi-automaticallyreconstructed
afterin-vivolabelingindifferent
CA3 locations. BrainStruct.Funct.
216, 1–15.
Scorcioni,R.,Lazarewicz,M.T.,and
Ascoli,G.A.(2004).Quantita-
tivemorphometryofhippocampal
pyramidalcells:differencesbetween
anatomicalclassesandreconstruct-
ing laboratories. J. Comp.Neurol.
473, 177–193.
Scorcioni,R.,Polavaram,S.,and
Ascoli,G.A.(2008).L-Measure:a
web-accessibletoolfortheanaly-
sis, comparisonandsearchof
digitalreconstructionsofneu-
ronalmorphologies. Nat.Protoc. 3,
866–876.
Senft, S.L.(2011).Abriefhistoryof
neuronalreconstruction. Neuroin-
formatics 9, 119–128.
Svoboda,K.(2011).Thepast,present
and futureofsingleneuronrecon-
struction. Neuroinformatics 9,
97–98.
Türetken,E.,González,G.,Blum,C.,
and Fua,P.(2011).Automated
reconstructionofdendriticand
axonaltreesbyglobaloptimization
withgeometricpriors. Neuroinfor-
matics 9, 279–302.
van Elburg,R.A.J.,andvanOoyen,
A. (2010).Impactofdendriticsize
and dendritictopologyonburstfir-
ing inpyramidalcells. PLoSComput.
Biol. 6, e1000781.doi:10.1371/jour-
nal.pcbi.1000781
Wang,Y.,Narayanaswamy,A.,Tsai,
C. L.,andRoysam,B.(2011).A
broadlyapplicable3-Dneurontrac-
ing methodbasedonopen-curve
snake. Neuroinformatics 9, 193–217.
Whalley,B.J.,Postlethwaite,M.,and
Constanti,A.(2005).Furtherchar-
acterizationofmuscarinicagonist-
inducedepileptiformburstingactiv-
ityinimmatureratpiriformcor-
tex,invitro. Neuroscience 134,
549–566.
Wilcoxon,F.(1945).Individualcompar-
isons byrankingmethods. Biomet-
rics 1, 80–83.
Zhang,Y.,Zhou,X.,Degterev,A.,Lip-
inski, M.,Adjeroh,D.,Yuan,J.,and
Wong,S.T.C.(2007).Automated
neuriteextractionusingdynamic
programmingforhigh-throughput
screeningofneuron-basedassays.
Neuroimage 35, 1502–1515.
Zhao,T.,Xie,J.,Amat,F.,Clack,N.,
Ahammad, P.,Peng,H.,Long,F.,
and Myers,E.(2011).Automated
reconstructionofneuronalmor-
phologybasedonlocalgeometri-
cal andglobalstructuralmodels.
Neuroinformatics 9, 247–261