University of Rostock

Department of Anatomy

Neuroscience Group

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Rat connectome



Neocortex left


Abbreviation
NEOCX
Color       
Superior regionsCerebral cortex

SynonymsAbbr.Language
Homotypic cortical area Eng
Neocorticle mantle Eng
NeocortexNEOCX 
IsocortexISOEng
Homotopic cortex Eng

SubregionsSide
Association regionsleft
Auditory regionsleft
Dorsal transition zoneleft
Frontal polar cortexleft
Insular cortexleft
Lateral neocortexleft
Peduncular cortexleft
Prefrontal cortexleft
Visual regionsleft
Medial dysgranular cortexleft
Orbitofrontal cortexleft
Neocortex layersleft
Caudal neocortexleft
Precentral cortex 1left
Precentral cortex 2left
Dorsal portion of the neocortexleft
Ventral cortical arealeft
Parieto occipital arealeft

Output to

NameSideAbbr.WeightDetails
Subarachnoidal spaceipsisuba0
MesencephalonipsiMEC-0.5
Dorsal periaqueductal grayipsiDPAG-0.5
Lateral periaqueductal grayipsiLPAG-0.5
Periaqueductal gray medial partipsiPAGm-0.5
Periaqueductal gray rostrolateral partipsiPAGRL-0.5
Ventral periaqueductal grayipsiVPAG-0.5
Substantia nigra reticular partipsiSNR-0.5
Pontine grayipsiPG-0.5
Medial preoptic areaipsiMPA-0.5
Ventrolateral preoptic nucleusipsiVLPO-0.5
Ventromedial preoptic nucleusipsiVMPO-0.5
HypothalamusipsiHYPO-0.5
Dorsomedial hypothalamic nucleusipsiDMHy0
Mediodorsal thalamic nucleusipsiMD-0.5
Reuniens thalamic nucleusipsiRe-0.5
Ventral thalamusipsiVNT-0.5
Zona incertaipsiZI3
Zona incerta caudal partipsiZIC0.5
Zona incerta dorsal partipsiZID0.5
Lateral habenular nucleusipsiLHb4
Cerebral peduncle basal partipsicp-2
Corpus callosumipsicc-2
Dorsal globus pallidusipsiDGP-0.5
StriatumipsiSTR4
Caudate putamenipsiCPu3
Dorsal striatumipsiCPud-0.5
Medium spiny cells of the caudate putamenipsiCPums-0.5
Caudate putamen cholinergic cellsipsiCPuchoL-0.5
Subthalamic nucleusipsiSTh1
Cerebral cortexipsiCEC-0.5
Dorsal hippocampusipsiHIPPd-0.5
NeocortexipsiNEOCX4
Somatomotoric regionsipsiSMR3
Sensory regionsipsiSR-0.5
Precommissural nucleusipsiPrC-0.5
Spinal cordipsiMES-0.5
Subarachnoidal spacecontrasuba0
ThalamuscontraT-0.5
StriatumcontraSTR4
Cerebral cortexcontraCEC-0.5
NeocortexcontraNEOCX4
Parietal association cortexcontraPtA-0.5
Somatomotoric regionscontraSMR2
Lateral agranular prefrontal cortexcontraAGl-0.5
Sensory regionscontraSR-0.5

Input from

NameSideAbbr.WeightDetails
Periaqueductal grayipsiPAG3
Substantia nigra A9ipsiSN0
Substantia nigra compact partipsiSNC3
Substantia nigra reticular partipsiSNR3
Locus coeruleusipsiLC3
Intermediate part of the anterior pole of the locus coeruleusipsiLCimap1
Dorsal part of the anterior pole of the locus coeruleusipsiLCda1
Locus coeruleus dorsal partipsiLCD-0.5
Ventral part of the posterior pole of the locus coeruleusipsiLCvp0
Intermediate part of the posterior pole of the locus coeruleusipsiLCip1
Dorsal part of the posterior pole of the locus coeruleusipsiLCdp1
Facial nucleusipsi72
Dorsal raphe nucleusipsiDR1
Dorsal raphe nucleus medial partipsiDRNM2
Median raphe nucleusipsiMnR1
Superior central raphe nucleusipsiCS1
Basal forebrainipsiBAF-0.5
Nucleus of the horizontal limb of the diagonal bandipsiHDB-0.5
Septal-diagonal band of Broca complexipsiDBBs-0.5
Medial septal nucleusipsiMS-0.5
Basal nucleus MeynertipsiB3
Substantia innominataipsiSI-0.5
Magnocellular preoptic nucleusipsiMCPO-0.5
HypothalamusipsiHYPO3
Supraoptic nucleus [Supraoptic region]ipsiSO-0.5
ThalamusipsiT4
Anterior group of the dorsal thalamusipsiATN0
Centrolateral thalamic nucleusipsiCL2
Caudolateral part of the gelatinosus thalamic nucleusipsiGCL3
Mediodorsal thalamic nucleusipsiMD-0.5
Ventrobasal complexipsiVB2
Central ventromedial thalamic nucleusipsiCeVM3
Perireticular thalamic nucleusipsiPRTN2
Subparafascicular thalamic nucleusipsiSPF3
External capsuleipsiec-0.5
Internal capsuleipsiic0
Basal nucleus parvicellular partipsiBpc-0.5
Basomedial nucleus magnocellular division rostral partipsiABmcrp-0.5
Caudal portion of the magnocellular basal nucleusipsiBncC0.5
Lateral amygdaloid nucleusipsiLA-0.5
ClaustrumipsiCl-0.5
Globus pallidusipsiGP3
Medial globus pallidusipsiMGP0.5
Caudate putamenipsiCPu3
Ventral striatumipsiCPuv-0.5
HippocampusipsiHIPP4
Dentate gyrusipsiDG0
Cingulate cortexipsiCg2
NeocortexipsiNEOCX4
Frontal association cortexipsiFrA3
Interpeduncular nucleusipsiIP-0.5
Periaqueductal graycontraPAG3
Substantia nigra compact partcontraSNC2
Substantia nigra reticular partcontraSNR2
Median raphe nucleuscontraMnR1
HypothalamuscontraHYPO3
ThalamuscontraT4
ClaustrumcontraCl1
Globus palliduscontraGP3
HippocampuscontraHIPP2
Anterior cingulate cortexcontraACC3
Infralimbic cortexcontraIL3
NeocortexcontraNEOCX4
Frontal association cortexcontraFrA3
Subrhinal areacontraSuRCx3
Lateral agranular prefrontal cortexcontraAGl3
Medial agranular prefrontal cortexcontraAGm3
Interpeduncular nucleuscontraIP-0.5

Key for weights

ValueWeight
-3 unknown
-2 fibers of passage
-1 not clear
-0.5 exists
0 not present
0.5 very light
1 light / sparse
1.5 light / moderate
2 moderate / dense
2.5 moderate / strong
3 strong
4 very strong





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