University of Rostock

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Rat connectome



Spinal cord left


Abbreviation
MES
Color       
Superior regionsPars spinalis

SynonymsAbbr.Language
Medulla spinalisMESLat
Spinal cord  

SubregionsSide
Autonomic cell columnleft
Cauda equinaleft
Central cervical nucleusleft
Cervical motor nucleusleft
Dorsal horn of spinal cordleft
Dorsal root ganglialeft
Gracilis commissural projection neuronleft
Gray matter of spinal cordleft
Intercalated nucleus of the spinal cordleft
Intercalated spinal nucleusleft
Intermediate zone of spinal cordleft
Intermediate zone of the cervical spinal cordleft
Intermediolateral cell columnleft
Intermediomedial cell columnleft
Lateral cervical nucleusleft
Lateral spinal nucleusleft
Main spinal bundleleft
Pyramidal fissureleft
Spinal cord interneuronsleft
Spinal cord layersleft
Spinal segmentsleft
Spinoparabrachial projection neurons of the dorsal hornleft
Spinothalamic tract projection neuronsleft
Ventral horn of spinal cordleft
Ventral rootleft
Ventral spinal cordleft
Ventral to the intermediate spinal gray matterleft
Ventrolateral quadrant of the spinal cordleft
Intermediate gray regionleft
Dorsal gray commissure of the spinal cordleft
White matter of the spinal cordleft
Spinal cord medial columnleft
Spinal cord lateral columnleft
Spinal nociceptice neuronleft
Deep dorsal column of the spinal cordleft
White matter adjacent to neck of dorsal horn from upper thoracic to sacral spinal levelsleft
Dorsal lateral nucleus of the spinal cordleft
Retrodorsolateral nucleus of the spinal cordleft
Dorsal surface of the spinal cordleft
Tracheal parasympathetic preganglionic neuronsleft

Output to

NameSideAbbr.WeightDetails
Central grayipsiCG-0.5
Nucleus of DarkschewitschipsiDk0
Oculomotor nucleusipsi30
Red nucleusipsiR-0.5
Inferior colliculusipsiICOL1
Superior colliculusipsiSC-0.5
Superior colliculus intermediate and deep layersipsiSCidLa-0.5
Ventral midbrain tegmentumipsiVeMT-0.5
Edinger Westphal nucleusipsiEW-0.5
Interstitial nucleus of CajalipsiInC-0.5
Cerebellar cortexipsiCERC-0.5
PonsipsiP-0.5
A5 noradrenaline cellsipsiA5-10
Barringtons nucleusipsiBar-10
Locus coeruleusipsiLC-0.5
Pontine nucleiipsiPn-0.5
Mesopontine reticular formationipsiMPRF-0.5
Medial pontomedullary reticular formationipsiMPomRF-0.5
Mesencephalic reticular formationipsiMRF-0.5
Pontine reticular nucleus oral partipsiPnO1
Pontine reticular nucleus caudal partipsiPNC2
Parabrachial nucleusipsiPB-0.5
Koelliker Fuse nucleusipsiKF-0.5
Lateral parabrachial nucleusipsiLPB-0.5
Lateral parabrachial nucleus dorsal partipsiLPBD-0.5
Parabrachial nucleus external divison lateral partipsiPBeDL-0.5
Gigantocellular reticular nucleusipsiGi-0.5
Lateral reticular nucleusipsiLRt-0.5
Medullary reticular nucleusipsiMdD1
Medullary reticular nucleus dorsal partipsiMdDd-0.5
Trigeminal sensory nuclear complexipsiTSNC-0.5
Principal sensory trigeminal nucleus dorsolateral partipsiPr5DL-0.5
Vestibular nucleiipsiVnc-0.5
Superior vestibular nucleusipsiSuVe-0.5
Nucleus of the solitary tractipsiSol-0.5
Nucleus of the solitary tract caudal partipsiSolca-0.5
Raphe nucleiipsiRAN-0.5
Dorsal column nucleiipsiDCN3
Nucleus XipsiX-0.5
Nucleus ZipsiZ-0.5
Inferior oliveipsiIO-1
Paragigantocellular reticular nucleusipsiPGi-0.5
HypothalamusipsiHYPO-0.5
Lateral hypothalamic areaipsiLH2
Medial division of the hypothalamusipsiMdH2
Paraventricular hypothalamic nucleus lateral magnocellular part [Periventricular zone anterior region]ipsiPaLM0
Paraventricular hypothalamic nucleus dorsal partipsiPaD-0.5
Paraventricular hypothalamic nucleusipsiPa-10
Paraventricular hypothalamic nucleus magnocellular division between PaLM and PaAMmipsiPaMagb0
Paraventricular nucleus lateral parvocellular partipsiPaLp-0.5
Ventral medial paraventricular nucleusipsiVPame-0.5
Centrolateral thalamic nucleusipsiCL2
Paracentral thalamic nucleusipsiPC1
Parafascicular thalamic nucleusipsiPF1
Parafascicular thalamic nucleus medial partipsiPFM2
Rhomboid thalamic nucleusipsiRh2
Posterior thalamic nuclear groupipsiPo1
Submedius thalamic nucleusipsiSub2
Paraventricular thalamic nucleusipsiPV2
Reuniens thalamic nucleusipsiRe2
Ventro anterior thalamic nucleusipsiVA1
Ventral posterolateral thalamic nucleus rostral partipsiVPLro1
Medial part of ventral posteromedial thalamic nucleusipsiVPMm1
Ventrobasal complex lateral partipsiVBL2
Laterodorsal thalamic nucleusipsiLD1
Reticular thalamic nucleusipsiRt1
Zona incerta dorsal partipsiZID1
EpithalamusipsiEPIT-0.5
Anterior pretectal nucleusipsiAPT1
Posterior pretectal nucleusipsiPPT-0.5
Dorsal funiculusipsidfu-2
Spinothalamic tractipsistt-2
Amygdaloid complexipsiAC-0.5
Central amygdaloid nucleusipsiCe2
Globus pallidusipsiGP-0.5
Ventral pallidumipsiVP-0.5
Accumbens nucleusipsiAc-0.5
Subthalamic nucleusipsiSTh-0.5
Infralimbic cortexipsiIL-0.5
Forelimb motor cortexipsiFMCx1
Caudal forelimb motor areaipsiCFMA1
Lateral part of the granular cortex of forelimb motor regionsipsiLFMCx1
Medial geniculate nucleus rostral partipsiMGR1
Ventrolateral funiculusipsivLF-2
Cervical segmentsipsiCSeg3
Spinal cord layers C5ipsiSCLC5-0.5
Spinal cord layers C6ipsiSCLC6-0.5
Spinal cord layers C7ipsiSCLC7-0.5
Spinal cord layers C8ipsiSCLC8-0.5
Superior colliculuscontraSC0
Cerebellar cortexcontraCERC-0.5
Precuneiform areacontraPCnFa-1
Pontine reticular nucleus oral partcontraPnO1
Pontine reticular nucleus caudal partcontraPNC3
Principal sensory trigeminal nucleus dorsolateral partcontraPr5DL-0.5
Nucleus of the solitary tractcontraSol-0.5
Lateral hypothalamic areacontraLH3
Medial division of the hypothalamuscontraMdH3
Centrolateral thalamic nucleuscontraCL2
Paracentral thalamic nucleuscontraPC2
Parafascicular thalamic nucleuscontraPF2
Posterior thalamic nuclear groupcontraPo2
Ventro anterior thalamic nucleuscontraVA2
Ventral posterolateral thalamic nucleus rostral partcontraVPLro2
Medial part of ventral posteromedial thalamic nucleuscontraVPMm2
Laterodorsal thalamic nucleuscontraLD2
Reticular thalamic nucleuscontraRt2
Zona incerta dorsal partcontraZID2
Anterior pretectal nucleuscontraAPT2
Primary somatosensory cortexcontraS1-0.5
Medial geniculate nucleus rostral partcontraMGR2
Lumbar colonic nervesipsiAutoNLCN0
Cervical oesophagusipsiOrgsOesC1
RectumipsiOrgRec-10
Adrenal medullaipsiOrgsAM-0.5
Anterior neck musclesipsiMuscLAN-0.5
Pectoral muscleipsiMuscLPec-0.5
ProstateipsiOrgProst-1

Input from

NameSideAbbr.WeightDetails
Central grayipsiCG-0.5
Nucleus of DarkschewitschipsiDk-0.5
Periaqueductal grayipsiPAG-0.5
Ventral periaqueductal grayipsiVPAG1
Ventrolateral periaqueductal grayipsiVLPAG-2
Red nucleusipsiR3
Red nucleus magnocellular partipsiRMC-0.5
Red nucleus parvicellular partipsiROC-0.5
Superior colliculusipsiSC-0.5
Tegmental areaipsiTGA-0.5
Peduncularpontine nucleusipsiPPN3
Peduncularpontine nucleus caudal levelsipsiPPNCa-0.5
Substantia nigra A9ipsiSN0
Substantia nigra lateral partipsiSNL0
Substantia nigra reticular partipsiSNR0
Pedunculopontine tegmental nucleusipsiPPTg-0.5
Edinger Westphal nucleusipsiEW-0.5
Edinger Westphal nucleus caudal partipsiEWc-0.5
Interstitial nucleus of CajalipsiInC-0.5
PonsipsiP-0.5
A4 noradrenaline cellsipsiA40.5
A5 noradrenaline cellsipsiA5-0.5
A7 noradrenaline cellsipsiA7-0.5
Barringtons nucleusipsiBar-0.5
Locus coeruleusipsiLC-0.5
Intermediate part of the anterior pole of the locus coeruleusipsiLCimap0
Dorsal part of the anterior pole of the locus coeruleusipsiLCda0
Ventral part of the posterior pole of the locus coeruleusipsiLCvp3
Intermediate part of the posterior pole of the locus coeruleusipsiLCip0
Dorsal part of the posterior pole of the locus coeruleusipsiLCdp0
Locus coeruleus ventral partipsiLCv3
Reticular systemipsiRF-0.5
Dorsal reticular formationipsiDRF-0.5
Mesencephalic reticular formationipsiMRF-0.5
Deep mesencephalic nucleusipsiDpMe-0.5
Pontine reticular nucleusipsiPRN-0.5
Subcoerulear areaipsiSCoe-0.5
Pontine reticular nucleus caudal partipsiPNC-0.5
Cuneiforme nucleusipsiCnF-0.5
Parabrachial nucleusipsiPB-0.5
Koelliker Fuse nucleusipsiKF1
Lateral parabrachial nucleusipsiLPB-0.5
Most rostral cells of the caudal external lateral parabrachial areaipsiPBceLmR1
Parabrachial nucleus medialipsiPBnMe-0.5
Caudal third of the parabrachial nucleusipsiPBct-0.5
Gigantocellular reticular nucleusipsiGi3
Gigantocellular reticular nucleus alpha partipsiGiA3
Gigantocellular reticular nucleus rostral partipsiGiRo-0.5
Gigantocellular reticular nucleus ventral partipsiGiV3
Subnucleus reticularis dorsalisipsiSRD-0.5
Medullary reticular nucleus ventral partipsiMdV-0.5
Parvicellular reticular nucleusipsiPCRt-2
Subcoeruleus nucleusipsiSubC1
Ambiguus nucleusipsiAmb-0.5
Trigeminal nucleusipsi5-0.5
Spinal trigeminal nucleus caudal partipsiSp5C-0.5
Deep magnocellular layer of the medullary dorsal hornipsiDmMDH-0.5
Spinal trigeminal nucleus interpolar partipsiSp5I-0.5
Trigeminal ganglionipsi5Gn3
Mandibular region of the trigeminal ganglion at the level of the entry of the mandibular nerveipsi5GnMaEm3
Caudal area of the ophthalmomaxillary region of the trigeminal ganglionipsi5GnCOM3
Rostral area of the ophthalmomaxillary region of the trigeminal ganglionipsi5GnROM3
Superficial part of the trigeminal ganglionipsi5GnS3
Spinal vestibular nucleusipsiSpVe3
Vestibular nucleiipsiVnc-0.5
Lateral vestibular nucleusipsiLVe-0.5
Nucleus of the solitary tract medial partipsiSolM-2
Nucleus of the solitary tract posterior partipsiSolP-0.5
Nucleus of the solitary tract rostral partipsiSolro-2
Ventral part of the rostral nucleus of the solitary tractipsiSolroV-2
Nucleus of the solitary tract rostrocentralipsiSolroc-2
Dorsal motor nucleus of vagusipsi10-0.5
Raphe nucleiipsiRAN-0.5
Dorsal raphe nucleusipsiDR-0.5
Raphe magnus nucleusipsiRMg3
Raphe magnus nucleus caudal partipsiRMgc-0.5
Raphe magnus nucleus rostral partipsiRMgR-2
Raphe obscurus nucleusipsiROb3
Raphe pallidus nucleusipsiRPa3
Rostral ventrolateral medullaipsiRVLM-0.5
A1 noradrenergic cellsipsiA1-0.5
A2 noradrenergic cellsipsiA2-0.5
Dorsal column nucleiipsiDCN-0.5
Nucleus interfascicularis hypoglossiipsiNIFH-0.5
Nucleus of RolleripsiRo-0.5
Olivary pretectal nucleusipsiOPT0
Lateral paragigantocellular nucleusipsiLPGi3
Retroambiguus nucleusipsiRAmb-0.5
Ventral medulla oblongataipsiVMeO-0.5
Rostral part of the ventromedial medulla oblongataipsiRMeObvm-0.5
Diagonal band of BrocaipsiDBB0
Medial septal nucleusipsiMS0
Medial preoptic areaipsiMPA0
Lateral preoptic nucleusipsiLPN0
Ventrolateral preoptic nucleusipsiVLPO0
Dorsolateral preoptic regionipsiPREOdL0
Tuberomammillary nucleusipsiTuM-0.5
HypothalamusipsiHYPO-0.5
Lateral hypothalamic areaipsiLH-0.5
Lateral hypothalamic area caudal partipsiLHc1
Lateral hypothalamic area [Lateral zone mammillary level]ipsiLHLZM3
Anterior hypothalamic areaipsiAHA0
Dorsal hypothalamic nucleusipsiDo0
Preoptic region medial zoneipsiPREOmz0
Ventromedial hypothalamic nucleusipsiVMH0
Paraventricular hypothalamic nucleusipsiPa3
Paraventricular hypothalamic nucleus magnocellular divisionipsiPaMag0.5
Paraventricular hypothalamic nucleus parvocellular divisionipsiPavPo3
Paraventricular hypothalamic nucleus dorsal parvocellular divisionipsiPavPoD-0.5
Paraventricular nucleus lateral parvocellular partipsiPaLp-0.5
Anterior hypothalamic area [Regio rostralis]ipsiAHARR0
Supraoptic nucleus [Supraoptic region]ipsiSO0
A11 dopamine cellsipsiA113
A13 dopamine cellsipsiA131
A8 dopamine cells retrorubral groupipsiRRF0
Parafascicular thalamic nucleus ventral partipsiPFV0
Reuniens thalamic nucleusipsiRe0
Ventromedial thalamic nucleus caudal two thirdsipsiVMctt-0.5
Zona incertaipsiZI0
Xiphoid thalamic nucleusipsiXi0
Dorsal funiculusipsidfu3
Amygdaloid complexipsiAC0
Ventral pallidumipsiVP0
Cerebral cortexipsiCEC3
Cerebral cortex layer 5bipsiCCL5b-0.5
Anterior cingulate cortexipsiACC-0.5
Infralimbic cortexipsiIL-0.5
NeocortexipsiNEOCX-0.5
Frontal association cortex layer 5ipsiFrALL5-0.5
Frontal association cortex posterior part layer 5bipsiFrApL5b-0.5
Frontal cortex area 2ipsiFr2-0.5
Parietal cortex area 1ipsiPar1-0.5
Parietal cortex area 2ipsiPar2-0.5
Parietal association cortex anterior area layer 5bipsiPtAAL5b-0.5
Prefrontal cortexipsiPFC-0.5
Somatomotoric regionsipsiSMR3
Forelimb motor cortexipsiFMCx1
Caudal forelimb motor areaipsiCFMA1
Lateral part of the granular cortex of forelimb motor regionsipsiLFMCx1
Medial prefrontal cortex dorsal part layer 5ipsimPFCdL5-0.5
Medial agranular prefrontal cortex layer 5 bipsiAGmL5b-0.5
Medial agranular prefrontal cortex layer 6ipsiAGmL6-0.5
Sensory regionsipsiSR-0.5
Primary somatosensory cortex barrel fieldipsiS1BF2
Secondary somatosensory cortexipsiS2-0.5
Primary visual cortex layer 5ipsiV1L5-0.5
Visual association cortexipsiVAC-0.5
Nucleus of the posterior commissureipsiPCom-0.5
Pyramidal tractipsipy-2
Deep dorsal horn C1ipsiDDHC13
Superficial dorsal horn C1ipsiSDHC13
Nucleus of DarkschewitschcontraDk-0.5
Red nucleuscontraR-0.5
Cuneiforme nucleuscontraCnF-0.5
Gigantocellular reticular nucleuscontraGi2
Gigantocellular reticular nucleus alpha partcontraGiA2
Gigantocellular reticular nucleus rostral partcontraGiRo-0.5
Subnucleus reticularis dorsaliscontraSRD1
Parvicellular reticular nucleuscontraPCRt-2
Subcoeruleus nucleuscontraSubC-0.5
Lateral vestibular nucleuscontraLVe-0.5
Nucleus of the solitary tract rostral partcontraSolro-2
Ventral part of the rostral nucleus of the solitary tractcontraSolroV-2
Nucleus of the solitary tract rostrocentralcontraSolroc-2
Raphe magnus nucleuscontraRMg-0.5
Nucleus of RollercontraRo-0.5
Frontal cortex area 1 layer 5contraFr1L5-0.5
Frontal cortex area 3 layer 5contraFr3L5-0.5
Somatomotoric regionscontraSMR3
Lateral agranular prefrontal cortexcontraAGl-0.5
Forelimb motor cortexcontraFMCx3
Lateral agranular prefrontal cortex layer 5contraAGlL5-0.5
Medial agranular prefrontal cortex layer 5 bcontraAGmL5b-0.5
Medial agranular prefrontal cortex layer 6contraAGmL6-0.5
Primary somatosensory cortex layer 5contraS1L53
Primary somatosensory cortex layer 4contraS1L41
Primary somatosensory cortex layer 1contraS1L10
Primary somatosensory cortex layer 2contraS1L23
Primary somatosensory cortex layer 3contraS1L33
Primary somatosensory cortex forelimb region layer 5bcontraS1FL5b-0.5
Primary somatosensory cortex hindlimb region layer 5bcontraS1HL5b-0.5
Nucleus of the posterior commissurecontraPCom-0.5
Pelvic ganglionipsiAutoPeG-10
Vagus nerveipsiAutoV-0.5
Hindpaw skinipsiOrgHPS-0.5
Hindpaw skincontraOrgHPS-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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