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Rat connectome



Superior colliculus superficial layers left


Abbreviation
SCs
Color       
Superior regionsSuperior colliculus layers

SynonymsAbbr.Language
Superior colliculus superficial layersSCsEng
Superior colliculus superficial  
Stratum griseum superficialeSGSEng
Superficial layers tectum Eng
Superior colliculus upper layers Eng
Marginal layers of the superior colliculus Eng
Superficial layers of the superior colliculus Eng

SubregionsSide
Optic nerve layer of the superior colliculusleft
Superficial gray layer of the superior colliculusleft
Superior colliculus superficial layers commissural neuronsleft
Superior colliculus zonal layerleft
Superior colliculus superficial layer neuronleft
Stratum griseum superficialeleft
Superior colliculus superficial layers ventromedial partleft

Output to

NameSideAbbr.WeightDetails
Central grayipsiCG1
Lateral paralemniscal nucleusipsiLPL2
Parabigeminal nucleusipsiPBG2
Periaqueductal grayipsiPAG0.5
Inferior colliculusipsiICOL1
Superior colliculusipsiSC-0.5
Superior colliculus deep layersipsiSCd-0.5
Superior colliculus rostral medial partipsiSCRM2
Ventrolateral tegmental areaipsiVLTg1
Dorsomedial tegmental areaipsiDMTg0
Intermediate reticular nucleusipsiIRt0.5
Paramedian reticular nucleusipsiPMn0
Pontine reticular nucleus oral partipsiPnO0
Pontine reticular nucleus ventral partipsiPnV0
Ventrolateral pontine reticular formationipsivlPRF1
Pontine reticular nucleus caudal partipsiPNC0
Cuneiforme nucleus medial partipsiCnFm1
Parabrachial nucleus dorsal partipsiPBD1
Gigantocellular reticular nucleusipsiGi1
Gigantocellular reticular nucleus alpha partipsiGiA0
Gigantocellular reticular nucleus ventral partipsiGiV1
Lateral reticular nucleusipsiLRt0
Medullary reticular nucleus dorsal partipsiMdDd0
Medullary reticular nucleus ventral partipsiMdV0.5
Parvicellular reticular nucleus alpha partipsiPCRtA0
Subcoeruleus nucleusipsiSubC0
Motor trigeminal nucleusipsiMo50
Raphe nucleiipsiRAN0.5
Intercalated nucleus of the medullaipsiIn-0.5
Olivary pretectal nucleusipsiOPT-0.5
Dorsal paragigantocellular nucleusipsiDPGi0
Lateral paragigantocellular nucleusipsiLPGi0
Anterior group of the dorsal thalamusipsiATN-3
Dorsal part of the lateral geniculate complexipsiLGd3
Ventral part of the lateral geniculate complexipsiLGv2
Ventral part of the lateral geniculate complex lateral zoneipsiLGvlz2
Posterior thalamic nuclear groupipsiPo3
Suprageniculate thalamic nucleusipsiSG-0.5
Dorsal half of the suprageniculate thalamic nucleusipsiSGDh4
Lateral posterior thalamic nucleusipsiLP3
Caudomedial lateral posterior thalamic nucleusipsiLPcm-1
Lateral posterior thalamic nucleus caudal partipsiLPca4
Mid caudal two thirds of the lateral posterior thalamic nucleus caudal partipsiLPcamc3
Lateral posterior thalamic nucleus laterocaudal partipsiLPLC3
Most caudal part of the lateral posterior thalamic nucleus laterorostral partipsiLPLRmc3
Lateral posterior thalamic nucleus mediocaudal partipsiLPMC3
Lateral posterior thalamic nucleus rostral partipsiLPR1
Most rostral part of the lateral posterior thalamic nucleusipsiMoRLP1
Laterodorsal thalamic nucleusipsiLD-3
Zona incertaipsiZI2
Nucleus of the optic tractipsiOT-0.5
HabenulaipsiHAB-0.5
Pretectal regionipsiPRT3
Anterior pretectal nucleusipsiAPT3
Posterior pretectal nucleusipsiPPT-0.5
RetinaipsiRET1
Subthalamic nucleusipsiSTh1
Nucleus of the posterior commissureipsiPCom-0.5
Dorsal geniculate nucleusipsiDLG-0.5
Dorsal geniculate nucleus lateral partipsiDLGl3
Intergeniculate leafipsiIGL2
Ventral lateral geniculate nucleusipsiVLG3
Ventral lateral geniculate nucleus magnocellular partipsiVLGMC2
Ventral geniculate nucleusipsiVG-0.5
Olfactory tubercleipsiTuO-1
Central graycontraCG1
Parabigeminal nucleuscontraPBG-0.5
Periaqueductal graycontraPAG0
Inferior colliculuscontraICOL1
Dorsomedial tegmental areacontraDMTg0
Intermediate reticular nucleuscontraIRt1
Paramedian reticular nucleuscontraPMn0
Pontine reticular nucleus oral partcontraPnO0
Pontine reticular nucleus ventral partcontraPnV0
Ventrolateral pontine reticular formationcontravlPRF0
Pontine reticular nucleus caudal partcontraPNC0
Cuneiforme nucleus medial partcontraCnFm1
Parabrachial nucleus dorsal partcontraPBD1
Gigantocellular reticular nucleuscontraGi2
Gigantocellular reticular nucleus alpha partcontraGiA0
Gigantocellular reticular nucleus ventral partcontraGiV0
Lateral reticular nucleuscontraLRt0
Medullary reticular nucleus dorsal partcontraMdDd0.5
Medullary reticular nucleus ventral partcontraMdV0
Parvicellular reticular nucleus alpha partcontraPCRtA0
Subcoeruleus nucleuscontraSubC0
Motor trigeminal nucleuscontraMo50
Raphe nucleicontraRAN0
Dorsal paragigantocellular nucleuscontraDPGi1
Lateral paragigantocellular nucleuscontraLPGi1
Dorsal part of the lateral geniculate complexcontraLGd-0.5
Lateral posterior thalamic nucleuscontraLP-0.5
RetinacontraRET2
Ventral lateral geniculate nucleuscontraVLG3

Input from

NameSideAbbr.WeightDetails
Parabigeminal nucleusipsiPBG-0.5
Ventral parabigeminal nucleusipsiVPBG-0.5
Dorsal portion of the nucleus parabigeminalis pigmentosusipsiPBGd-0.5
Inferior colliculusipsiICOL1
Superior colliculusipsiSC-0.5
Anteromedial superior colliculusipsiAmSC-0.5
Optic nerve layer of the superior colliculusipsiOp-0.5
Superficial gray layer of the superior colliculusipsiSuG-2
Superior colliculus intermediate layersipsiSCi-0.5
Intermediate gray layer of the superior colliculusipsiInG-0.5
Superior colliculus deep layersipsiSCd-0.5
Substantia nigra A9ipsiSN-3
Substantia nigra lateral partipsiSNL0
Ventrolateral tegmental areaipsiVLTg1
Laterodorsal tegmental nucleusipsiLDTg-0.5
Pedunculopontine tegmental nucleusipsiPPTg-0.5
Edinger Westphal nucleusipsiEW1
Dorsolateral humpipsiCERcndl0
Anterior interposed nucleusipsiAIN0
Anterior interposed nucleus lateral partipsiAINL0.5
Posterior interposed nucleusipsiCERpin0
Posterior interposed nucleus caudal partipsiCERpinC-0.5
Lateral cerebellar nucleusipsiCERL0
Lateral cerebellar nucleus ventral partipsiCERLV-0.5
Lateral cerebellar nucleus ventrolateral partipsiCERLVL0.5
Medial cerebellar nucleusipsiMed0
Medial cerebellar nucleus caudal partipsiMedc1
Medial cerebellar nucleus middle subdivisionipsiMMCM1
Prepositus nucleusipsiPr-0.5
Ventrolateral pontine reticular formationipsivlPRF0
Principal sensory trigeminal nucleus ventral partipsiPr5v2
Spinal trigeminal nucleus caudal partipsiSp5C1
Spinal trigeminal nucleus interpolar partipsiSp5I2
Spinal trigeminal nucleus oral partipsiSp5O2
Dorsal raphe nucleusipsiDR-0.5
Pontine raphe nucleusipsiPnR0
Raphe magnus nucleusipsiRMg0
Raphe obscurus nucleusipsiROb0
Raphe pallidus nucleusipsiRPa0
Olivary pretectal nucleusipsiOPT-0.5
Superior paraolivary nucleusipsiSPO0.5
Paragigantocellular reticular nucleusipsiPGi1
Dorsal part of the lateral geniculate complexipsiLGd2
Ventral part of the lateral geniculate complexipsiLGv2
Zona incerta caudal partipsiZIC-0.5
Nucleus of the optic tractipsiOT-0.5
Optic nerveipsi2n-0.5
Pretectal regionipsiPRT2
Anterior pretectal nucleusipsiAPT2
Posterior pretectal nucleusipsiPPT-0.5
RetinaipsiRET3
Retina nasal partipsiRETna1
Lower temporal crescent of the retinaipsiRETLtc3
Retinal ganglion cellsipsiRETg-0.5
Retina lower temporal quadrantipsiRETiteq-0.5
Retina upper partipsiRETup1
Accessory optic systemipsiAOS1
Medial terminal nucleus of the accessory optic tractipsiMT1
Field CA3 of hippocampusipsiCA32
Parietal cortex posterior area dorsal part layer 5ipsiParPDL51
Somatosensory cortex layer 5bipsiSRL5b1
Primary visual cortexipsiV13
Primary visual cortex layer 5ipsiV1L53
Primary visual cortex layer 6ipsiV1L63
Secondary visual cortexipsiV2-0.5
Secondary visual cortex medial areaipsiV2M-0.5
Secondary visual cortex medial area layer 5ipsiV2ML53
Secondary visual cortex lateral areaipsiV2L-0.5
Secondary visual cortex lateral area layer 5ipsiV2LL53
Secondary visual cortex lateral area caudal partipsiV2LC-0.5
Primary visual cortex monocular areaipsiV1M3
Lateral extrastriate cortexipsiVISxL1
Far lateral extrastriate cortexipsiVISFL1
Medial extrastriate cortexipsiVISM2
Nucleus of the posterior commissureipsiPCom-0.5
Ventral lateral geniculate nucleusipsiVLG3
Ventral lateral geniculate nucleus magnocellular partipsiVLGMC-0.5
Ventral lateral geniculate nucleus medial partipsiVLGM3
Cervical segment 1ipsiCS10
Cervical segment 2ipsiCS20
Cervical segment 3ipsiCS30
Cervical segment 4ipsiCS40
Cervical segment 5ipsiCS50
Cervical segment 6ipsiCS60
Cervical segment 7ipsiCS70
Cervical segment 8ipsiCS80
Thoracal segment 1ipsiT10
Thoracal segment 2ipsiT20
Thoracal segment 3ipsiT30
Thoracal segment 4ipsiT40
Thoracal segment 5ipsiT50
Thoracal segment 6ipsiT60
Thoracal segment 7ipsiT70
Thoracal segment 8ipsiT80
Thoracal segment 9ipsiT90
Thoracal segment 10ipsiT100
Thoracal segment 11ipsiT110
Thoracal segment 12ipsiT120
Thoracal segment 13ipsiT130
Lumbar segment 1ipsiL10
Lumbar segment 2ipsiL20
Lumbar segment 3ipsiL30
Lumbar segment 4ipsiL40
Lumbar segment 5ipsiL50
Lumbar segment 6ipsiL60
Sacral segment 1ipsiSa10
Sacral segment 2ipsiSa20
Sacral segment 3ipsiSa30
Sacral segment 4ipsiSa40
Parabigeminal nucleuscontraPBG3
Parabigeminal nucleus middle subnucleuscontraPBGmi-0.5
Superior colliculuscontraSC-0.5
Substantia nigra lateral partcontraSNL0
Ventrolateral tegmental areacontraVLTg1
Dorsolateral humpcontraCERcndl0
Anterior interposed nucleuscontraAIN0
Anterior interposed nucleus lateral partcontraAINL1
Posterior interposed nucleuscontraCERpin0
Posterior interposed nucleus caudal partcontraCERpinC3
Lateral cerebellar nucleuscontraCERL2
Lateral cerebellar nucleus ventral partcontraCERLV3
Lateral cerebellar nucleus ventrolateral partcontraCERLVL3
Medial cerebellar nucleuscontraMed0
Medial cerebellar nucleus caudal partcontraMedc3
Medial cerebellar nucleus middle subdivisioncontraMMCM3
Ventrolateral pontine reticular formationcontravlPRF0
Olivary pretectal nucleuscontraOPT-0.5
Lateral posterior thalamic nucleuscontraLP-0.5
RetinacontraRET4
Lower temporal crescent of the retinacontraRETLtc2
Retinal ganglion cellscontraRETg3
Displaced ganglion cells of the innermost stratum of the intermediate zone of ganglion cell layer of the retinacontraRETgcLizimD1
Ganglion cells in innermost stratum of intermediate neuronal layercontraRETLim3
Parietal cortex posterior area dorsal part layer 5contraParPDL50
Somatosensory cortex layer 5bcontraSRL5b0
Primary visual cortex layer 5contraV1L50
Secondary visual cortex medial area layer 5contraV2ML50
Secondary visual cortex lateral areacontraV2L-0.5
Secondary visual cortex lateral area layer 5contraV2LL50
Secondary visual cortex lateral area caudal partcontraV2LC-0.5
Intergeniculate leafcontraIGL-0.5
Ventral lateral geniculate nucleus magnocellular partcontraVLGMC-0.5
Ventral lateral geniculate nucleus medial partcontraVLGM3
Cervical segment 1contraCS10
Cervical segment 2contraCS20
Cervical segment 3contraCS30
Cervical segment 4contraCS40
Cervical segment 5contraCS50
Cervical segment 6contraCS60
Cervical segment 7contraCS70
Cervical segment 8contraCS80
Thoracal segment 1contraT10
Thoracal segment 2contraT20
Thoracal segment 3contraT30
Thoracal segment 4contraT40
Thoracal segment 5contraT50
Thoracal segment 6contraT60
Thoracal segment 7contraT70
Thoracal segment 8contraT80
Thoracal segment 9contraT90
Thoracal segment 10contraT100
Thoracal segment 11contraT110
Thoracal segment 12contraT120
Thoracal segment 13contraT130
Lumbar segment 1contraL10
Lumbar segment 2contraL20
Lumbar segment 3contraL30
Lumbar segment 4contraL40
Lumbar segment 5contraL50
Lumbar segment 6contraL60
Sacral segment 1contraSa10
Sacral segment 2contraSa20
Sacral segment 3contraSa30
Sacral segment 4contraSa40

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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