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Rat connectome



Basal forebrain right


Abbreviation
BAF
Color       
Superior regionsProsencephalon

SynonymsAbbr.Language
 FB 
Basal forebrain area Eng
Basal forebrainBAFEng
Cholinergic basal forebrain Eng

SubregionsSide
Accessory neurosecretory nucleiright
Alar nucleusright
Caudal part of basal forebrainright
Commissural stria terminalisright
Dorsal fornixright
Eminence regionsright
Endopiriform systemright
Islands of Callejaright
Lamina terminalisright
Magnocellular basal forebrain neuronal complexright
Medial basal forebrainright
Medial tuberal nucleusright
Navicular nucleus of the basal forebrainright
Nucleus of the ansa lenticularisright
Nucleus of the commissural stria terminalisright
Preoptic regionright
Rostral basal forebrainright
Tenia tectaright
Tuberomammillar systemright
Ventral basal forebrainright
Laterally in the basal forebrainright
Surrounding area of the islands of Callejaright

Output to

NameSideAbbr.WeightDetails
Central graycontraCG1.5
Ventral tegmental area A10contraVTA0.5
Laterodorsal tegmental nucleuscontraLDTg-0.5
Pedunculopontine tegmental nucleuscontraPPTg2
Locus coeruleuscontraLC-0.5
Parabrachial nucleuscontraPB-0.5
Dorsal raphe nucleuscontraDR1.5
Nucleus of the horizontal limb of the diagonal bandcontraHDB-0.5
Magnocellular preoptic nucleuscontraMCPO-0.5
Mediodorsal thalamic nucleuscontraMD0
Reticular thalamic nucleuscontraRt1
Lateral habenular nucleuscontraLHb0.5
Lateral habenular nucleus lateral partcontraLHbL0.5
Lateral habenular nucleus caudal subfieldcontraLHbcs0.5
Lateral entorhinal cortexcontraLEnt0.5
Primary somatosensory cortexcontraS10
Olfactory bulb A16contraMOB0
Central grayipsiCG2
Superior colliculusipsiSC-1
Mesopontine tegmental area caudal partipsiTGAmc1
Mesopontine tegmental area mid-levelipsiTGAmm1.5
Mesopontine tegmental area rostral partipsiTGAmr2
Substantia nigra A9ipsiSN1
Substantia nigra reticular partipsiSNR-1
Ventral tegmental area A10ipsiVTA2
Laterodorsal tegmental nucleusipsiLDTg-0.5
Pedunculopontine tegmental nucleusipsiPPTg3
Pedunculopontine tegmental nucleus caudal partipsiPPTgC1
Pedunculopontine tegmental nucleus mid levelipsiPPTgmL1.5
Pedunculopontine tegmental nucleus rostral partipsiPPTgR2
CerebellumipsiCERE0
Locus coeruleusipsiLC-0.5
Region surrounding the reticular formationipsiSRF0
Parabrachial nucleusipsiPB-0.5
Lateral reticular nucleusipsiLRt2
Medulla oblongataipsiMeOb1
Hypoglossal nucleusipsi12S1
Motor trigeminal nucleusipsiMo50
Principal sensory trigeminal nucleusipsiPr50
Vestibular nucleiipsiVnc-1
Nucleus of the solitary tractipsiSol1
Solitary tractipsisol0
Dorsal motor nucleus of vagusipsi101
Dorsal raphe nucleusipsiDR2
Rostral ventrolateral medullaipsiRVLM1
Dorsal column nucleiipsiDCN3
Cuneate nucleusipsiCu-1
GracileipsiGra-1
Medulla oblongata dorsomedial partipsiMeObDM1
Superior salivatory nucleusipsiSuS3
Nucleus of the horizontal limb of the diagonal bandipsiHDB-2
Nucleus of the vertical limb of the diagonal bandipsiVDB-0.5
Medial septal nucleusipsiMS-2
Substantia innominataipsiSI-2
Lateral preoptic areaipsiLPO-2
Medial preoptic areaipsiMPA-2
Tuberomammillary nucleusipsiTuM-0.5
Dorsal regionipsiDHR-0.5
Gemini hypothalamic nucleusipsiGem2
Lateral hypothalamic areaipsiLH-0.5
Posterior hypothalamic areaipsiPHA-0.5
Paraventricular hypothalamic nucleusipsiPa1.5
Premammillary nucleus dorsal partipsiPMD-0.5
Supramammillar nucleusipsiSuM-0.5
ThalamusipsiT2
Mediodorsal thalamic nucleusipsiMD3
Mediodorsal thalamic nucleus medial partipsiMDM3
Midline group of the dorsal thalamusipsiMTN1.5
Reuniens thalamic nucleusipsiRe-0.5
Reticular thalamic nucleusipsiRt3
Reticular thalamic nucleus intermediate partipsiRti2
Reticular thalamic nucleus medial partipsiRtm2
Habenular commissureipsihbc1
Lateral habenular nucleusipsiLHb3
Lateral habenular nucleus lateral partipsiLHbL2
Lateral habenular nucleus medial partipsiLHbM-0.5
Lateral habenular nucleus caudal subfieldipsiLHbcs2
Lateral habenular nucleus rostral partipsiLHbro-0.5
Medial habenular nucleusipsiMHb1
Internal capsuleipsiic-2
Deep cerebral white matteripsidcw-2
Medial forebrain bundleipsimfb-2
Stria medullaris of the thalamusipsism-0.5
Amygdaloid complexipsiAC-0.5
Basolateral amygdaloid nucleusipsiBL3
Bed nucleus of the stria terminalis lateral divisionipsiBSTL-2
Bed nucleus of the stria terminalis lateral division ventral partipsiBSTLV-0.5
Anterior amygdaloid areaipsiAA-2
Anteroposterior part of the medial amygdaloid nucleusipsiMeAP0
Medial globus pallidusipsiMGP-2
Ventral pallidumipsiVP-2
StriatumipsiSTR-0.5
Accumbens nucleusipsiAc-0.5
Caudate putamenipsiCPu2
Subthalamic nucleus lateral partipsiSThl-2
Subthalamic nucleus middle partipsiSThm3
Cerebral cortexipsiCEC3
HippocampusipsiHIPP-0.5
Anterodorsal one third hippocampusipsiHIPPADot2
Dorsal hippocampusipsiHIPPd2
Field CA3 of hippocampusipsiCA3-0.5
Lateral entorhinal cortexipsiLEnt3
Lateral piriform cortexipsiPirLa0.5
Retrosplenial agranular cortexipsiRSA2.5
Retrosplenial agranular cortex layer 5ipsiRSAL5-0.5
Retrosplenial agranular cortex layer 6ipsiRSAL6-0.5
Retrosplenial granular cortex layer 5ipsiRSGL5-2
Retrosplenial granular cortex layer 1ipsiRSGL1-0.5
Retrosplenial granular cortex layer 2ipsiRSGL2-0.5
Retrosplenial granular cortex layer 3ipsiRSGL3-0.5
Retrosplenial granular cortex layer 4ipsiRSGL4-0.5
Deep cortical layer of the cerebral cortexipsicytolD-2
Cingulate cortexipsiCg2.5
Anterior cingulate cortex layer 5ipsiACCL5-0.5
Anterior cingulate cortex layer 6ipsiACCL6-0.5
Medial cingulate cortexipsiMCg0.5
Infralimbic cortex layer 5ipsiILL5-0.5
Infralimbic cortex layer 6ipsiILL6-0.5
Infralimbic cortex medial partipsiILme0.5
NeocortexipsiNEOCX-0.5
Frontal association cortex rostral partipsiFrAr3
Frontal cortex area 2ipsiFr21
Central portion of the parietal association cortexipsiPtAC3
Primary auditory cortexipsiAu1-0.5
Non primary auditory cortical beltipsiBF-0.5
Suprarhinal auditory fieldipsiSRAF-0.5
Post dorsal auditory fieldipsiPDAF-0.5
Anterior auditory fieldipsiAAF-0.5
Insular cortexipsiICX-0.5
Lateral granular insular cortexipsiLGI0.5
Perirhinal cortexipsiA35-0.5
Prefrontal cortexipsiPFC-0.5
Somatomotoric regionsipsiSMR-0.5
Forelimb motor cortexipsiFMCx3
Medial prefrontal cortexipsimPFC0.5
Medial prefrontal cortex layer 5ipsimPFCL5-0.5
Medial prefrontal cortex layer 6ipsimPFCL6-0.5
Sensory regionsipsiSR3
Frontoparietal somatosensory cortexipsifpSR-0.5
Lateral somatomotoric regionsipsiLSMR0.5
Visual regionsipsiVR3
Primary visual cortexipsiV13
Primary visual cortex layer 1ipsiV1L10.5
Primary visual cortex layer 5ipsiV1L53
Primary visual cortex layer 6ipsiV1L63
Secondary visual cortex medial area layer 1ipsiV2ML10.5
Secondary visual cortex medial area layer 5ipsiV2ML53
Secondary visual cortex medial area layer 6ipsiV2ML63
Secondary visual cortex lateral area layer 1ipsiV2LL10.5
Secondary visual cortex lateral area layer 5ipsiV2LL53
Secondary visual cortex lateral area layer 6ipsiV2LL63
Lateral orbital cortexipsiLO0.5
Medial orbital cortexipsiMO0.5
Ventral orbital cortexipsiVO-0.5
Neocortex layer 4ipsiNEOCXL4-0.5
Neocortex layers 5-6ipsiNEOCXL56-0.5
Olfactory bulb A16ipsiMOB3
Granular cell layer of the olfactory bulbipsiOBgra-0.5
Lateral septal nucleusipsiLS-2

Input from

NameSideAbbr.WeightDetails
Ventral nucleus of the lateral lemniscuscontraVLL0.5
Periaqueductal graycontraPAG0
Periaqueductal gray pars alphacontraPAGa1
Periventricular gray mattercontraPVG0.5
Superior colliculuscontraSC1
Substantia nigra compact partcontraSNC0.5
Substantia nigra lateral partcontraSNL0
Substantia nigra reticular partcontraSNR0
Ventral tegmental area A10contraVTA1
Interfascicular nucleuscontraIF0.5
Laterodorsal tegmental nucleuscontraLDTg0.5
Laterodorsal tegmental nucleus alphacontraLDTga0.5
Ventral tegmental nucleuscontraVTg1
Pedunculopontine tegmental nucleus lateral partcontraPPTgL0.5
Pedunculopontine tegmental nucleus medial partcontraPPTgM0.5
Locus coeruleuscontraLC0.5
Locus coeruleus alphacontraLCalp0
Mesencephalic reticular formationcontraMRF2
Pontine reticular nucleus oral partcontraPnO0.5
Pontine reticular nucleus caudal partcontraPNC1
Lateral parabrachial nucleuscontraLPB3
Parabrachial nucleus medialcontraPBnMe1.5
Subcoeruleus nucleuscontraSubC0.5
Dorsal raphe nucleuscontraDR1.5
Rostral linear nucleus of the raphecontraRLi1
Superior central raphe nucleuscontraCS0.5
Raphe magnus nucleus rostral partcontraRMgR3
A8 dopamine cells retrorubral groupcontraRRF0.5
Posterior thalamic nuclear groupcontraPo0
Ventral nucleus of the lateral lemniscusipsiVLL0.5
Periaqueductal grayipsiPAG1
Periaqueductal gray pars alphaipsiPAGa1.5
Ventral periaqueductal grayipsiVPAG-0.5
Ventrolateral periaqueductal grayipsiVLPAG3
Periventricular gray matteripsiPVG0.5
Red nucleus caudal partipsiRnCa0
Red nucleus rostral partipsiRnRo0
Inferior colliculusipsiICOL-0.5
Superior colliculusipsiSC1.5
Tegmental areaipsiTGA-0.5
Central tegmental fieldipsiTGAC0.5
Mesopontine tegmental area caudal partipsiTGAmc1.5
Mesopontine tegmental area dorsal partipsiTGAmd2
Mesopontine tegmental area mid-levelipsiTGAmm1.5
Mesopontine tegmental area rostral partipsiTGAmr2
Mesopontine tegmental area ventral partipsiTGAmv1
Substantia nigra A9ipsiSN3
Substantia nigra compact partipsiSNC3
Substantia nigra lateral partipsiSNL1
Substantia nigra reticular partipsiSNR1
Ventral tegmental area A10ipsiVTA3
Interfascicular nucleusipsiIF1
Laterodorsal tegmental nucleusipsiLDTg3
Laterodorsal tegmental nucleus alphaipsiLDTga1.5
Ventral tegmental nucleusipsiVTg1.5
Pedunculopontine tegmental nucleusipsiPPTg3
Pedunculopontine tegmental nucleus caudal partipsiPPTgC1.5
Pedunculopontine tegmental nucleus dorsal partipsiPPTgd1.5
Pedunculopontine tegmental nucleus lateral partipsiPPTgL2
Pedunculopontine tegmental nucleus medial partipsiPPTgM1.5
Pedunculopontine tegmental nucleus mid levelipsiPPTgmL1.5
Pedunculopontine tegmental nucleus rostral partipsiPPTgR2
Pedunculopontine tegmental nucleus ventral partipsiPPTgv1
Locus coeruleusipsiLC1.5
Locus coeruleus alphaipsiLCalp0.5
Pons dorsal partipsiPdo-0.5
Mesencephalic reticular formationipsiMRF3
Pontine reticular nucleus oral partipsiPnO1.5
Pontine reticular nucleus caudal partipsiPNC1
Lateral parabrachial nucleusipsiLPB3
Parabrachial nucleus medialipsiPBnMe2
Gigantocellular reticular nucleusipsiGi-0.5
Gigantocellular reticular nucleus alpha partipsiGiA0
Parvicellular reticular nucleusipsiPCRt-0.5
Subcoeruleus nucleusipsiSubC1
Hypoglossal nucleusipsi12S0
Nucleus of the solitary tractipsiSol-0.5
11 beta hydroxysteroiddehydrogenase type-2 cellsipsiSolHSD23
Dorsal motor nucleus of vagus dorsolateral edgeipsi10DLe-0.5
Raphe nucleiipsiRAN-0.5
Dorsal raphe nucleusipsiDR2
Rostral linear nucleus of the rapheipsiRLi1.5
Superior central raphe nucleusipsiCS1
Raphe magnus nucleusipsiRMg-0.5
Raphe magnus nucleus caudal partipsiRMgc0
Raphe magnus nucleus rostral partipsiRMgR3
Raphe pallidus nucleusipsiRPa0
Rostral level of the caudal ventrolateral medullaipsiCVLMR0
Diagonal band of BrocaipsiDBB-2
Nucleus of the horizontal limb of the diagonal bandipsiHDB2
Nucleus of the vertical limb of the diagonal bandipsiVDB0.5
Medial septal nucleusipsiMS0.5
Substantia innominata dorsal partipsiSID-0.5
Lateral preoptic areaipsiLPO-0.5
Medial preoptic areaipsiMPA-2
Ventrolateral preoptic nucleusipsiVLPO-2
Dorsolateral preoptic regionipsiPREOdL-2
Tuberomammillary nucleusipsiTuM3
HypothalamusipsiHYPO-0.5
Dorsal regionipsiDHR3
Lateral hypothalamic areaipsiLH3
Anterior hypothalamic areaipsiAHA-2
Posterior hypothalamic areaipsiPHA3
Arcuate nucleus medial partipsiArcM-0.5
Supraoptic nucleus [Supraoptic region]ipsiSO-2
Premammillary nucleus dorsal partipsiPMD3
Supramammillar nucleusipsiSuM3
A8 dopamine cells retrorubral groupipsiRRF2
Central medial thalamic nucleusipsiCM-0.5
Central medial thalamic nucleus rostral partipsiCMr1
Parafascicular thalamic nucleusipsiPF-0.5
Posterior thalamic nuclear groupipsiPo3
Posterior thalamic nuclear group triangular partipsiPoT-0.5
Suprageniculate thalamic nucleusipsiSG-0.5
Midline group of the dorsal thalamusipsiMTN3
Paraventricular thalamic nucleusipsiPV3
Intralaminar nucleiipsiILN-0.5
Posterior intralaminar thalamic nucleusipsiPIL-0.5
Reticular thalamic nucleus lateral partipsiRtL2
Zona incertaipsiZI3
Medial lemniscusipsiml-0.5
Amygdaloid complexipsiAC4
Basolateral amygdaloid nucleusipsiBL-3
Basomedial amygdaloid nucleusipsiBM3
Bed nucleus of the stria terminalisipsiBST-0.5
Bed nucleus of the stria terminalis lateral divisionipsiBSTL-0.5
Central amygdaloid nucleusipsiCe3
Central amygdaloid nucleus medial divisionipsiCeM-0.5
Central division of the central amygdaloid nucleusipsiCeCe-0.5
Cortical amygdaloid nucleusipsiCAn3
Globus pallidusipsiGP-0.5
Medial globus pallidusipsiMGP1
Accumbens nucleusipsiAc-0.5
Caudate putamenipsiCPu-0.5
Medial striatumipsiCPum-0.5
Caudal striatumipsiCPuc-0.5
Ventral striatumipsiCPuv-0.5
Subthalamic nucleusipsiSTh3
Subthalamic nucleus medial partipsiSThM3
Cerebral cortexipsiCEC-0.5
Field CA1 of hippocampus medial partipsiCA1m-0.5
Field CA1 of hippocampus lateral part ipsiCA1Lat-0.5
Cerebral cortex layer 5ipsiCCL53
Prelimbic cortexipsiPrL-0.5
Infralimbic cortexipsiIL-0.5
Parietal association cortexipsiPtA1
Secondary auditory cortex ventral areaipsiAuV-0.5
Insular cortexipsiICX-0.5
Dorsal peduncular cortexipsiDP-0.5
Lateral agranular prefrontal cortexipsiAGl4
Medial prefrontal cortexipsimPFC2
Medial agranular prefrontal cortexipsiAGm4
Secondary somatosensory cortexipsiS2-0.5
Primary visual cortexipsiV11
Anterior medial frontal cortexipsiAMFC-0.5
Orbital cortexipsiOrC-0.5
Lateral orbital cortexipsiLO4
Ventral orbital cortexipsiVO4
Medial geniculate nucleus medial partipsiMGM-0.5
Olfactory cortexipsiOcx-0.5
Tufted cells of the glomerular layer of the olfactory bulbipsiOBgloTC3
Mitral cell layer of the olfactory bulbipsiMi3
Olfactory tubercleipsiTuO-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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