Large-scale neural model of visual short-term memory (Ulloa, Horwitz 2016; Horwitz, et al. 2005,...)

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Accession:206337
Large-scale neural model of visual short term memory embedded into a 998-node connectome. The model simulates electrical activity across neuronal populations of a number of brain regions and converts that activity into fMRI and MEG time-series. The model uses a neural simulator developed at the Brain Imaging and Modeling Section of the National Institutes of Health.
References:
1 . Tagamets MA, Horwitz B (1998) Integrating electrophysiological and anatomical experimental data to create a large-scale model that simulates a delayed match-to-sample human brain imaging study. Cereb Cortex 8:310-20 [PubMed]
2 . Ulloa A, Horwitz B (2016) Embedding Task-Based Neural Models into a Connectome-Based Model of the Cerebral Cortex. Front Neuroinform 10:32 [PubMed]
3 . Horwitz B, Warner B, Fitzer J, Tagamets MA, Husain FT, Long TW (2005) Investigating the neural basis for functional and effective connectivity. Application to fMRI. Philos Trans R Soc Lond B Biol Sci 360:1093-108 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Prefrontal cortex (PFC);
Cell Type(s):
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: Python;
Model Concept(s): Working memory;
Implementer(s): Ulloa, Antonio [antonio.ulloa at alum.bu.edu];
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lsnm_in_python-master
visual_model
subject_10
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weightslist.txt
                            
% Fri Aug 21 23:06:03 2015

% Input layer: (9, 9)
% Output layer: (9, 9)
% Fanout size: (5, 1)
% Fanout spacing: (1, 1)
% Specified fanout weights

Connect(ev4v, ev1v)  {
  From:  (1, 1)  {
    |              | 
    |              | 
    |              | 
    ([ 2, 1]  0.000647) 
    ([ 3, 1]  0.001991) 
  }
  From:  (1, 2)  {
    ([ 8, 2]  0.001224) 
    ([ 9, 2]  0.000813) 
    ([ 1, 2]  0.001714) 
    ([ 2, 2]  0.000658) 
    |              | 
  }
  From:  (1, 3)  {
    |              | 
    ([ 9, 3]  0.001888) 
    |              | 
    ([ 2, 3]  0.000290) 
    ([ 3, 3]  0.001449) 
  }
  From:  (1, 4)  {
    |              | 
    |              | 
    |              | 
    ([ 2, 4]  0.001028) 
    |              | 
  }
  From:  (1, 5)  {
    |              | 
    ([ 9, 5]  0.001485) 
    ([ 1, 5]  0.000304) 
    ([ 2, 5]  0.001987) 
    |              | 
  }
  From:  (1, 6)  {
    |              | 
    |              | 
    |              | 
    |              | 
    |              | 
    ([ 1, 1]  0.000980)   }
  From:  (1, 7)  {
    |              | 
    |              | 
    |              | 
    ([ 2, 7]  0.000773) 
    |              | 
  }
  From:  (1, 8)  {
    ([ 8, 8]  0.000048) 
    ([ 9, 8]  0.001768) 
    ([ 1, 8]  0.000939) 
    |              | 
    ([ 3, 8]  0.001128) 
  }
  From:  (1, 9)  {
    ([ 8, 9]  0.001483) 
    |              | 
    |              | 
    |              | 
    ([ 3, 9]  0.001305) 
  }
  From:  (2, 1)  {
    |              | 
    ([ 1, 1]  0.001420) 
    ([ 2, 1]  0.001901) 
    ([ 3, 1]  0.000771) 
    |              | 
  }
  From:  (2, 2)  {
    ([ 9, 2]  0.000396) 
    ([ 1, 2]  0.000913) 
    |              | 
    |              | 
    |              | 
  }
  From:  (2, 3)  {
    ([ 9, 3]  0.001864) 
    |              | 
    ([ 2, 3]  0.001353) 
    ([ 3, 3]  0.001340) 
    ([ 4, 3]  0.000511) 
  }
  From:  (2, 4)  {
    |              | 
    |              | 
    |              | 
    ([ 3, 4]  0.000005) 
    ([ 4, 4]  0.000950) 
  }
  From:  (2, 5)  {
    |              | 
    ([ 1, 5]  0.001575) 
    |              | 
    |              | 
    ([ 4, 5]  0.000416) 
  }
  From:  (2, 6)  {
    ([ 9, 6]  0.001362) 
    ([ 1, 6]  0.001590) 
    |              | 
    ([ 3, 6]  0.000116) 
    |              | 
  }
  From:  (2, 7)  {
    ([ 9, 7]  0.001371) 
    ([ 1, 7]  0.001231) 
    ([ 2, 7]  0.000298) 
    ([ 3, 7]  0.000864) 
    |              | 
  }
  From:  (2, 8)  {
    ([ 9, 8]  0.000178) 
    ([ 1, 8]  0.000396) 
    ([ 2, 8]  0.000708) 
    |              | 
    ([ 4, 8]  0.000554) 
  }
  From:  (2, 9)  {
    |              | 
    |              | 
    ([ 2, 9]  0.000321) 
    |              | 
    |              | 
  }
  From:  (3, 1)  {
    |              | 
    ([ 2, 1]  0.001953) 
    ([ 3, 1]  0.000491) 
    |              | 
    |              | 
  }
  From:  (3, 2)  {
    ([ 1, 2]  0.000219) 
    ([ 2, 2]  0.001402) 
    ([ 3, 2]  0.000074) 
    |              | 
    ([ 5, 2]  0.001112) 
  }
  From:  (3, 3)  {
    |              | 
    ([ 2, 3]  0.000682) 
    ([ 3, 3]  0.000802) 
    |              | 
    ([ 5, 3]  0.001708) 
  }
  From:  (3, 4)  {
    |              | 
    |              | 
    |              | 
    |              | 
    ([ 5, 4]  0.000726) 
  }
  From:  (3, 5)  {
    |              | 
    ([ 2, 5]  0.000193) 
    ([ 3, 5]  0.000650) 
    |              | 
    ([ 5, 5]  0.001845) 
  }
  From:  (3, 6)  {
    |              | 
    |              | 
    |              | 
    |              | 
    |              | 
    ([ 1, 1]  0.001403)   }
  From:  (3, 7)  {
    |              | 
    ([ 2, 7]  0.001646) 
    ([ 3, 7]  0.001299) 
    ([ 4, 7]  0.001494) 
    ([ 5, 7]  0.000423) 
  }
  From:  (3, 8)  {
    ([ 1, 8]  0.001225) 
    ([ 2, 8]  0.000459) 
    |              | 
    ([ 4, 8]  0.000950) 
    ([ 5, 8]  0.000689) 
  }
  From:  (3, 9)  {
    ([ 1, 9]  0.001397) 
    |              | 
    ([ 3, 9]  0.000737) 
    |              | 
    |              | 
  }
  From:  (4, 1)  {
    ([ 2, 1]  0.001806) 
    |              | 
    ([ 4, 1]  0.000379) 
    |              | 
    ([ 6, 1]  0.001665) 
  }
  From:  (4, 2)  {
    ([ 2, 2]  0.001614) 
    |              | 
    |              | 
    |              | 
    ([ 6, 2]  0.001875) 
  }
  From:  (4, 3)  {
    |              | 
    |              | 
    |              | 
    |              | 
    ([ 6, 3]  0.001527) 
  }
  From:  (4, 4)  {
    ([ 2, 4]  0.001203) 
    |              | 
    ([ 4, 4]  0.000809) 
    |              | 
    |              | 
  }
  From:  (4, 5)  {
    |              | 
    |              | 
    |              | 
    ([ 5, 5]  0.000943) 
    ([ 6, 5]  0.001166) 
  }
  From:  (4, 6)  {
    |              | 
    |              | 
    ([ 4, 6]  0.000551) 
    ([ 5, 6]  0.001576) 
    ([ 6, 6]  0.001136) 
  }
  From:  (4, 7)  {
    |              | 
    |              | 
    ([ 4, 7]  0.001527) 
    |              | 
    |              | 
  }
  From:  (4, 8)  {
    |              | 
    |              | 
    ([ 4, 8]  0.001306) 
    ([ 5, 8]  0.000165) 
    ([ 6, 8]  0.001894) 
  }
  From:  (4, 9)  {
    ([ 2, 9]  0.001508) 
    ([ 3, 9]  0.000602) 
    ([ 4, 9]  0.001386) 
    ([ 5, 9]  0.000820) 
    |              | 
  }
  From:  (5, 1)  {
    |              | 
    ([ 4, 1]  0.000675) 
    ([ 5, 1]  0.000179) 
    ([ 6, 1]  0.000822) 
    ([ 7, 1]  0.000713) 
  }
  From:  (5, 2)  {
    ([ 3, 2]  0.001941) 
    |              | 
    ([ 5, 2]  0.000492) 
    ([ 6, 2]  0.000806) 
    |              | 
  }
  From:  (5, 3)  {
    |              | 
    ([ 4, 3]  0.001258) 
    ([ 5, 3]  0.001158) 
    ([ 6, 3]  0.001286) 
    |              | 
  }
  From:  (5, 4)  {
    |              | 
    ([ 4, 4]  0.000514) 
    |              | 
    |              | 
    ([ 7, 4]  0.000113) 
  }
  From:  (5, 5)  {
    |              | 
    |              | 
    ([ 5, 5]  0.001033) 
    |              | 
    |              | 
  }
  From:  (5, 6)  {
    ([ 3, 6]  0.001510) 
    ([ 4, 6]  0.001015) 
    ([ 5, 6]  0.001966) 
    |              | 
    |              | 
  }
  From:  (5, 7)  {
    ([ 3, 7]  0.001726) 
    |              | 
    ([ 5, 7]  0.000783) 
    ([ 6, 7]  0.000390) 
    |              | 
  }
  From:  (5, 8)  {
    ([ 3, 8]  0.001405) 
    |              | 
    |              | 
    |              | 
    ([ 7, 8]  0.001253) 
  }
  From:  (5, 9)  {
    ([ 3, 9]  0.000777) 
    ([ 4, 9]  0.000438) 
    ([ 5, 9]  0.001533) 
    ([ 6, 9]  0.001105) 
    ([ 7, 9]  0.000170) 
  }
  From:  (6, 1)  {
    ([ 4, 1]  0.000189) 
    ([ 5, 1]  0.001234) 
    ([ 6, 1]  0.001885) 
    |              | 
    ([ 8, 1]  0.001190) 
  }
  From:  (6, 2)  {
    |              | 
    ([ 5, 2]  0.000628) 
    ([ 6, 2]  0.000647) 
    ([ 7, 2]  0.001735) 
    ([ 8, 2]  0.000213) 
  }
  From:  (6, 3)  {
    ([ 4, 3]  0.001078) 
    |              | 
    |              | 
    ([ 7, 3]  0.000483) 
    |              | 
  }
  From:  (6, 4)  {
    |              | 
    |              | 
    |              | 
    |              | 
    |              | 
    ([ 1, 1]  0.001015)   }
  From:  (6, 5)  {
    ([ 4, 5]  0.001424) 
    ([ 5, 5]  0.000610) 
    |              | 
    ([ 7, 5]  0.001836) 
    |              | 
  }
  From:  (6, 6)  {
    |              | 
    |              | 
    |              | 
    ([ 7, 6]  0.000958) 
    ([ 8, 6]  0.001082) 
  }
  From:  (6, 7)  {
    |              | 
    ([ 5, 7]  0.000796) 
    ([ 6, 7]  0.001798) 
    ([ 7, 7]  0.001262) 
    ([ 8, 7]  0.000417) 
  }
  From:  (6, 8)  {
    ([ 4, 8]  0.001507) 
    |              | 
    ([ 6, 8]  0.000947) 
    ([ 7, 8]  0.001705) 
    ([ 8, 8]  0.001608) 
  }
  From:  (6, 9)  {
    |              | 
    |              | 
    ([ 6, 9]  0.000591) 
    |              | 
    ([ 8, 9]  0.000522) 
  }
  From:  (7, 1)  {
    |              | 
    |              | 
    |              | 
    ([ 8, 1]  0.000479) 
    ([ 9, 1]  0.000428) 
  }
  From:  (7, 2)  {
    |              | 
    |              | 
    ([ 7, 2]  0.001807) 
    ([ 8, 2]  0.001861) 
    ([ 9, 2]  0.001695) 
  }
  From:  (7, 3)  {
    |              | 
    ([ 6, 3]  0.000033) 
    |              | 
    |              | 
    |              | 
  }
  From:  (7, 4)  {
    ([ 5, 4]  0.001120) 
    |              | 
    ([ 7, 4]  0.001062) 
    ([ 8, 4]  0.001872) 
    |              | 
  }
  From:  (7, 5)  {
    ([ 5, 5]  0.001544) 
    ([ 6, 5]  0.000837) 
    |              | 
    ([ 8, 5]  0.000124) 
    ([ 9, 5]  0.001919) 
  }
  From:  (7, 6)  {
    |              | 
    ([ 6, 6]  0.000988) 
    |              | 
    |              | 
    |              | 
  }
  From:  (7, 7)  {
    |              | 
    |              | 
    |              | 
    ([ 8, 7]  0.001339) 
    |              | 
  }
  From:  (7, 8)  {
    ([ 5, 8]  0.001959) 
    |              | 
    |              | 
    |              | 
    ([ 9, 8]  0.000488) 
  }
  From:  (7, 9)  {
    ([ 5, 9]  0.001069) 
    |              | 
    |              | 
    |              | 
    ([ 9, 9]  0.000562) 
  }
  From:  (8, 1)  {
    |              | 
    |              | 
    |              | 
    |              | 
    ([ 1, 1]  0.001740) 
  }
  From:  (8, 2)  {
    |              | 
    |              | 
    ([ 8, 2]  0.000851) 
    ([ 9, 2]  0.000590) 
    ([ 1, 2]  0.000960) 
  }
  From:  (8, 3)  {
    |              | 
    ([ 7, 3]  0.001297) 
    |              | 
    |              | 
    |              | 
  }
  From:  (8, 4)  {
    |              | 
    ([ 7, 4]  0.001361) 
    |              | 
    ([ 9, 4]  0.000488) 
    ([ 1, 4]  0.000187) 
  }
  From:  (8, 5)  {
    ([ 6, 5]  0.000391) 
    ([ 7, 5]  0.000781) 
    |              | 
    ([ 9, 5]  0.001608) 
    ([ 1, 5]  0.001853) 
  }
  From:  (8, 6)  {
    ([ 6, 6]  0.001592) 
    ([ 7, 6]  0.001521) 
    |              | 
    |              | 
    |              | 
  }
  From:  (8, 7)  {
    ([ 6, 7]  0.001552) 
    ([ 7, 7]  0.000560) 
    |              | 
    |              | 
    ([ 1, 7]  0.000313) 
  }
  From:  (8, 8)  {
    ([ 6, 8]  0.001925) 
    |              | 
    ([ 8, 8]  0.001988) 
    |              | 
    |              | 
  }
  From:  (8, 9)  {
    |              | 
    ([ 7, 9]  0.001216) 
    |              | 
    ([ 9, 9]  0.000866) 
    |              | 
  }
  From:  (9, 1)  {
    |              | 
    ([ 8, 1]  0.001992) 
    ([ 9, 1]  0.001837) 
    ([ 1, 1]  0.000398) 
    |              | 
  }
  From:  (9, 2)  {
    ([ 7, 2]  0.001379) 
    ([ 8, 2]  0.000638) 
    ([ 9, 2]  0.001603) 
    ([ 1, 2]  0.000778) 
    ([ 2, 2]  0.000783) 
  }
  From:  (9, 3)  {
    |              | 
    |              | 
    ([ 9, 3]  0.001777) 
    |              | 
    ([ 2, 3]  0.000743) 
  }
  From:  (9, 4)  {
    ([ 7, 4]  0.000156) 
    ([ 8, 4]  0.001209) 
    ([ 9, 4]  0.000765) 
    ([ 1, 4]  0.001742) 
    ([ 2, 4]  0.000304) 
  }
  From:  (9, 5)  {
    ([ 7, 5]  0.001284) 
    |              | 
    |              | 
    ([ 1, 5]  0.001015) 
    |              | 
  }
  From:  (9, 6)  {
    ([ 7, 6]  0.000804) 
    ([ 8, 6]  0.000053) 
    ([ 9, 6]  0.000557) 
    |              | 
    ([ 2, 6]  0.000877) 
  }
  From:  (9, 7)  {
    ([ 7, 7]  0.000255) 
    ([ 8, 7]  0.000630) 
    ([ 9, 7]  0.000450) 
    |              | 
    ([ 2, 7]  0.001009) 
  }
  From:  (9, 8)  {
    ([ 7, 8]  0.000214) 
    ([ 8, 8]  0.000815) 
    ([ 9, 8]  0.001896) 
    |              | 
    ([ 2, 8]  0.000257) 
  }
  From:  (9, 9)  {
    |              | 
    ([ 8, 9]  0.000874) 
    ([ 9, 9]  0.001749) 
    |              | 
    ([ 2, 9]  0.000819) 
  }
}

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