Wiki » History » Version 12
Chaitanya Chintaluri, 30 Apr 2014 14:57
| 1 | 1 | Padraig Gleeson | Neocortical models in the Open Source Brain repository |
|---|---|---|---|
| 2 | 4 | Padraig Gleeson | ------------------------------------------------------ |
| 3 | 1 | Padraig Gleeson | |
| 4 | 7 | Chaitanya Chintaluri | ### Introduction |
| 5 | 7 | Chaitanya Chintaluri | |
| 6 | 10 | Padraig Gleeson | This page will be updated during the [2013 OSB Hackathon](http://www.opensourcebrain.org/projects/osb/wiki/Meetings). |
| 7 | 10 | Padraig Gleeson | |
| 8 | 10 | Padraig Gleeson | See also the page on [[Priorities]]. |
| 9 | 7 | Chaitanya Chintaluri | |
| 10 | 8 | Chaitanya Chintaluri | ### Cell models |
| 11 | 1 | Padraig Gleeson | |
| 12 | 8 | Chaitanya Chintaluri | #### Individual cell models |
| 13 | 1 | Padraig Gleeson | |
| 14 | 8 | Chaitanya Chintaluri | ##### Generic cortical pyramidal cell |
| 15 | 1 | Padraig Gleeson | |
| 16 | 9 | Chaitanya Chintaluri | [Pyramidal cells review](http://www.nature.com/nrn/journal/v9/n3/full/nrn2286.html) by Nelson Spruston |
| 17 | 9 | Chaitanya Chintaluri | |
| 18 | 4 | Padraig Gleeson | project:pospischiletal2008 (single compartment, conductance based; Regular Spiking (RS) neurons & Intrinsically Bursting (IB) neurons) |
| 19 | 4 | Padraig Gleeson | project:acnet2 is a network model of the thalamorecipient layer (IV) of primary auditory cortex (AI), and consists of 2 populations, pyramidal cells and basket cell interneurons. |
| 20 | 4 | Padraig Gleeson | project:piriformcortexvanier |
| 21 | 4 | Padraig Gleeson | |
| 22 | 8 | Chaitanya Chintaluri | ##### Layer 2/3 Pyramidal cell |
| 23 | 4 | Padraig Gleeson | |
| 24 | 1 | Padraig Gleeson | project:thalamocortical (Fast Regular Bursting & Regular Spiking) |
| 25 | 3 | Padraig Gleeson | |
| 26 | 8 | Chaitanya Chintaluri | ##### Layer 4 Spiny Stellate cell |
| 27 | 1 | Padraig Gleeson | |
| 28 | 1 | Padraig Gleeson | project:thalamocortical |
| 29 | 2 | Padraig Gleeson | |
| 30 | 8 | Chaitanya Chintaluri | ##### Layer 5 Pyramidal cell |
| 31 | 1 | Padraig Gleeson | |
| 32 | 4 | Padraig Gleeson | project:mainenetalpyramidalcell: |
| 33 | 3 | Padraig Gleeson | project:rothmanetalkoleetalpyrcell |
| 34 | 1 | Padraig Gleeson | project:thalamocortical (Intrinsically bursting & Regular Spiking) |
| 35 | 4 | Padraig Gleeson | project:l5bpyrcellhayetal2011 |
| 36 | 1 | Padraig Gleeson | |
| 37 | 5 | Padraig Gleeson | There is a \*dedicated page on modelling L5 cells [here](/projects/l5pyramidalcellmodels/wiki*). |
| 38 | 5 | Padraig Gleeson | |
| 39 | 8 | Chaitanya Chintaluri | ##### Layer 6 Pyramidal cell |
| 40 | 3 | Padraig Gleeson | |
| 41 | 1 | Padraig Gleeson | project:thalamocortical |
| 42 | 1 | Padraig Gleeson | |
| 43 | 8 | Chaitanya Chintaluri | ##### Interneurons |
| 44 | 1 | Padraig Gleeson | |
| 45 | 1 | Padraig Gleeson | project:thalamocortical (Superficial & Deep Basket, Axo-axonic & LTS interneurons) |
| 46 | 1 | Padraig Gleeson | project:acnet2 is a network model of the thalamorecipient layer (IV) of primary auditory cortex (AI), and consists of 2 populations, pyramidal cells and basket cell interneurons. |
| 47 | 1 | Padraig Gleeson | project:pospischiletal2008 (Fast Spiking (FS) neurons) |
| 48 | 1 | Padraig Gleeson | |
| 49 | 8 | Chaitanya Chintaluri | #### Channel Properties |
| 50 | 8 | Chaitanya Chintaluri | |
| 51 | 8 | Chaitanya Chintaluri | #### Morphology |
| 52 | 8 | Chaitanya Chintaluri | |
| 53 | 8 | Chaitanya Chintaluri | #### Nomenclature |
| 54 | 8 | Chaitanya Chintaluri | |
| 55 | 8 | Chaitanya Chintaluri | It is important to have a consistent naming in the models of the cells and channels. Although these are not currently adopted, they are advised. A standard naming helps in making models interchangeable and easily testable. There is no consensus yet on naming of individual compartments in a cell model. [Discuss] |
| 56 | 8 | Chaitanya Chintaluri | |
| 57 | 8 | Chaitanya Chintaluri | [Petilla terminology](http://www.ncbi.nlm.nih.gov/pubmed/18568015) for nomenclature of features of GABAergic interneurons of the cerebral cortex. |
| 58 | 8 | Chaitanya Chintaluri | |
| 59 | 8 | Chaitanya Chintaluri | [Channelpedia](http://channelpedia.epfl.ch/ionchannels) For ion channel names. |
| 60 | 8 | Chaitanya Chintaluri | |
| 61 | 1 | Padraig Gleeson | ### Network models |
| 62 | 4 | Padraig Gleeson | |
| 63 | 1 | Padraig Gleeson | #### Abstract cortical networks |
| 64 | 1 | Padraig Gleeson | |
| 65 | 2 | Padraig Gleeson | project:izhikevichmodel |
| 66 | 4 | Padraig Gleeson | project:vogelsetal2011 |
| 67 | 4 | Padraig Gleeson | project:destexhe\_jcns\_2009 |
| 68 | 4 | Padraig Gleeson | project:brunel2000 |
| 69 | 2 | Padraig Gleeson | |
| 70 | 8 | Chaitanya Chintaluri | #### Detailed network models |
| 71 | 2 | Padraig Gleeson | |
| 72 | 1 | Padraig Gleeson | project:thalamocortical |
| 73 | 8 | Chaitanya Chintaluri | project:acnet2 |
| 74 | 6 | Padraig Gleeson | See the page on [[Modelling the thalamocortical loop]] |