NeuroData's Graph DataBase

Lowering the barrier to entry for scalable neuroscience

Biologically derived graphs

Thanks to all who provided the raw data from which we derived these graphs. Every graph is annotated with a source attribute that denotes its origin.
Graphs are provided by default in graphML format. This is the only format that supports iterable attributes.
Consider using the graph conversion api for post-download conversion. Examples of how to load graphs using igraph can be found here.
Downloaded zip files must be unzipped using Linux unzip.

All data here can also be acquired directly from http://openconnecto.me/mrdata/static/graphs/.

Cat

Download url region # Nodes # Edges Graph Attrs Node Attrs Edge Attrs sensor project Source host url
Mixed.species_brain_1 brain 65 1139 source, region, DOI, sensor id Tract tracing studies www.jneurosci.org
  • 1 graph download model

Fly

Download url region # Nodes # Edges Graph Attrs Node Attrs Edge Attrs sensor project Source host url
Drosophila_medulla_1 medulla 1781 33641 info, source, region, DOI, sensor name, id post.z, post.x, post.y, pre.x, pre.y, pre.z, proofreading.details Electron Microscopy www.nature.com
  • 1 graph download model

Human

For a data description of the brain graph attributes click here.

Download url region # Nodes # Edges Graph Attrs Node Attrs Edge Attrs sensor project Source host url
Swu4_0025677_2_dti_aal 116 1263 date, website, version, name id weight
Swu4_0025678_1_dti_aal 116 1433 date, website, version, name id weight
Swu4_0025678_2_dti_aal 116 1482 date, website, version, name id weight
Swu4_0025679_1_dti_aal 116 1597 date, website, version, name id weight
Swu4_0025679_2_dti_aal 116 1519 date, website, version, name id weight
Swu4_0025680_1_dti_aal 116 1449 date, website, version, name id weight
Swu4_0025680_2_dti_aal 116 1551 date, website, version, name id weight
Swu4_0025681_1_dti_aal 116 1582 date, website, version, name id weight
Swu4_0025681_2_dti_aal 116 1176 date, website, version, name id weight
Swu4_0025682_1_dti_aal 116 1433 date, website, version, name id weight
Swu4_0025682_2_dti_aal 116 1512 date, website, version, name id weight
Swu4_0025683_1_dti_aal 116 1469 date, website, version, name id weight
Swu4_0025683_2_dti_aal 116 1595 date, website, version, name id weight
Swu4_0025684_1_dti_aal 116 1618 date, website, version, name id weight
Swu4_0025684_2_dti_aal 116 1677 date, website, version, name id weight
Swu4_0025685_1_dti_aal 116 1533 date, website, version, name id weight
Swu4_0025685_2_dti_aal 116 1495 date, website, version, name id weight
Swu4_0025686_1_dti_aal 116 1378 date, website, version, name id weight
Swu4_0025686_2_dti_aal 116 1354 date, website, version, name id weight
Swu4_0025687_1_dti_aal 116 1166 date, website, version, name id weight
Swu4_0025687_2_dti_aal 116 1320 date, website, version, name id weight
Swu4_0025688_1_dti_aal 116 1494 date, website, version, name id weight
Swu4_0025688_2_dti_aal 116 1553 date, website, version, name id weight
Swu4_0025689_1_dti_aal 116 1434 date, website, version, name id weight
Swu4_0025689_2_dti_aal 116 1145 date, website, version, name id weight
  • Page 58 of 2675
  • 25 of 66853 graph download models

Downsample factor:

Macaque

Download url region # Nodes # Edges Graph Attrs Node Attrs Edge Attrs sensor project Source host url
Rhesus_brain_1 cerebral cortex 242 4090 source, region, DOI, sensor name, id Tract tracing studies www.plosone.org
Rhesus_brain_2 brain 91 628 source, region, DOI, sensor name, id SLN_perc, Dist_mm Retrograde tracer www.core-nets.org
Rhesus_cerebral.cortex_1 cerebral cortex 91 1989 source, region, DOI, sensor name, id CASE, STATUS, BIBLIOGRAPHY, MONKEY, NEURONS, FLNe Retrograde tracer www.core-nets.org
Rhesus_interareal.cortical.network_2 interareal cortical network 93 2667 source, region, DOI, sensor name, id weight Retrograde tracer www.core-nets.org
  • 4 graph download models

Mouse

Download url region # Nodes # Edges Graph Attrs Node Attrs Edge Attrs sensor project Source host url
Mouse_brain_1 brain 213 21807 source, region, DOI, sensor name, id w_contra_weight, pvalue_contra_weight, w_ipsi_weight, pvalue_ipsi_weight Enhanced green fluorescent protein www.nature.com
Mouse_retina_1 retina 1123 577350 source, region, sensor name, designation, macneil_type, certainty, volgyi_type, coarse, y, x, z, id y, x, z, area Electron Microscopy github.com
Kasthuri_graph_v4 1029 1700 id, vid direction, synapse_id
Mouse_visual.cortex_1 cerebral cortex 29 44 info, source, region, DOI, sensor type1, id, type2 weight Electron microscopy www.nature.com
Mouse_visual.cortex_2 cerebral cortex 195 214 info, DOI, region, source, key, sensor type1, id, type2 weight Electron microscopy www.nature.com
  • 5 graph download models

Rat

Download url region # Nodes # Edges Graph Attrs Node Attrs Edge Attrs sensor project Source host url
Rattus.norvegicus_brain_1 brain 503 27667 source, region, sensor name, id weight Neuroanatomical experiments brancusi1.usc.edu
Rattus.norvegicus_brain_2 brain 503 30088 source, region, sensor name, id weight Neuroanatomical experiments brancusi1.usc.edu
Rattus.norvegicus_brain_3 brain 496 33020 source, region, sensor name, id weight Neuroanatomical experiments brancusi1.usc.edu
  • 3 graph download models

Worm

Download url region # Nodes # Edges Graph Attrs Node Attrs Edge Attrs sensor project Source host url
C.elegans_neural.male_1 neural 272 4451 source, region, DOI, sensor name, id electrical_weight, chemical_weight Electron Microscopy www.sciencemag.org
C.elegans.herm_pharynx_1 pharynx 279 3225 info, source, region, sensor name, cell_name, role, cell_class, neurotransmitters, id, soma_pos synapse_type, weight Electron Microscopy github.com
P.pacificus_neural.synaptic_1 neural synaptic 54 511 info, source, region, DOI, sensor name, id synapse.ID Electron Microscopy www.sciencedirect.com
P.pacificus_neural.synaptic_2 neural synaptic 50 611 info, source, region, DOI, sensor name, id synapse.ID Electron Microscopy www.sciencedirect.com
  • 4 graph download models