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
Jung2015_m87154866_biggraphs brain 1827240 203324000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87155682_biggraphs brain 1827240 205330000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87156130_biggraphs brain 1827240 233932000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87156203_biggraphs brain 1827240 143168000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87157297_biggraphs brain 1827240 55847200 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87157498_biggraphs brain 1827240 76031100 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87158173_biggraphs brain 1827240 56658900 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87158231_biggraphs brain 1827240 76749400 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87158449_biggraphs brain 1827240 239791000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87159087_biggraphs brain 1827240 44505300 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87160751_biggraphs brain 1827240 196114000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87161109_biggraphs brain 1827240 124600000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87161486_biggraphs brain 1827240 76254200 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87163341_biggraphs brain 1827240 227161000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87163574_biggraphs brain 1827240 177679000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87164029_biggraphs brain 1827240 57838200 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87164724_biggraphs brain 1827240 57457100 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87165803_biggraphs brain 1827240 220043000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87166423_biggraphs brain 1827240 188813000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87167070_biggraphs brain 1827240 182988000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87167546_biggraphs brain 1827240 103751000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87167734_biggraphs brain 1827240 123212000 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87167831_biggraphs brain 1827240 62490400 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87167890_biggraphs brain 1827240 52180800 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
Jung2015_m87168419_biggraphs brain 1827240 41153300 DOI, ecount, vcount, region, source, Atlas_MNI152_T1_1mm_brain_incremented_index, sensor spatial_id weight Magnetic Resonance — openconnecto.me
  • Page 20 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