celegans_development — C. elegans brain across development (2021)

Description

Connectomes of the brain (the nerve ring and ventral ganglion) of eight isogenic hermaphrodite nematodes Caenorhabditis elegans of different ages, from birth to adulthood, reconstructed by D. Witvliet and collaborators from serial-section electron microscopy images. Nodes are cells: neurons, as well as the body wall muscles and glia that they contact in the volume. Edges are either chemical synapses (directed, from the presynaptic to the postsynaptic cell) or gap junctions (electrical synapses, undirected).

There are sixteen networks, named <stage>_<connection type>, one for each animal and connection type (chemical, gap_junction). The animals are, by developmental stage and approximate age (hours after birth, at 25°C, estimated from the cell division pattern):

• L1_1, L1_2, L1_3, L1_4: first larval stage, at 0, 5, 8 and 16 hours.
• L2: second larval stage, at 23 hours.
• L3: third larval stage, at 27 hours.
• adult_1, adult_2: young adults, at about 45 to 50 hours (their exact ages are uncertain).

The nodes of both networks of an animal are all the cells that make any connection in that animal, so that cells without connections of a given type are isolated nodes. Self-loops are synapses of a cell onto itself, as recorded in the data.

The networks have the following properties:

• name: the name of the cell (e.g. AVAL, BWM-DL01 for body wall muscles).
• synapses (edges): the number of synapses between the two cells.

Tags

Biological Connectome Weighted

Citation

• D. Witvliet et al., "Connectomes across development reveal principles of brain maturation." Nature 596, 257-261 (2021) 10.1038/s41586-021-03778-8 Sci-Hub

Upstream URL OK

https://wormwiring.org/pages/witvliet.html
https://nemanode.org

Networks

Tip: click on a column header to sort the list, or hover over it for a description.

Column legend

$\left<k\right>$

Mean degree

$\sigma_k$

Standard deviation of the degrees

$\lambda_h$

Largest eigenvalue of the Hashimoto (non-backtracking) matrix

$\tau$

Random walk mixing time

$r$

Degree assortativity

$c$

Global clustering coefficient

$\oslash$

(Pseudo-) diameter

$S$

Relative size of the largest component

NPs

Node properties

EPs

Edge properties

Show all columns

Name	Nodes	Edges	$\left<k\right>$	$\sigma_k$	$\lambda_h$	$\tau$	$r$	$c$	$\oslash$	$S$	Kind	Mode	NPs	EPs	gt	GraphML	GML	csv
L1_1_chemical	187	775	4.14	5.66	10.33	8.40	0.15	0.17	8	1.00	Directed	Unipartite	name	synapses	5 KiB	8 KiB	8 KiB	6 KiB
L1_1_gap_junction	187	83	0.89	1.26	2.00	20.87	0.08	0.02	8	0.15	Undirected	Unipartite	name	synapses	4 KiB	6 KiB	6 KiB	5 KiB
L1_2_chemical	194	986	5.08	6.82	12.53	6.19	0.11	0.19	6	0.99	Directed	Unipartite	name	synapses	6 KiB	9 KiB	8 KiB	7 KiB
L1_2_gap_junction	194	124	1.28	1.67	2.88	59.15	0.18	0.07	15	0.44	Undirected	Unipartite	name	synapses	4 KiB	6 KiB	6 KiB	5 KiB
L1_3_chemical	198	1,012	5.11	6.95	12.44	6.70	0.09	0.19	6	1.00	Directed	Unipartite	name	synapses	6 KiB	9 KiB	9 KiB	7 KiB
L1_3_gap_junction	198	94	0.95	1.34	2.49	51.23	0.16	0.08	13	0.31	Undirected	Unipartite	name	synapses	4 KiB	6 KiB	6 KiB	5 KiB
L1_4_chemical	204	1,136	5.57	7.40	13.78	5.59	0.14	0.21	5	1.00	Directed	Unipartite	name	synapses	6 KiB	10 KiB	9 KiB	8 KiB
L1_4_gap_junction	204	209	2.05	2.55	4.76	64.35	0.03	0.12	13	0.54	Undirected	Unipartite	name	synapses	5 KiB	7 KiB	6 KiB	5 KiB
L2_chemical	211	1,515	7.18	8.71	16.63	5.12	0.08	0.23	5	1.00	Directed	Unipartite	name	synapses	7 KiB	11 KiB	11 KiB	9 KiB
L2_gap_junction	211	292	2.77	3.01	5.42	28.40	-0.06	0.13	9	0.72	Undirected	Unipartite	name	synapses	5 KiB	7 KiB	7 KiB	5 KiB
L3_chemical	216	1,525	7.06	8.98	16.79	4.90	0.05	0.22	5	1.00	Directed	Unipartite	name	synapses	7 KiB	11 KiB	11 KiB	9 KiB
L3_gap_junction	216	214	1.98	2.16	3.36	48.49	-0.12	0.11	12	0.64	Undirected	Unipartite	name	synapses	5 KiB	7 KiB	7 KiB	6 KiB
adult_1_chemical	222	2,202	9.92	11.53	22.24	4.47	0.06	0.25	5	1.00	Directed	Unipartite	name	synapses	8 KiB	14 KiB	13 KiB	11 KiB
adult_1_gap_junction	222	291	2.62	2.49	4.79	42.08	0.17	0.16	14	0.73	Undirected	Unipartite	name	synapses	5 KiB	8 KiB	7 KiB	6 KiB
adult_2_chemical	219	2,186	9.98	11.24	21.90	4.27	0.09	0.26	5	1.00	Directed	Unipartite	name	synapses	8 KiB	14 KiB	13 KiB	11 KiB
adult_2_gap_junction	219	310	2.83	3.19	5.70	17.98	0.03	0.11	10	0.70	Undirected	Unipartite	name	synapses	5 KiB	7 KiB	7 KiB	6 KiB

Ridiculograms^*

^* These are automatically generated force-directed visualizations, and can be quite meaningless for networks both big and small. They should not be taken seriously as sources of scientific insight. See here for a discussion.