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Database of Synaptic Connectivity of C. elegans
for Computation

K. Oshio, Y. Iwasaki, S. Morita, Y. Osana, S. Gomi,
E. Akiyama, K. Omata, K. Oka and K. Kawamura

Technical Report of CCeP, Keio Future, No.3,
Keio University (2003)

  • PREFACE: Historical background of this database

  • DOWNLOAD: Archives of the data files are available for Macintosh, UNIX and Windows

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This database describes the synaptic connectivity of C. elegans, and is the revision of the previous database (Oshio et al., 1998). Sources of data are figures and tables in the two papers (Albertson and Thomson, 1976; White et al., 1986). Albertson and Thomson have described the synaptic connectivity among neurons in the pharynx while White et al. have described that in the somatic nervous system except the pharynx. All those data are compiled in this database. It consists of three parts each of which is equivalent to figures in the paper of Albertson and Thomson, figures in the paper of White et al. and tables in the same paper, respectively.
The database is constructed by CCeP[*] under the following policies.
  • There should be one-to-one correspondence between information provided by the original papers and that described in various files in the database.
  • The database should provide necessary information so that everybody can reconstruct the illustration in the original papers up to topology.
  • The database should provide sufficient information for any user to edit their own data file according to their peculiar request.
According to the policy (b), the geometrical information about the synapses depicted in the original papers is incorporated in the database. Although several ambiguous or questionable descriptions have been found in the original papers, we have not corrected those description. Therefore the present data are just the same as those in the original papers. Instead of correction, the policy (c) is employed. The policy (c) is realized in the comment index to point out ambiguous or questionable description in the original paper. We leave users to decide how to treat those ambiguous or questionable description.

[*] CCeP (Cybernetic Caenorhabditis elegans Program) was supported by Research for the Future Program from the Japan Society for the Promotion of Science (JSPS-RFTF 96I00102).

  1. Albertson, D. G. and Thomson, J. N. (1976). "The Pharynx of Caenorhabditis elegans", Phil. Trans. R. Soc. London, B 275, 299-325.
  2. Oshio, K., Morita, S., Osana, Y., and Oka, K. (1998). "C. elegans synaptic connectivity data", Technical Report of CCeP, Keio Future, No.1, Keio University.
  3. White, J. G., Southgate, E., Thomson J. N., and Brenner, S. (1986). "The Structure of the Nervous System of the Nematode Caenorhabditis elegans", Phil. Trans. R. Soc. London, B 314, 1-340.

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