v2.0 - Released: 05/24/2023
528,945 Pieces of Knowledge (PoK) & 46,292 Pieces of Evidence (PoE)

The Hippocampome is a curated knowledge base of the circuitry of the hippocampus of normal adult, or adolescent, rodents at the mesoscopic level of neuronal types. Knowledge concerning dentate gyrus, CA3, CA2, CA1, subiculum, and entorhinal cortex is distilled from published evidence and is continuously updated as new information becomes available. Each reported neuronal property is documented with a pointer to, and excerpt from, relevant published evidence, such as citation quotes or illustrations.

The goal of the Hippocampome is dense coverage of available data characterizing neuronal types. The Hippocampome is a public and free resource for the neuroscience community, and the knowledge is presented for user-friendly browsing and searching and for machine-readable downloading.

If you have feedback on either functionality or content, or if you would like to be informed when the first official version is released, please fill out the feedback form or email us at Hippocampome.org@gmail.com.

The release of v1.0 on 09/23/2015 includes 3,697 PoK and 13,888 PoE. Reference: Wheeler et al., 2015. Hippocampome.org: A knowledge base of neuron types in the rodent hippocampus. eLife 2015;4:e09960.

The release of v1.1 on 10/17/2016 includes 3,697 PoK, 13,888 PoE, and the Neuron Term Portal, which allows one to view definitions for terms and phrases used on this website. Reference: Hamilton et al., 2016 Name-calling in the hippocampus (and beyond): coming to terms with neuron types and properties. Brain Informatics 2017 Mar;4(1):1-12; doi:10.1007/s40708-016-0053-3.

The release of v1.2 on 11/06/2016 includes 3,936 PoK, 14,399 PoE, and a clickable Connectivity Matrix, an interactive Connectivity Navigator, and the ability to Search by Connectivity. Reference: Rees et al., 2016 Graph theoretic and motif analyses of the hippocampal neuron type potential connectome. eNeuro Nov 2016, ENEURO.0205-16.2016; DOI: 10.1523/ENEURO.0205-16.2016.

The release of v1.3 on 06/30/2017 includes 10,822 PoK, 21,285 PoE, and a downloadable list of Allen Brain Atlas (ABA) predictions of marker expressions and a utility for viewing the effects of thresholds on ABA marker expression predictions. Reference: Hamilton et al., 2017 Molecular fingerprinting of principal neurons in the rodent hippocampus: a neuroinformatics approach. Journal of Pharmaceutical and Biomedical Analysis 2017 Sep 10;144:269-278; doi: 10.1016/j.jpba.2017.03.062.

The release of v1.4 on 08/15/2019 includes an additional 7,946 PoK, 8,486 PoE, and the ability to access the Synapse Knowledge Base. Reference: Moradi and Ascoli, 2019 A comprehensive knowledge base of synaptic electrophysiology in the rodent hippocampal formation. Hippocampus 2020 Apr;30(4):314-331; doi: https://doi.org/10.1002/hipo.23148.

The release of v1.5 on 09/06/2019 includes an additional 830 PoK, 77 PoE, and relational expression inferences in the knowledge base. Reference: White, et al., 2019 Molecular Expression Profiles of Morphologically Defined Hippocampal Neuron Types: Empirical Evidence and Relational Inferences. Hippocampus 2020 May;30(5):472-487; doi: 10.1002/hipo.23165.

The release of v1.6 on 09/20/2019 includes an additional 3,640 PoK, 187 PoE, and firing pattern phenotypes in the knowledge base. Reference: Komendantov, et al., 2019 Quantitative firing pattern phenotyping of hippocampal neuron type. Scientific Reports 2019 Nov 29;9(1):17915; doi: 10.1038/s41598-019-52611-w.

The release of v1.7 on 10/08/2019 includes Izhikevich models for most of the neuron types, downloadable parameter and CARLSim4-simulation files, and the ability to perform simulations of the firing patterns. Reference: Venkadesh, et al., 2019 Simple models of quantitative firing phenotypes in hippocampal neurons: comprehensive coverage of intrinsic diversity. PLOS Computational Biology 2019 Oct 28;15(10):e1007462; doi: 10.1371/journal.pcbi.1007462.

The release of v1.8 on 12/28/2020 includes an additional 5,152 PoK, 6,055 PoE, and new browsable matrices for neurite lengths, somatic path distances, numbers of potential synapses, numbers of contacts, and connection probabilities. Reference: Tecuatl, et al., 2020 Comprehensive estimates of potential synaptic connections in local circuits of the rodent hippocampal formation by axonal-dendritic overlap. Journal of Neuroscience 2021 Feb 24;41(8):1665-1683; doi: 10.1523/JNEUROSCI.1193-20.2020.

The release of v1.9 on 02/27/2021 includes an additional 91 PoK, 768 PoE, and a new browsable matrix for in vivo recordings. Reference: Sanchez-Aguilera, et al., 2021 An update to Hippocampome.org by integrating single-cell phenotypes with circuit function in vivo. PLoS Biology 2021 May 6;19(5):e3001213; doi: 10.1371/journal.pbio.3001213.

The release of v1.10 on 08/03/2021 includes the Cognome, a literature review and knowledge base of spiking neural circuit and network simulations of the hippocampal formation. Reference: Sutton and Ascoli, 2021 Spiking neural networks and hippocampal function: A web-accessible survey of simulations, modeling methods, and underlying theories. Cognitive Systems Research 2021 70:80-92. doi: 10.1016/j.cogsys.2021.07.008.

The release of v1.11 on 03/01/2022 includes 121 PoK, 651 PoE, and a new browsable matrix of neuron type census values for rat and mouse. Reference: Attili et al., 2022 Quantification of neuron types in the rodent hippocampal formation by data mining and numerical optimization. European Journal of Neuroscience 2022 55:1724-1741. doi: 10.1111/ejn.15639.

The release of v1.12 on 05/05/2022 includes 499,200 PoK, 8,495 PoE, and new browsable matrices of synaptic physiology parameter values for combinations of species, sex, age, temperature, and recording mode. Reference: Moradi et al., 2022 Normalized unitary synaptic signaling of the hippocampus and entorhinal cortex predicted by deep learning of experimental recordings. Communications Biology 2022 5(418):1-19. doi: 10.1038/s42003-022-03329-5.

*NEW* The release of v2.0 on 05/24/2023 includes 1,143 PoK, 288 PoE, and a new GUI for selecting neuron types for running spiking neural network simulations. Reference: Wheeler et al., 2023 Hippocampome.org v2.0: a knowledge base enabling data-driven spiking neural network simulations of rodent hippocampal circuits. bioRxiv. doi: 10.1101/2023.05.12.540597.

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528,945 Pieces of Knowledge (PoK) and 46,292 Pieces of Evidence (PoE)

Last Update: 24 Apr 2024 (v2.0 R 1A)