We are happy to release the new, improved, and intuitive interface of the old BAMS: http://brancusi.usc.edu
The interface and layout were designed to simplify and improve search for information inside BAMS. Several search engines were redesigned, too.
This is the last major update of the old BAMS structure and interface. We'll concentrate our efforts to finish BAMS2, but all data will be available from both sites.
BAMS update: a simple and fast autocomplete search form was added. The form can be used to search for connections of a brain region. The search is by name or abbreviation of the region of interest and the result is the list of regions that receive of send connections to it, ordered by the connection strength.
Example: the outputs of the rat prelimbic cortex (PL) http://brancusi1.usc.edu/search/connections/outputs/?query=PL
We are happy to announce the release of a new batch of collated rat connectivity data. BAMS includes more than 63K neuroanatomical reports, making it the best populated connectivity database. Other updates include changes in the user interface, and of the dynamical connectomes.
The rat cortico-cortical network is populated at 70%.
This release also includes the first functionally relevant network: the connectivity matrix of regions involved in depression and chronic stress in the rat (168 X 168 regions, coverage of about 36%)
We are happy to announce the publication of a new review paper in Frontiers in Neuroinformatics about
methodology of construction, annotation & display of the rat macroconnectomes (brain regions level connectivity matrices). The review includes presentation of the present BAMS rat connectome, comparison with the first version of it (2009), as well as central nervous system preliminary statistics.
The paper is free access and it can be viewed at: http://www.frontiersin.org/Neuroinformatics/10.3389/fninf.2012.00002/abstract
We invite the users to explore the 2011 Rat BAMS Connectome, which is publicly available @ http://brancusi1.usc.edu/connectome/current/ .
Users can view the connectome in an interactive matrix, and download it in different formats: customized PNG, XML, or JSON.
The present rat connectome includes about 26, 000 connectivity reports collated from the literature, out of more 50,000 reports inserted in BAMS. This data covers about 11% from the entire rat CNS matrix, with a size of about 500 X 500 brain regions defined and organized according to the Swanson 2004 atlas.
The RDF serialization of BAMS FMC Thesaurus is available for download: http://brancusi1.usc.edu/thesaurus/
This page includes the description of the structure of the RDF document.
Please refer to BAMS Policies (http://brancusi1.usc.edu/policies/) if this RDF document will be used in any way.
The Foundational Model of Connectivity (FMC) Thesaurus, version 1.0, was made publicly available. Users can browse for terms, their definitions and references, search for information, and add comments to each one of the 300 terms (only registered users).
Direct link to the Thesaurus: http://brancusi1.usc.edu/thesaurus/principles/
BAMS reached the 10.000 landmark for central nervous regions parts (brain regions and fiber tracts). There are 10.002 CNS parts collated in BAMS to date, from 32 neuroanatomical nomenclatures. The latest additions are the medial rostral rat brain regions, nomenclature Krettek & Price.
We are happy to announce the collaboration between Brain Navigator (Elsevier; http://www.brainnav.com) and BAMS. BAMS becomes one of the newest datasources for Elsevier's Brain Navigator. We run services that allow users of Brain Navigator to view rat brain regions information (general information, chemoarchitecture, and neuroanatomical connections) collated in BAMS.
A screen shot example (rat nucleus accumbens) is shown at this URL: http://brancusi.usc.edu/brainnav-bams.jpg
BAMS 2.0 tweeter is enabled. You can link to it at: http://twitter.com/BAMS_tweet
The size of the RDF/OWL 2.0 appears to be too big for some browsers. We recommend downloading it in your personal computers.
Autocomplete of "Brain Parts" field of the Search for Brain Parts form is enabled.
BAMS 2.0 (beta version) is released to the public. We highly encourage users to test this new website and provide feedback. The old BAMS site (http://brancusi.usc.edu/bkms) will continue to be online and publicly accessible until we finish transfer its data and functionality to BAMS 2.0 .