The LM-Database home page provides a tab with Pathway links for public databases showing the LM molecule in dynamic graphical models. It is structured as follows: in the menu bar, the rational for the database is presented with tabs sub-divided into LMs, receptors, extracellular LM-binding proteins and other related proteins. Each tab opens into a given molecule (e.g. LM-111). When clicking onto the specific protein, the reader finds a series of further tabs for the protein, gene structure, gene expression and tissue distribution, as well as therapy. Data are separated as a function of species.
Part of the data inserted for each molecule, is carefully curated and annotated. In this respect, all links manually annotated will be periodically updated.
Furthermore, there is a direct link to PubMed, which can be then consulted in a specific way, in terms of the biological functions of the given molecule, knockout animals and genetic diseases, immune response (further filtered as B cells, T cells, autoimmune diseases and Inflammation) and lymphomas/leukemias. The last tab refers to results generated in the context of the research consortium. Lastly, in the database project overview, there is a tutorial (help) to guide the reader, so that to facilitate retrieval of information within the database.
The LM-database was created in the context of a multicentric project dealing with LM in the hemopoietic system. Accordingly, the research groups involved have generated and will generate significant amount of data that will be part of the database. To highlight this issue, in addition to the subjects listed above, there is one in which references derived from the research consortium are available, as PMIDs, which in turn are directly linked to the abstract found in the PubMed database.
In a second vein, we found potentially useful for the readers that in the main menu of the website, they can have access to the corresponding Brazilian Laboratories and respective researchers. Also, there is a direct contact link to the official Email address to be used by any reader that intends to get any specific information and/or provide new ideas or criticism on the structure and functioning of the database.
Since there have been different names for various LMs, we added a specific tab in the main menu in which the reader can have direct access to the previous and the present LM nomenclature, as well as other names originally provided for some of the isoforms.
In the main menu, we can also access a number of links related to Biocarta and Kegg databases. These links will provide summarizing data on metabolic pathways; most of them being triggered by LM ligation on the cell surface.
As stated above, the LM-database appears in the context of a research network on LM and hemopoietic system, with new information being generated. For that, in a restricted area, the database will be also used for sharing information of ongoing research being done in each Laboratory. Nevertheless, once scientific articles are accepted for publication and appear in the PubMed, the corresponding PMIDs will be made immediately accessible to the readers.
) library and the Catalyst framework (http://www.catalystframework.org
). The scripts that carry out the search and import of data are run periodically to the database and are kept updated. A restricted access interface on the web site is available for the insertion of the manually curated information. Lastly, the LM-database is hosted at http://www.lm.lncc.br
and is freely accessible.