Database Links

AIDS Vaccine Advocacy Coalition (AVAC) is an international nonprofit organization devoted to the "ethical development and eventual global delivery of AIDS vaccines and other new HIV prevention options." Although the AVAC website largely reflects an advocacy audience and approach, it does offer several unique research-oriented resources and tools. Research summaries, information on ongoing and completed clinical trials, and factsheets are provided for a variety of HIV prevention topics (including vaccines, pre-exposure prophylaxis, microbicides, and male circumcision). Other useful features include an interactive map, which allows users to click on countries around the world to identify current HIV prevention trials, and a timeline of expected results from prevention trials. Another helpful research tool is the Clinical Trial Site Capacity Database, which provides "a comprehensive inventory of microbicide [and other prevention strategy] clinical trial sites' clinical, laboratory, and staffing capacity" to maximize efficient site use. Additional site content includes AVAC reports, newsletters, educational materials, and project news.

From the AluHunter website: AluHunter is a suite of computer programs that automate the task of finding potentially polymorphic Alu elements for use in primate phylogenetics.

From the Ambrose Monell Collection for Molecular and Microbial Research website: The mission of the Ambrose Monell Cryo Collection (AMCC) is to provide an accessible repository of frozen tissue specimens, collected and maintained under rigorously controlled conditions. In a time of massive species loss, such efforts are essential in order to preserve as comprehensive a record as possible of the earth's biodiversity.

AnAge is a database of aging and life history in animals and includes extensive longevity records. Searching and browsing in AnAge can be performed by keyword searches or phrases relating to the species or common name of the organism. AnAge entries contain information on classification; lifespan, aging, and relevant traits; life history traits; and metabolism. Data references used for AnAge are displayed, along with links to external resources.

The Animal Legal and Historical Center at Michigan State University's College of Law provides a comprehensive repository of information about state animal laws. The website provides several search options: by state, topic, subject, and animal species. A search option for world law is also available for users. A map feature is also available for users to view state laws by topic.

The Database on Refinement of Housing and Handling Conditions and Environmental Enrichment for Animals Kept in Laboratories is a resource which covers rodents, rabbits, cats, dogs, ferrets, farm animals, horses, birds, fish, amphibians, and reptiles in the laboratory setting and offers information on refinement and environmental enrichment. The database is free and searchable by citation, full text articles, and keywords.

The Ape Populations, Environments, and Surveys (A.P.E.S.) Database, developed by the Max Planck Institute for Evolutionary Anthropology with a wide range of collaborators, is an online database that lists all known and supposed locations where apes can be found in Africa. A linked wiki allows browsing of sites by region, while an available PDF lists countries. The site also has an extensive list of citations and references, downloadable reports, policies, and factsheets, and newsletters in both French and English. A forum and FAQ allow for troubleshooting and questions, while interactive maps of Africa and Asia allow users to browse through the surveys by species and region. Extensive information on the ape population surveys referenced for the database are available.

The Autism Tissue Program (ATP) Informatics Portal is used to provide researchers a gateway to access autism brain tissue information and data. The portal functions to allow researchers to submit tissue applications to the ATP, track tissue application reviews and project proposal information, and to submit data. Researchers interested in requesting tissues must apply for access.

From the BioGRID website: The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans (thebiogrid.org). BioGRID currently holds over 500,000 interactions curated from both high-throughput datasets and individual focused studies, as derived from over 30 000 publications in the primary literature. Complete coverage of the entire literature is maintained for budding yeast (S. cerevisiae), fission yeast (S. pombe) and thale cress (A. thaliana), and efforts to expand curation across multiple metazoan species are underway. Current curation drives are focused on particular areas of biology to enable insights into conserved networks and pathways that are relevant to human health. The BioGRID 3.1 web interface contains new search and display features that enable rapid queries across multiple data types and sources. BioGRID provides interaction data to several model organism databases, resources such as Entrez-Gene, SGD, TAIR, FlyBase and other interaction meta-databases. The entire BioGRID 3.1 data collection may be downloaded in multiple file formats, including IMEx compatible PSI MI XML. For developers, BioGRID interactions are also available via a REST based Web Service and Cytoscape plugin. All BioGRID documentation is available online in the BioGRID Wiki.

Biosci Register is a manual compilation of biotechnology and life sciences suppliers enabling buyers to easily source manufacturers of biotechnology equipment for cell biology, cell culture, genomics, proteomics and more. The site includes new projects, free magazines, jobs, news and events.

The Brain and Body Mass of Mammals Database is a curated database of brain and body mass from 1,998 mammalian species compiled from the literature and containing new measurements of brain masses obtained by Chet Sherwood. Users can search or browse through information contained in the database.

From BrainMaps.org: "BrainMaps.org is an interactive multiresolution next-generation brain atlas that is based on over 20 million megapixels of sub-micron resolution, annotated, scanned images of serial sections of both primate and non-primate brains and that is integrated with a high-speed database for querying and retrieving data about brain structure and function over the internet. Currently featured are complete brain atlas datasets for various species, including Macaca mulatta, Chlorocebus aethiops, Felis catus, Mus musculus, Rattus norvegicus, and Tyto alba."

The Helicobacter group Database was created through the Human Microbiome Project which sequenced 1,000 microbial genomes as one of its goals. The sequencing data for the Helicobacter group is free and available for download from the website and provides a valuable resource for the scientific community. Sequences in the database may be downloaded through a ZIP or GZ file.

The West Nile Virus Portal is a project funded by the National Institute of Allergy and Infectious Diseases (NIAID) and hosted by the Broad Institute. Users can find information related to the West Nile Virus available for free to the research population. The West Nile Virus Portal includes links to research projects, and access to genomic datasets and individual sequences. Users can also search for specific sequences or epitopes for viral samples collected by scientists at the Broad Institute.

The CCAC (Canadian Council on Animal Care) Reference database provides citations, abstracts, and reference web links (if available) for references relating to the ethical use and care of animals used in science.

The Carcinogenic Potency Database (CPDB) provides users with a resource which contains the results of "6540 chronic, long-term animal cancer tests on 1547 chemicals." The database provides "easy access to the bioassay literature, with qualitative and quantitative analyses of both positive and negative experiments that have been published over the past 50 years in the general literature through 2001 and by the National Cancer Institute/National Toxicology Program through 2004." Results in the CPDB are reported for tests in rats, mice, hamsters, dogs, and nonhuman primates.

The Find TB Resources Website provides access to information and resource materials for health departments, lung associations, health care workers, patients and the general public about TB. Materials on the website may be searched by publisher, topic, target audience, language, and format.

From the website of the Chinese Macaque SNP GBrowse: The Chinese Macaque SNP (CMSNP) database was developed by the Kunming Institute of Zoology (KIZ), the Beijing Genomics Institute at Shenzhen (BGI-Shenzhen), Chinese Academy of Sciences (CAS). The data is illustrated in GBrowse, which is developed under the GMOD database. Each SNP is annotated as CMSNP plus a number. The chromosomal distribution of the SNPs in Chinese macaque is displayed by the pie chart. As the first nonhuman primate genome-wide sequence variation database, the purpose of CMSNP is to organize and present the rhesus macaque sequence variation data, which is a useful resource for genomic and medical research.

The Hamann-Todd Non-Human Primates Collection is located at the Cleveland Museum of Natural History and contains 1216 specimens. 967 of these specimens are represented by cranial and postcranial skeletal remains. A downloadable database is available on the website. Information in the database contains the following on each specimen: specimen number, genus, species, age grade (infant, juvenile, adult), sex, if postcranial and/or skull is available, and collection locality.

This is a registry of federally and privately funded clinical trials conducted in the US and throughout the world. Entries provide detailed information regarding a trial's purpose, outcome measures, patient eligibility, interventions, contacts, and locations. Database searches can be narrowed by disease/condition, drug intervention, sponsor, and trial location. The site also includes good background information on clinical trials for consumers. Instructions for investigators wishing to register trials on the website are provided.

The CoCoMac (Collations of Connectivity Data on the Macaque Brain) database is "a source for the most comprehensive, systematic and detailed collation of published data from mapping and tracing experiments in the macaque brain." Users can search and browse for information in CoCoMac three ways: searching by Connectivity, Mapping, or Literature. Searches can be performed by typing in a brain region, keyword or selecting terms from a list. A quick start guide is provided for CoCoMac users. Users must register for a free account in order to access CoCoMac.

The Center for the Multiscale Analysis of Genomic and Cellular Networks (MAGNet) is one of eight National Centers for Biomedical Computing (NCBC) and one of twelve inter-disciplinary Centers for Cancer Systems Biology (CCSB). MAGNet aims to "develop novel Structural and Systems Biology methods and tools for the dissection of molecular interactions in the cell and for the interaction-based elucidation of cellular phenotypes." Tools developed by MAGNet are freely available to members of the research community.

The Comprehensive Microbial Resource (CMR) is a free website used to display information on all of the publicly available, complete prokaryotic genomes. In addition to the convenience of having all of the organisms on a single website, common data types across all genomes in the CMR make searches more meaningful, and cross genome analysis highlight differences and similarities between the genomes.

"Necropsy Show and Tell" is a collection of 35mm slide images of animal necropsy specimens collected by Dr. John M. King at the Cornell College of Veterinary Medicine. The slide collections consists of images collected over the past 30 years. Selected images have been scanned into a computer and cataloged. Necropsy images can be searched several ways: keyword search; simple search; or advanced search. A link to a table of contents is available for users who want to browse through the image collection.