Researcher leads international effort to create 'proteinpedia'

Feb 07, 2008

A researcher at the Johns Hopkins Institute of Genetic Medicine has led the effort to compile to date the largest free resource of experimental information about human proteins. Reporting in the February issue of Nature Biotechnology, the research team describes how all researchers around the world can access this data and speed their own research.

“Advances in technology have made data generation much easier, but processing it and interpreting observations are now the major hurdles in science today,” says Akhilesh Pandey, M.D., Ph.D., associate professor of biological chemistry, pathology and oncology and member of the McKusick-Nathans Institute of Genetic Medicine at Hopkins. “We’ve created a repository that incorporates easy-to-use Web forms so that all researchers can contribute and share data,” says Pandey, who coordinated this effort with scientists and software developers at the Institute of Bioinformatics, a nonprofit institute he founded in Bangalore, India, in 2002.

Like the online encyclopedia Wikipedia, Human Proteinpedia allows any researcher to contribute and edit their data as their research progresses. “Researchers will be able to quickly review what has been discovered by others about their protein of interest, speeding their own work,” says Pandey.

Human Proteinpedia contains information on when and where specific proteins are expressed or not, including in cells and tissues from diseases such as cancers; how the proteins are modified; and which other proteins they interact with. The repository includes only experimental data and doesn’t include computer-generated predictions, which may not turn out to be real. The current version of Human Proteinpedia compiles data provided by more than 71 laboratories from all over the world and contains entries for more than 15,230 human proteins.

“With the amount of proteomic data pouring in each day, however, cataloging all of human protein data by hand is a Herculean task,” says Pandey. “So we’re hoping that the scientific community will come together to contribute data generated in individual laboratories. This will not only improve the quality of the data but also increase the pace at which data is collected in a common repository. We’re excited about the enthusiasm and involvement of the entire global proteomics community and hope that we can work with companies like Google and Microsoft that are interested in enabling such data sharing and dissemination for biological data.”

Source: Johns Hopkins Medical Institutions

Explore further: Cicada study discovers two genomes that function as one

add to favorites email to friend print save as pdf

Related Stories

Introducing the multi-tasking nanoparticle

Aug 26, 2014

Kit Lam and colleagues from UC Davis and other institutions have created dynamic nanoparticles (NPs) that could provide an arsenal of applications to diagnose and treat cancer. Built on an easy-to-make polymer, these particles ...

New tool identifies therapeutic proteins in a 'snap'

Aug 21, 2014

(Phys.org) —In human and bacterial cells, glycosylation – the chemical process of attaching complex sugar molecules to proteins – is as fundamental as it gets, affecting every biological mechanism from cell signaling ...

Some anti-inflammatory drugs affect more than their targets

Aug 21, 2014

Researchers have discovered that three commonly used nonsteroidal anti-inflammatory drugs, or NSAIDs, alter the activity of enzymes within cell membranes. Their finding suggests that, if taken at higher-than-approved ...

Recommended for you

New tool aids stem cell engineering for medical research

5 hours ago

A Mayo Clinic researcher and his collaborators have developed an online analytic tool that will speed up and enhance the process of re-engineering cells for biomedical investigation. CellNet is a free-use Internet platform ...

User comments : 0