Posts tagged ‘pubmed’

InterMedi: Back to collaborative intelligence!

In a previous post, I discussed how the Pubmed API could, in the field of biomedical research, be a useful tool addressing both problems of Pubmed and the crowd of Social Networks. The solution was named “InterMedi: Collaborative Intelligence for Biomed”. This set of tools provided meaningful relations between people, reflecting real life situation. Plus, it offered fun tools such as an equivalent of GoogleFight based both on the number of collaborators and the number of publications.

I promised to work on it within the few weeks after writing this previous post. I did. Now you have InterMedi V2 (though still in beta version).

Old features that are stille available:

  1. Find someone, find his publications, find his previous collaborators
  2. Compare the number of publications and of collaborators of two researchers

New features now available:

  1. Find the set of affiliations of someone’s collaborators
  2. Find a path of collaboration between two persons! (<== this is the greatest novelty)
  3. Easily contact the InterMedi team
  4. Enjoy a new look and feel.

Future developments:

  1. Consulting and posting biomed job offers
  2. Posting relevant biomed ads

So, now, don’t wait a minute and just intelligently collaborate on InterMedi!


July 17, 2008 at 12:24 pm Leave a comment

Collaborative Intelligence for Biomed

This post will not be about personal genomics, and I apologize for this… but still, it will be about personal-something and also still about biomed. I read those two last days, post about ‘Pubmed Fight’ [1] [2]. And it made me smile because I designed such an application previous winter, but slightly different. My tool is a mix between a social network and Pubmed. Let’s see what are the limitations of those:

  • Limitations of Pubmed: while being the most complete database of biomed publications, it has a major drawback: it is just publications-centered, not people centered. Even Hubmed, which is a re-engineering of Pubmed do not cover the people aspect. However the connection between people is an essential element for future collaboration, for knowing who works in the same area as who, etc.
  • Limitations of social networks: Every member of any social network knows it, the “friend” or “contact” status doesn’t always reflect a real-life situation. In my LinkedIn profile or in my Facebook profile, I have “friends” and “contacts” I never saw once in my life. A tool centered only on true relation between people could be welcome.

My tools at interMedi group both aspects. With the “Search for collaborators” applications, you can find who worked with who. With the “Fight” application, you can compare two researchers on the basis of their publication number but also the number of collaborators they’ve had until now.

How does it work?

It is based on the Pubmed API. Based on a writer’s name “A”, you can retrieve all his articles. Based on those articles, you can retrieve all the co-authors. You then have the collaborator’s list of “A”. This tool is in beta version and will/should be developed in the next few months.

By the way, I seize the opportunity to give a link to my personal page.

Pubmed API

This little known API is open, free, and very useful. It is well explained in the NCBI Handbook. I read on another blog post a nice script to get all the chapters of the NCBI Handbook and make just one nice pdf book of them. Read my comments on that post to update the proposed script.

Keep on reading, have fun!

July 4, 2008 at 10:26 am 3 comments


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