Category Archives: Uncategorized

Videos and Slides on the recent talks

A happy new year from the openSNP-team! Philipp and I are back from our talks. If you couldn’t make it to Berlin you can now watch the videos that were recorded during our talks. You can watch the recordings from our talk on crowdsourcing genome-wide association studies at the 28th Chaos Communication Congress at YouTube or in better quality here. If you are interested in our slides you can get them at SlideShare or as LaTeX-sources at GitHub.

For those of you who speak german: You might be interested in our talk on the privacy implications of the coming post-genomics era, which we gave at the 0. Spackeriade. You can watch it on YouTube as well or download the video. Again: The slides can be found at SlideShare or as LaTeX-sources on GitHub.

Thanks for all who helped on the slides, gave us their feedback and of course all of you who approached us after the talks – in real life or via email – and had some ideas for new features. We already started to work those. Stay tuned to see some changes on openSNP in the next weeks.

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The WissensWert contest vote is now open!

Hello everyone!
The Mendeley/PLoS Binary Battle is now over, so it’s time for the next one  – the WissensWert-Contest (page is in German) by the German Wikimedia-Foundation.

They have pledged up to 7000€ for ideas that promote open knowledge and open science – naturally, we had to apply!

What we’re trying to do with the money (if we win) is to give out free genotypings to people who can’t afford them, but still want to participate in the research. We could give out up to 35 genotypings with the money. Of course, just because we give anyone the money to get genotyped doesn’t mean that they have to publish it – we can’t force you to reveal potentially damaging information about you.

To win this contest we need your voteyou can vote here, the page is in German but you only have to activate the radio-button for project “02-Open (Citizen) Science durch mehr öffentlich verfügbare Genotypisierungen” (that’s us, translation: “Open (Citizen) Science through more openly available genotypings”) and then press the submit-button on the bottom of the page. You don’t necessarily have to supply any of the additional information (which seems to be for their statistics), but if you speak or write German I’m sure they would appreciate the input!

We’re thrilled to have won the Mendeley/PLoS Binary Battle and we’re sure we couldn’t have done it without you guys. Thanks for your votes & your continuing support!

The openSNP-team

On Crawling Efforts and Requesting Data

Some Statistics

We love to share some more data on openSNP with all of you and now seems like a good time to do so.

  • Up to now our database stores a total number of 34 977 228 polymorphisms of 39 different users. Those are divided into 1 933 962 different SNPs.
  • Users have entered a total number of 412 phenotypes, split into 28 different categories.
  • Due to the great support of Mendeley (they relaxed the API-limit for us) we already finished crawling all papers on those SNPs we know of from their database. Those add up to 5940 papers. 698 of those are published as Open Access-papers, so they can be freely accessed by everybody.
  • We also finished crawling the SNPedia and were able to find 7760 different pages that contain information on SNPs that we have listed. This includes links to primary literature as well as summaries on the effects of specific SNPs
  • While we did not finish crawling the Public Library of Science yet (259098 SNPs still need to be checked), we could already find 1135 publications that deal with SNPs listed on openSNP.

On Navigation

All this makes a nice source of information for everyone who is interested in SNPs (and their possible effects), as well for everybody who likes to play around with personal genomics-data. Today we changed the URL-layout a little to make it a bit easier for those of you who are frequently interested in finding out about a specific SNP:

The old URLs just used the internal database-ID of the SNP to deliver the site you were looking for. So if you were interested in rs7903146 you had to visit http://opensnp.org/snps/445791, which was not that nice, as the URL is not informative and you always had to perform a search on openSNP to find the page of interest.

The new URL-layout uses the name of the SNP, so you can easily visit http://opensnp.org/snps/rs7903146 and find all the information you were looking for. But don’t panic if you bookmarked some of the old URLs, they still work, so you don’t have to change a thing.

Enjoy playing around!

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