Category Archives: Uncategorized

What if chemistry data had been open?

Posted on January 30, 2008 by pm286

When people ask me for examples of why Open Data matters, I always refer them to the Openness of bioscience – or at least those parts close to the Central Dogma (DNA-> RNA->Protein->Structure->Function). All those parts are Open. You can … Continue reading →

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CrystalEye RSS

Posted on January 30, 2008 by pm286

Nick Day’s CrystalEye system can e thought of as an open, robotically managed, robotically quality-reviewed, data, overlay, “journal”. It’s not a conventional journal, but it ticks most of the buttons. And it publishes a new set of information each day. … Continue reading →

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APE2008 thoughts on domain repositories

Posted on January 30, 2008 by pm286

I’m sitting waiting for about 1 million files to transfer from one laptop to another – in the Computer Officer hideout where we have really strong coffee. I tend to twitch about such transfers – rather like a hermit crab … Continue reading →

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APE2008 – ARNE RICHTER: EGU and JACP

Posted on January 27, 2008 by pm286

I’m not keeping up with the backlog of things I have brought away from APE 2008 Academic Publishing in Europe “Quality & Publishing” – I find it difficult to comment several days after the event (Please can conferences install wireless … Continue reading →

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XML, Fortran and Mr Fox at NESC

Posted on January 18, 2008 by pm286

Toby White (“Fantastic Mr Fox@) has developed a superb system for enabling FORTRAN programs to emit XML in general and CML specifically. He and colleagues are presenting this at Edinburgh as part of the NESC programme: Integrating Fortran and XML … Continue reading →

Posted in Uncategorized, XML | 1 Comment

Community involvement in information capture and extraction

Posted on January 7, 2008 by pm286

There has been a large increase in the number of people and organisations interested in extracting or capturing chemical information from the public domain. This is typified by the ongoing discussions between individuals and organisations – here’s a comment on … Continue reading →

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Why PubMed is so important in the NIH mandate

Posted on January 5, 2008 by pm286

Some us of know the following phrase by heart: all investigators funded by the NIH submit or have submitted for them to the National Library of Medicine’s PubMed Central an electronic version of their final, peer-reviewed manuscripts upon acceptance for … Continue reading →

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How to create interactive maps (and graphs?)

Posted on January 2, 2008 by pm286

Peter Sefton at USQ has developed the ICE system – a carefully thought out and engineered system for authoring compound documents in a scholarly environment based largely on XML. He has no illusions about the difficulty of this and the … Continue reading →

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Tools, Frameworks and Applications

Posted on December 15, 2007 by pm286

I lamented the lack of public interest shown by the pharma companies in Open Source software and Geoff Hutchison commented: When the Blue Obelisk met in San Francisco, we all heard from a pharma rep [PMR: was there a pharma … Continue reading →

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Why oh why oh why….? Digital uncuration

Posted on December 15, 2007 by pm286

var imagebase=’file://C:/Program Files/FeedReader30/’; My colleague Nico Adams has written at great and useful length (Why oh why oh why….? ) about the appalling state of data capture, dissemination, preservation and curation.  He describes how he found some very valuable data … Continue reading →

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