Science 2.0

"An ESF Research Networking Programme is a networking activity bringing together nationally funded research activities for four to five years, to address a major scientific issue or a science-driven topic of research infrastructure, at the European level with the aim of advancing the frontiers of science." - Daniel Mietchen via Bookmarklet

Daniel: :-) witty witty, drop them a line - Claudia Koltzenburg

"Via web application software, data citation standards, and statistical methods, the Dataverse Network project increases scholarly recognition and distributed control for authors, journals, archives, teachers, and others who produce or organize data; facilitates data access and analysis for researchers and students; and ensures long-term preservation whether or not the data are in the public domain." - Bill Hooker via Bookmarklet

Okay. I'll try to give a bit more info about the JRA thing once I have it. Incidentally, on association studies (QTLs too?) I ought to mention one of the projects we have registered at MIBBI for reporting QTLs and association studies: http://mibbi.org/index... - Chris via twhirl

"OSCAR3 (Open Source Chemistry Analysis Routines) is software for the semantic annotation of chemistry papers. The modules OPSIN (a name to structure converter) and ChemTok (a tokeniser for chemical text) are also available as standalone libraries." - Mike Chelen via Bookmarklet

"Top 20 Websites Every Scientist (or engineer) ought to know" - Berci Mesko via Bookmarklet

Brian: is that not what it does, or does it not do it well? - Mike Chelen

"17th Annual International Conference on Intelligent Systems for Molecular Biology & 8th European Conference on Computational Biology The talk specific feeds will be created each day shortly before the start of the first presentation. Find talk specific blogs by searching here for the authors, the title of the talk or the talk identifier as given in the program (like HL03 for the 3rd Highlight paper) The feeds can also be accessed on the conference pages in the according sections: SIGs, Keynotes, Proceedings Track, Technology Track and Highlights and the last few blogs are shown on our web-portal page." - Mike Chelen via Bookmarklet

"Looking Good on Paper The gold standard of the peer-reviewed scientific paper has barely changed in form since its inception over 300 years ago. However, with more and more scientists communicating research findings in digital format in many different ways does the notion of the scientific ‘article’ itself remain relevant? Is the traditional research paper still the optimal format for the dissemination of the outputs of scientific research? If not, what are the alternatives? Video Killed the Methods Section More and more scientific findings are ‘born digital’. The traditional format of research article is being transformed into a multi-media digital object with linked content, video, audio, datasets and reader annotation. This raises new possibilities and challenges. How should these newer types of content be peer reviewed? Are researchers really able to make the most of them? Does a link to a dataset or image always provide sufficient context to enable informed re-use or validation?... more... - Daniel Mietchen via Bookmarklet

Looking like I might be able to make it after all. Woot! - Cameron Neylon via twhirl

Hi Matt, we don't have a *public* API yet, but we're planning to introduce one. We'll also enable reference management/sharing my simply pasting some code into your side, much like embedding a YouTube video. Apologies if that info doesn't help you much for now! - Victor / Mendeley Team

Somehow I missed all the responses after my initial thank you comment. I'm not actively working on this at the moment, but I am still interested in the available APIs. FYI, I would need an API that allows for upload of bibliographic records rather than one that just returns the results of search queries. - Matt Leifer

"The Eclipse Open Healthcare Framework (OHF) is a project within Eclipse formed for the purpose of expediting healthcare informatics technology. The project is composed of extensible frameworks and tools which emphasize the use of existing and emerging standards in order to encourage interoperable open source infrastructure, thereby lowering integration barriers. We currently provide tools and Frameworks for HL7, IHE, Terminology, Devices, and Public Healthcare Maintenance." - Mike Chelen via Bookmarklet

You can still nominate yours. - Daniel Mietchen via Bookmarklet

yikes, Bill! There's gotta be a name for the phenomenon of making a stupid mistake while pointing out something about someone else(which I since corrected, in case you're wondering). If you're feeling biblical, you could call it the "beam-in-thine-own-eye' syndrome, I suppose. No worries, though, Lisa. I try not to point out things like that in general, but blog/blog post is the one thing that makes me twitch. - Mr. Gunn

A discussion with John Wilbanks addressing: " * In an age of digital content and communication, does the notion of the scientific ‘article’ remain relevant? Is the 300-year old approach to structuring findings – from abstract to references – still valid in the era of the multi-media research object? * How should new types of content such as video protocols and embedded datasets be peer-reviewed, and does it matter? * Will opening access to the outputs of scientific research really improve innovation? * Does more access to research data and information necessarily mean we are better informed? * When it comes to communicating research findings, what are the fundamental building blocks and what is the wallpaper?" - Hilary

See also http://ff.im/4A4qx on this. - Daniel Mietchen

Interesting comment from Andy McGregor about UK funding for new technologies in higher eduction, thought it might be of interest to many here. Here's an excerpt: "I work for an agency in the UK called JISC (http://www.jisc.ac.uk) that is set up to support education and research in higher education by promoting innovation in new technologies. We fund a lot of innovation projects in the area of scholarly communication, and it struck me reading the post how much of the work we are funding relates to the points you make in your article We have funded 40 rapid innovation projects these are short agile projects that have just started and are designed to experiment and try out solutions to user problems, similar to start ups you mention in your post. A couple which sprang to mind as I read your post and are worth mentioning are a way to manage and publish data sets which uses a notecard metaphor: http://www.jisc.ac.uk/whatwed... and a way to use bayesian filtering... more... - Michael Nielsen via Bookmarklet

Perhaps, although startups isn't really their remit. They are more focused on infrastructure for higher education so projects often have to use pieces of previously funded services. Thinking more and more that the only way to get those kind of things started is to get right out of the academic sector. - Cameron Neylon

@Bjoern: includes grants for investigations into "free will"... - Bill Hooker

From PLoS ONE; article concludes that "Medical research news should be clearly referenced and state the evidence level and limitations to inform the public of the maturity and quality of the source." Many (including myself) have been calling for this kind of disclosure for years...Astonishing that even after 3 yrs, almost 1/4 of the front page stories never passed muster in peer-review!!!!!!!!! - Noah Gray via Bookmarklet

Not surprising at all. A lot of the stories I've seen in MSM are "exclusive" access pieces. I guess that's the drawback of trying to get a story no one else has. - Brian Krueger - LabSpaces

There are quite a lot of cell phone sensor network projects out there - I've been following the Urban Sensing project at UCLA for a while... http://urban.cens.ucla.edu/ - Hilary

Wonder if there are discussions between the different groups, either for direct collaboration, or to plan for interoperability of software and data. - Mike Chelen

I think Nokia is trying to address some of the interoperability questions through their SensorPlanet project: http://www.sensorplanet.org/ - Hilary

"Australian scientists have developed a "trojan horse" therapy to combat cancer, using a bacterially-derived nano cell to penetrate and disarm the cancer cell before a second nano cell kills it with chemotherapy drugs." - Lasse Johnsen via Bookmarklet

Essay based on a talk I gave on June 11, 2009, at the American Physical Society Editorial Offices. - Michael Nielsen

Sorry about that, Matthew. Not sure how to stop FF creating two separate conversations for items that come through on my blog feed and are then reshared. - Michael Nielsen

Not sure if this is good (will drive semantic web tech) or bad (who will get to use that tech?)... - Bill Hooker via Bookmarklet

BBN -- old skool. They pretty much invented the internet. But I don't remember them being major players in the comp. linguistics game... - Andrew Clegg

Reflections on medical education in a digital world - Cameron Neylon

"InterMine is a powerful open source data warehouse system. Using InterMine, you can create databases of biological data accessed by sophisticated web query tools. Parsers are provided for integrating data from several common biological formats and there is a framework for adding your own data. InterMine includes an attractive, user-friendly web interface that works 'out of the box' and can be easily customised for your specific needs." - Mike Chelen via Bookmarklet

Given the UI flexibility of the iPhone, why recreate older, less intuitive HP calculator interfaces? - Steve Levin

@Steve: Nostalgia, I guess. - Christopher Granade

This would probably work better with a Bold and the clickable screen. I do miss the feel and thunk of pressing the keys on that thing. - Carey Lumeng