sennoma's Feed

The Fourth Paradigm: Data-Intensive Scientific Discovery - Microsoft Research

sennoma — Sat, 24 Oct 2009 12:08:00 -0400

Increasingly, scientific breakthroughs will be powered by advanced computing capabilities that help researchers manipulate and explore massive datasets. The speed at which any given scientific discipline advances will depend on how well its researchers collaborate with one another, and with technologists, in areas of eScience such as databases, workflow management, visualization, and cloud computing technologies. In The Fourth Paradigm: Data-Intensive Scientific Discovery, the collection of essays expands on the vision of pioneering computer scientist Jim Gray for a new, fourth paradigm of discovery based on data-intensive science and offers insights into how it can be fully realized. Tagged by sennoma under opendata, openscience,

ScieCom Info

sennoma — Tue, 20 Oct 2009 12:41:00 -0400

Mission: • To inspire new activities and facilitate knowledge exchange between Nordic/Baltic • stakeholder, and to increase the international visibility of Nordic and Baltic policies and initiatives • To stress the importance of Open Access in the Nordic and Baltic countries and to describe both theoretical and best-practice models for financing, rights management and other fundamental issues. • To disseminate to both a Nordic/Baltic and an international readership information about successful initiatives and other activities in the Nordic and Baltic countries. Tagged by sennoma under oa, opendata, openscience, oaos.misc,

Science Pipes

sennoma — Tue, 06 Oct 2009 01:05:00 -0400

SciencePipes is an environment in which students, educators, citizens, resource managers, and scientists can create and share analyses and visualizations of biodiversity data. It is built to support inquiry-based learning, allowing analysis results and visualizations to be dynamically incorporated into web sites (e.g. blogs) for dissemination and consumption beyond SciencePipes.org itself. For more information: * further introduction * presentations * status of the site * NSDL article about SciencePipes.org Alpha functionality demos: * uploading and running a Kepler workflow * editing a pipe in the SciencePipes.org authoring environment SciencePipes is a project of the Cornell Lab of Ornithology Information Science Program and is funded by the National Science Digital Library. Tagged by sennoma under scholarlycommunication, openscience, webtools,

PLoS ONE: Empirical Study of Data Sharing by Authors Publishing in PLoS Journals

sennoma — Sun, 27 Sep 2009 08:23:00 -0400

Tagged by sennoma under opendata, openscience, scienceisasnakepit, scholarlycommunication,

The Ferryman: Growing significance of communities and collaboration in discovery and development

sennoma — Sat, 12 Sep 2009 10:21:00 -0400

The benefits of community participation or collaboration should outweigh the costs to support a rational decision to pursue such routes. Lions usually prefer to hunt as a group as the shared food from group kills offers a better return and lower risk than hunting alone; in a similar manner organisations may also choose to collaborate to have greater success in acquiring new resources or income. The current convergence of a number of factors appears to be driving up the R&D collaboration benefit/cost ratio. The drivers include: 1. Scientific research is becoming more complex and multi-disciplinary, requiring researchers to move more away from “working in the expert’s box”. 2. Our work, economy and society are becoming more knowledge-oriented. (I define knowledge here as including understanding gained from experience and involves individual and collective knowledge in addition to explicit knowledge such as intellectual property (IP).) 3. Business models in the chemistry and pharmaceutical industry that worked fine historically, e.g., manufacturing products based predominantly on patents related to chemistry, appear to be increasingly lacking. 4. The goals of translational and personalized medicine have stronger requirements for networked and collaborative approaches over discipline and time than the historically relatively linear drug discovery and development process. Integrated services offer greater future value creation than stand-alone products. 5. Patient Safety has become an issue of growing concern requiring new more integrative approaches to data, knowledge and disciplines. 6. Computational Science continues to grow in importance, fueling overlaps and interactions between scientific disciplines including that of computer science. 7. The maturing of the Internet-based World Wide Web including enhanced usability, services, social software and the semantic web, provide new community and collaboration resource opportunities. 8. Challenging problems we face as a Tagged by sennoma under openscience, collaboration,

Data Sharing : Specials : Nature News

sennoma — Thu, 10 Sep 2009 01:39:00 -0400

Sharing data is good. But sharing your own data? That can get complicated. As two research communities who held meetings in May on the issue report their proposals to promote data sharing in biology, a special issue of Nature examines the cultural and technical hurdles that can get in the way of good intentions. Tagged by sennoma under opendata, openscience,

The OpenScience Project » What, exactly, is Open Science?

sennoma — Sat, 01 Aug 2009 06:28:00 -0400

Tagged by sennoma under openscience, oaos.definitions,

MD Lab Blog: Open scientists have more and more early "Aha!" moments

sennoma — Mon, 13 Jul 2009 08:17:00 -0400

An "Aha!" moment or event indicates a change in the cognitive state. I first heard about this concept from Frank Ohl and Henning Scheich, former colleagues, but recently also found it in the Wall Street Journal: A Wandering Mind Heads Straight Toward Insight, which serves as a better introduction. These moments need an environment in which they can flourish. As far as my moments are concerned, they come—surprisingly—reliably but only if I write about my work with the reader in mind. Most of my articles changed quite dramatically in the process of writing, although I used to start writing, only when I thought the creative work is seemingly finished. I learned nothing could be more wrong. So for me being engaged in making my work more transparent by writing about it at an earlier stage, while it is still in progress, is nothing less than forcing insight. Tagged by sennoma under oaos.examples, openscience,

Öffentliche Wissenschaft: Eine Bastelanleitung | sciencegarden - Magazin für junge Forschung

sennoma — Sun, 12 Jul 2009 08:37:00 -0400

Tagged by sennoma under openscience,

About | Science Collaboration Framework

sennoma — Tue, 23 Jun 2009 01:44:00 -0400

The Science Collaboration Framework (SCF) is a software toolkit to establish web-based virtual team organizations for researchers in biomedicine. It enables researchers to publish and discuss on-line content such as articles, news, and perspectives, and to provide shared semantic context for this content using established scientific vocabularies and automated text mining. Tagged by sennoma under opendata, openscience, collaboration, semanticweb,

SCIENCE COMMENT - Science Comment

sennoma — Mon, 15 Jun 2009 11:59:00 -0400

Science Comment is dedicated to the advancement of sciences. Feel free to add your comment on publications, be it inspiring thoughts or critics, to propulse the scientific discussion and to enhance future results. Please use this site to help clarify certain aspects of science. Let's make a difference! Tagged by sennoma under peerreview, openscience, open.commentary,

ScienceDirect - Government Information Quarterly : Tale of two databases: The history of federally funded information systems for education and medicine

sennoma — Mon, 15 Jun 2009 11:06:00 -0400

Access to scholarly information in the disciplines of education and medicine occurred primarily through the simultaneous development of two bibliographic databases. The Education Resource Information Center (ERIC) originated as a resource designed to be comprehensive in its inclusion of peer-reviewed and unpublished literature for the entire education community. MEDLINE began as a resource of selective materials for physicians and researchers. Today, ERIC includes selected peer-reviewed literature directed primarily to researchers and practitioners, although others use the database, while MEDLINE is a vast information system serving all health professionals and consumers. This literature analysis of their policy history shows important differences in their evolution. Tagged by sennoma under openscience, scholarlycommunication,

About | elnblog.com

sennoma — Tue, 09 Jun 2009 04:57:00 -0400

"Hi, welcome to my Blog. I’m Simon Coles, co-founder and CTO of Amphora Research Systems, and this is just a simple blog of stuff related to Electronic Lab Notebooks and anything else that comes to mind. I’ve been doing ELNs for over 13 years now, and have experience of a wide variety of ELN implementations, so I hope there will be something here for everyone." Tagged by sennoma under ELN, openscience,

Science Commons » Blog Archive » What’s open science?

sennoma — Thu, 04 Jun 2009 03:14:00 -0400

Tagged by sennoma under openscience, import090501,

How do you deal with competitors in open systems? » Make the Future - by Jim Gilliam

sennoma — Sun, 31 May 2009 12:33:00 -0400

So how do you deal with competitors, people who want you to fail, in an open, transparent, and collaborative system Tagged by sennoma under collaboration, jimgilliam, openscience, open.govt,

The OpenScience Project » Scientific Software Wants To Be Free

sennoma — Tue, 26 May 2009 01:55:00 -0400

# We should create an open central repository location at which authors can release software and documentation. # Software release should be an integral and funded part of projects. # Software release should become an integral part of the publication process. # The barriers to publication of methods and descriptive papers should be lower. # Programming, statistics and data analysis should be an integral part of the curriculum. # There should be more opportunities to fund grass-roots software projects of use to the wider community. # We should develop institutional support for science programs that attract and support talented scientists who generate software for public release. Tagged by sennoma under opendata, openscience,

Biochem. Soc. Trans (2008) 36, 33-36 - Norman W. Paton - Bringing Together Biomolecular Simulation and Experimental Studies

sennoma — Mon, 18 May 2009 10:56:00 -0400

Experimental processes in the life sciences are becoming increasingly complex. As a result, recording, archiving and sharing descriptions of these processes and of the results of experiments is becoming ever more challenging. However, validation of results, sharing of best practice and integrated analysis all require systematic description of experiments at carefully determined levels of detail. The present paper discusses issues associated with the management of experimental data in the life sciences, including: the different tasks that experimental data and metadata can support, the role of standards in informing data sharing and archiving, and the development of effective databases and tools, building on these standards. Tagged by sennoma under opendata, openscience, collaboration,

Web 2.0 and scholarly communication « putting down a marker

sennoma — Thu, 14 May 2009 03:54:00 -0400

Topics covered include: * What is Web 2.0? * Web 1.0 and scholarly communication * Web 2.0 and Open Access * Blogs * Social bookmarking * Social networking * Podcasts * Wikis * Data * Peer review * Reasons for lack of uptake to date Tagged by sennoma under scholarlycommunication, openscience, publishing, publishing.models,

Knowledge Ecology Notes » Prizes and Grants, Type I, II and III diseases, rich and poor countries, open and closed medicine development

sennoma — Tue, 12 May 2009 09:41:00 -0400

OPENNESS For all innovation efforts, there are quite important issues concerning openness, and the hazards of enclosures of science and the hoarding of knowledge. A number of academics writers, patent professionals and R&D experts have called attention to the potential risks that innovation inducement prizes might lead to less sharing of knowledge, as people position themselves to win prizes. But this risk should be seen in a broader context. It is also often pointed out that patents can discourage upstream research and downstream product development. Government grant programs that encourage the privatisation of publicly funded R&D (like the US Bayh-Dole Act) can also move things in the wrong direction. It turns out this whole important topic is complicated. One area to pay attention to are the “Bayh-Dole” issues relating to prizes. In many of the US government funded prizes, and in the early X-prize designs, all of the intellectual property rights go to the recipient of the prizes. In some non-medical cases in the US, the government is barred from asking for licenses to use the inventions that win the prizes — an even worse outcome than for patents developed under federal grants, which are subject to (rarely used [fn1]) royalty free government licenses, and march-in and access requirements. So one debate is about obtaining the right bundle of rights in patents or data from prize winners, and managing also the disclosures. After a series of workshops on medical innovation inducement prizes, proposals also emerged to include new “open source dividends,” which involve sharing of prize money to entities that openly share access to knowledge, materials and technology. The open source dividends were modeled in several of the 2008 Bolivia Barbados prize proposals, and have unfortunately been ignored by some of those who have commented on those proposals. There are also much more transformation proposals for funding open source medicine, including the proposals to introduce “competitive intermediaries” that have as t Tagged by sennoma under openscience, oa, prizes, innovation, patents, intellectualproperty,

Links for Summer Interns « Software Carpentry

sennoma — Tue, 12 May 2009 08:22:00 -0400

Tagged by sennoma under oa, openscience, reproducibleresearch, opendata,