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As digital technologies are expanding the power and reach of research, they are also raising complex issues. These include complications in ensuring the validity of research data; standards that do not keep pace with the high rate of innovation; restrictions on data sharing that reduce the ability of researchers to verify results and build on previous research; and huge increases in the amount of data being generated, creating severe challenges in preserving that data for long-term use. Ensuring the Integrity, Accessibility, and Stewardship of Research Data in the Digital Age examines the consequences of the changes affecting research data with respect to three issues - integrity, accessibility, and stewardship-and finds a need for a new approach to the design and the management of research projects. The report recommends that all researchers receive appropriate training in the management of research data, and calls on researchers to make all research data, methods, and other information underlying results publicly accessible in a timely manner. The book also sees the stewardship of research data as a critical long-term task for the research enterprise and its stakeholders. Individual researchers, research institutions, research sponsors, professional societies, and journals involved in scientific, engineering, and medical research will find this book an essential guide to the principles affecting research data in the digital age.
by sennoma 2009-11-27 20:07 opendata · oaos.review
http://www.nap.edu/catalog.php?record_id=12615 - cached - mail it - history
growth in web technologies and increased transparency in the literature - and data - may be contributing to a shift in our perceptions of what constitutes a prior publication. Innovative online journals with virtually unlimited space provide researchers with opportunities to produce novel (original) contributions to the literature that are clearly and transparently linked to previously published articles. These include significantly extended/re-analysed reports of previously published summary findings in journals such as Trials and legitimate or incremental updates to previous studies in BMC Research Notes.
by sennoma 2009-11-27 20:06 science · openscience · scholarlycommunication
http://blogs.openaccesscentral.com/blogs/bmcblog/entry/what_is_original_research - cached - mail it - history
by sennoma 2009-11-27 13:17 walterjessen · oaos.examples · interviews · openscience
http://www.walterjessen.com/promoting-open-source-science - cached - mail it - history
OA data: recent discussion and announcements
by sennoma 2009-11-27 13:01 opendata
http://www.earlham.edu/~peters/fos/2009/11/oa-data-recent-discussion-and_25.html?utm_source=feedburner&utm_medium=feed&u... - cached - mail it - history
by sennoma 2009-11-27 12:51 oaos.blogs · openscience
http://bukvova.wordpress.com/2009/11/27/open-research-open-science - cached - mail it - history
by sennoma 2009-11-27 12:47 oaos.misc · openscience · citizenscience
http://robertpaterson.posterous.com/science-20-the-birth-of-the-citizen-scientist - cached - mail it - history
This report has attempted to draw together and synthesise evidence and opinion associated with data-intensive open science from a wide range of sources. The potential impact of data-intensive open science on research practice and research outcomes, is both substantive and far-reaching. There are implications for funding organisations, for research and information communities and for higher education institutions.
by sennoma 2009-11-24 23:47 oaos.review · opennotebookscience · openresearch · openscience
http://www.jisc.ac.uk/publications/documents/opensciencerpt.aspx - cached - mail it - history
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.
by sennoma 2009-10-24 12:08 opendata · openscience
http://research.microsoft.com/en-us/collaboration/fourthparadigm - cached - mail it - history
BioTorrents is a website that allows open access sharing of scientific data. It uses the popular BitTorrent peer-to-peer file sharing technology to allow rapid file transferring.
by sennoma 2009-10-23 01:35 opendata · oaos.misc
http://betascience.blogspot.com/2009/10/biotorrents-file-sharing-resource-for.html - cached - mail it - history
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.
by sennoma 2009-10-20 12:41 oa · opendata · openscience · oaos.misc
http://www.sciecom.org/sciecominfo/ - cached - mail it - history
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.
by sennoma 2009-10-06 01:05 scholarlycommunication · openscience · webtools
http://sciencepipes.org/alpha/home - cached - mail it - history
by sennoma 2009-09-27 20:23 opendata · openscience · scienceisasnakepit · scholarlycommunication
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0007078 - cached - mail it - history
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
by sennoma 2009-09-12 10:21 openscience · collaboration
http://barryhardy.blogs.com/theferryman/2009/06/growing-significance-of-communities-and-collaboration-in-discovery-and-d... - cached - mail it - history
Doesn’t peer review offer some guarantee of quality?, suggests Harford. “Peer review is of minimal value” is the response to this, “…checkability is what really guarantees quality”. Senn goes on to suggest that scientists sign an undertaking to provide raw original data to anyone who requests it.
by sennoma 2009-09-12 10:19 peerreview · opendata
http://blog.fuzzierlogic.com/?p=278 - cached - mail it - history
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.
by sennoma 2009-09-10 01:39 opendata · openscience
http://www.nature.com/news/specials/datasharing/index.html - cached - mail it - history
by sennoma 2009-08-20 23:53 opendata · oaos.tools
http://www.icdp-online.org/contenido/std-doi/front_content.php - cached - mail it - history
by sennoma 2009-08-01 18:28 openscience · oaos.definitions
http://www.openscience.org/blog/?p=269 - cached - mail it - history
Publication and Citation of Scientific Primary Data" (STD-DOI) is a project funded by the German Science Foundation. Its aim is to make primary scientific data citeable as publications. In this system, a data set would be attributed to its investigators as authors like it would be done for a work in the conventional scientific literature. Thus, scientific primary data should not exclusively understood as part of a scientific publication, but may have its own identity
by sennoma 2009-07-21 00:14 opendata · semanticweb
http://www.std-doi.de/front_content.php - cached - mail it - history
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.
by sennoma 2009-07-13 20:17 oaos.examples · openscience
http://mdlabblog.blogspot.com/2009/06/open-scientists-have-more-and-more.html - cached - mail it - history
by sennoma 2009-07-12 20:37 openscience
http://www.sciencegarden.de/content/2009-02/oeffentliche-wissenschaft-eine-bastelanleitung - cached - mail it - history
by sennoma 2009-07-04 15:54 JISC · Berglund · IR · opendata
http://www.disc-uk.org - cached - mail it - history
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.
by sennoma 2009-06-23 01:44 opendata · openscience · collaboration · semanticweb
http://sciencecollaboration.org - cached - mail it - history
by sennoma 2009-06-22 05:38 opendata · ehealth · patientadvocacy
http://www.slideboom.com/presentations/73871/e-Patient-Dave%27s-presentation-to-NeHC-board-June-2-2009 - cached - mail it - history
Each day nonprofits worldwide produce insightful and valuable research on complex social issues. IssueLab makes it easy to locate, access, and engage with this extensive and diverse body of knowledge.
by sennoma 2009-06-18 00:42 opendata
http://www.issuelab.org - cached - mail it - history
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!
by sennoma 2009-06-15 23:59 peerreview · openscience · open.commentary
http://www.sciencecomment.com/index - cached - mail it - history
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.
by sennoma 2009-06-15 23:06 openscience · scholarlycommunication
http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6W4G-4W38706-1&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&vie... - cached - mail it - history
"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."
by sennoma 2009-06-09 16:57 ELN · openscience
http://elnblog.com/about - cached - mail it - history
by sennoma 2009-06-08 17:16 opendata · mikethemadbiologist
http://scienceblogs.com/mikethemadbiologist/2009/06/the_double_standard_of_genomic.php - cached - mail it - history
by sennoma 2009-06-04 15:41 oaos.talks · dorotheasalo · opendata · IR
http://www.slideshare.net/cavlec/save-the-cows-data-curation-for-the-rest-of-us-1533252 - cached - mail it - history
by sennoma 2009-06-04 15:14 openscience · import090501
http://sciencecommons.org/weblog/archives/2008/08/22/whats-open-science - cached - mail it - history
by sennoma 2009-06-02 17:45 opendata · openlicensing · egonwillighagen
http://chem-bla-ics.blogspot.com/2009/05/open-data-license-rights-aggregation.html - cached - mail it - history
So how do you deal with competitors, people who want you to fail, in an open, transparent, and collaborative system
by sennoma 2009-05-31 00:33 collaboration · jimgilliam · openscience · open.govt
http://www.jimgilliam.com/2009/05/how-do-you-deal-with-competitors-in-open-systems - cached - mail it - history
by sennoma 2009-05-30 18:44 webtools · opendata · open.govt
http://dataferrett.census.gov - cached - mail it - history
RDF, The Semantic Web, and Linked Data This essay is an attempt to tie together my articles and blog posts on semantic web related topics. Bob DuCharme, last updated 22 May 2009
by sennoma 2009-05-28 12:57 linked_data · opendata · semanticweb · rdf
http://www.snee.com/rdf/semweboverview.html - cached - mail it - history
# 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.
by sennoma 2009-05-26 13:55 opendata · openscience
http://www.openscience.org/blog/?p=270 - cached - mail it - history
by sennoma 2009-05-21 15:09 opendata · govt data
http://www.data.gov - cached - mail it - history
it appears likely that if and when more and more scientists choose to make their raw data public after publication (and those that don't therefore become increasingly subject to suspicion by their peers), a fraud case like that of Jan Hendrik Schön will become quite impossible at some point in the future.
by sennoma 2009-05-18 16:10 opendata
http://latticeqcd.blogspot.com/2009/05/openness-fraud.html - cached - mail it - history
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.
by sennoma 2009-05-18 10:56 opendata · openscience · collaboration
http://www.biochemsoctrans.org/bst/036/bst0360033.htm - cached - mail it - history
microformats and RDF with Google = structured data on blogs; nice
by sennoma 2009-05-16 11:51 semanticweb · opendata · microformats · google
http://google.com/support/webmasters/bin/answer.py?hl=en&answer=99170 - cached - mail it - history
Will government data be the proof-of-principle needed to get researchers to see value in linked open data/semantic web?
by sennoma 2009-05-15 11:27 opendata
http://georeading.posterous.com/city-of-vancouver-proposal-to-support-open-da - cached - mail it - history
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
by sennoma 2009-05-14 15:54 scholarlycommunication · openscience · publishing · publishing.models
http://mrkwr.wordpress.com/2009/05/14/web-2-0-and-scholarly-communication - cached - mail it - history
The "Open Data Grid" (ODG) is an open distributed storage grid for open data based on Allmydata's open-source "Tahoe" system. It is being coordinated by the Open Knowledge Foundation and anyone can participate: * A few Gigabytes to spare on a server? Why not run a storage node – instructions below. * Got open data you want to store safely? Put it on the grid – instructions below.
by sennoma 2009-05-13 09:13 opendata
http://grid.okfn.org - cached - mail it - history
by sennoma 2009-05-13 08:58 oaos.examples · opendata · collaboration
http://www.nature.com/embor/journal/v10/n5/full/embor200979.html - cached - mail it - history
by sennoma 2009-05-13 08:55 opendata
http://lucidtechnics.blogspot.com/2009/05/open-data.html - cached - mail it - history
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
by sennoma 2009-05-12 21:41 openscience · oa · prizes · innovation · patents · intellectualproperty
http://www.keionline.org/blogs/2009/05/10/prizes-and-grants - cached - mail it - history
EMBL - the European Molecular Biology Laboratory, has made part of their SIDER Side Effect Resource available to the public free of restriction via CC0, placing it in the public domain. The database, SIDER, contains information on marketed medicines and their recorded adverse side effects and drug reactions. Included in this dataset is information on the frequency of these drug reactions, other drug and side effect classifications as well as links to other relevant resources. To date, 888 drugs are listed in the database, a tremendous resource for research and drug discovery. The mapping of labels and euphoria-related side effects are now public domain, with some other side effect information available for download under a CC-BY-NC-SA license.
by sennoma 2009-05-12 08:24 opendata · creativecommons · cczero
http://sciencecommons.org/weblog/archives/2009/05/07/embl-data-cc0 - cached - mail it - history
by sennoma 2009-05-12 08:22 oa · openscience · reproducibleresearch · opendata
http://softwarecarpentry.wordpress.com/2009/05/11/links-for-summer-interns - cached - mail it - history
by sennoma 2009-05-12 08:21 oa · openscience · reproducibleresearch · opendata
http://softwarecarpentry.wordpress.com - cached - mail it - history
by sennoma 2009-05-09 04:18 intellectualproperty · opendata · assholes
http://www.law.com/jsp/iplawandbusiness/PubArticleIPLB.jsp?id=1202430332016 - cached - mail it - history
by sennoma 2009-05-01 22:49 oa · openscience · oaos.talks
http://scholcomm.columbia.edu/past-events - cached - mail it - history
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