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{bio,medical} informatics

Tuesday, April 24, 2001

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find related articles. powered by google. Scientific American Publish Free or Perish
"When a molecular biologist or a biochemist has made a discovery–often after many months or even years of tedious experiments—they tell the rest of the world by publishing their results in a scientific journal. So far, these journals have controlled who can read them and who cannot—but maybe not for much longer.

E-mail, Internet discussion groups, electronic databases and pre- or e-print servers have already transformed the way scientists openly exchange their results. And in the life sciences, researchers are now demanding that their work be included in at least one free central electronic archive of published literature, challenging the traditional ownership of publishers. The demand has sparked widespread discussions among scientists, publishers, scientific societies and librarians about the future of scientific publishing. The outcome may be nothing short of a revolution in the scientific publishing world."
find related articles. powered by google. BioMedNet Journal wars continue
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"The war between scientists and science journal publishers shows no sign of abating. Two journals, Science and the Journal of Cell Biology , last week said that they would make their contents free on the Web a year after publication. Since both are prestigious journals, their move puts pressure on the major publishing houses that have thus far refused to make content free, contending that it would be financial suicide. In March, more than 12,000 scientists signed a petition call for the establishment of a proposed Public Library of Science, which would contain articles six months after publication, and threatened to boycott journals that did not agree to participate.

Reference: Wadman, M. 2001. Publishers challenged over access to papers. Nature 419(6828):502."

redux [10.19.00]
find related articles. powered by google. BioMedNet Over 1500 life scientists pledge to use only journals that archive for free
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"A grass-roots movement is gaining momentum among life scientists, who are pressing for the creation of a permanent, public Internet archive of life science research, provided free of charge. The "Public Library of Science" inititative, begun last November by Stanford University biochemist Patrick Brown, has picked up the support of some 1,600 scientists to date."

redux [11.13.00]
find related articles. powered by google. GenomeBiology Senior scientists promise to boycott journals
"A group of leading American scientists is promising to boycott scientific journals that refuse to make research articles available free of charge. The scientists have joined a campaign to promote the unfettered exchange of scientific information and establish a web-based public library for science."

"The supporters of the initiative believe that it will "vastly increase the accessibility and utility of the scientific literature, enhance scientific productivity, and catalyze integration of the disparate communities of knowledge and ideas in biomedical sciences." Campaigners aim to prevent the published record of scientific research, much of it paid for with public funds amounting to tens of billions of dollars a year, from being "permanently controlled and monopolized by publishers."
find related articles. powered by google. homepage
" was established to promote the unfettered exchange of scientific information and to organize community support for an international online public library of science. We are asking all scientists of all nations to sign the following letter, which we plan to publish as an open letter in May 2001. Your support will help us to persuade the publishers of scientific journals to commit to giving their archival material to the public domain for distribution through online public libraries. More information about this effort, and a list of journals that are currently compliant is available in our FAQ. Click here if you would like to sign the open letter. We welcome your questions and comments at

This website is intended to provide information about the open letter and the "public library" initiative to interested scientists, and to provide a convenient mechanism for scientists to sign the letter. Because the open letter is not intended to be "published" until May 2001, we ask that neither the letter nor the list of scientists who have signed the letter be reported elsewhere before May 2001."
redux [11.03.00]
find related articles. powered by google. BioMedNet Librarians object to science publishing merger
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"Research librarians will meet with the US Justice Department next week to discuss their concerns over publishing monopolies and increasing costs. They've asked the US government to block the merger of two of the largest scientific publishing companies in the world."

"Elsevier owns about 300 biomedical journals and Harcourt owns about 200 biomedical titles. Combining the two publishing houses will give Elsevier 33 to 45% of the market share within biomedical publishing, he says. There's no hard and fast threshold to determine anti-trust monopolies, but this number is clearly above the line, McCabe says."

redux [10.19.00]
find related articles. powered by google. Wired News The Science of E-Publishing
""Publishers are reluctant to give away content because they are concerned that advertisers may go away," said Jerome Kassirer, former editor-in-chief of the New England Journal of Medicine. "Advertisers pay more attention to the number of subscriptions to paper journals than to the number of eyeballs on any given website."

"There's a lot of anxiety that if (print journals) have an electronic offering, people will migrate online and they will lose their paper subscription revenues," agreed Tony Delamothe, editor of BMJ Online, a medical association journal that, unlike most journals, does not charge to access its electronic content.

Some insist that simply publishing electronically is not enough --and that open, free access is necessary to disseminate global research."

redux [09.20.00]
find related articles. powered by google. BioMedCentral Freedom of Information Conference: The impact of open access on biomedical research
"How should biomedical research be communicated? How should research be assessed and validated?"

"Below are abstracts, transcripts, and biographies from the conference. Some presentations did not lend themselves to transcription. Where possible we have supplemented them with editorials from the speakers.

We have also commissioned editorial articles from several speakers and delagates at the meeting.

All thoughts, comments, and suggestions are welcome on our email discussion list"
find related articles. powered by google. Advogato Open[Source]ing the Doors for Contributor-Run Digital Libraries
"What if you could wave a wand, in this very Harry Potter decade, and make libraries - at least digital libraries - more open, more easy to manage, cheaper, and even more eclectic and democratic? What if content contributors could submit, catalog, index, manage, rate and rank materials in large collections themselves? I believe that, thanks to the innovations from the Open Source community and perhaps more importantly the Free Software community, that we can have a contributor-run library at this very moment.

In fact, there are several very successful examples from which we can draw not only best practices, but also - that grail of the programmer - working code. But better still, these projects are also examples of vibrant, lively, noisy, democratic communities. "

find related articles. powered by google. Council on Library and Information Resources Systems of Knowledge Organization for Digital Libraries: Beyond Traditional Authority Files
"Librarians are increasingly called upon not only to collect information in electronic form but also to organize it into digital libraries. The materials may be created and held locally, or they may be created and accessed in a distributed fashion as a virtual library. Digital libraries can provide material on a variety of topics, from children's games to high-energy physics. Their scope may be local, national, or even international; the audience may be a small group with specialized interests or the broader public. Essential to the successful implementation and use of any digital library is the organization of that library, either directly or indirectly, by one or more knowledge organization systems (KOS).

The term knowledge organization systems is intended to encompass all types of schemes for organizing information and promoting knowledge management. Knowledge organization systems include classification and categorization schemes that organize materials at a general level, subject headings that provide more detailed access, and authority files that control variant versions of key information such as geographic names and personal names. Knowledge organization systems also include highly structured vocabularies, such as thesauri, and less traditional schemes, such as semantic networks and ontologies. Because knowledge organization systems are mechanisms for organizing information, they are at the heart of every library, museum, and archive. "

[ rhetoric ]

Bioinformatics will be at the core of biology in the 21st century. In fields ranging from structural biology to genomics to biomedical imaging, ready access to data and analytical tools are fundamentally changing the way investigators in the life sciences conduct research and approach problems. Complex, computationally intensive biological problems are now being addressed and promise to significantly advance our understanding of biology and medicine. No biological discipline will be unaffected by these technological breakthroughs.


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