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100,000 Articles - And The Data Scientists Who Mine Them - Bio-it World
Plos taxonomy
The PLOS Taxonomy consists of a thesaurus – the set of more than 10,000 terms and synonyms that are used as subject matter tags for PLOS articles – and the complex hierarchy by which those terms are organized. The whole system had to be custom-built for PLOS, thanks to the one…
An Example Of Ontology Driven Software Engineering
Examples of rich semantic and geospatial aggregations queries
This technology allows the Press Association to accurately semantically annotate news assets (stories and images) with linked data concepts (locations, people, organisations etc), so PA can provide APIs for their consumers based on rich semantic and geospatial aggregations…
An Exercise In Irrelevance » Blog Archive » Kblog Has Been Compromised
Knowledgeblog works but lacks a business model
So, where does this leave us? Is the whole idea of knowledgeblog broken? Personally, I do not think so. While I have been critical of the cost associated with academic publishing, I am aware that it cannot happen for free. Running and maintaining a web server takes money; it is…
Anticipating The 2010 Impact Factor — The Devil Is In The Details | The Scholarly Kitchen
Impact factor put simple
The journal impact factor is deceptively simple. A journal’s 2010 impact factor is derived by summing the citations made in 2010 to articles published during the previous two years (i.e,. 2008 and 2009) and dividing this number by the sum of the articles published during those…
Core : Three Access Levels To Underpin Open Access
Green and gold open access
Apart from the growth of OA journals, providing so-‐called Gold OA, a cornerstone of the OA movement has been a process called self-‐archiving (Green OA). Self-‐archiving refers to the deposit of a preprint or postprint of a journal or conference article in an institutional…
Feedly Wins Evernote Platform Award | Building Feedly
Integration of feeds reading and taking notes
Crime fiction author Ed James uses feedly and Evernote to conduct research for upcoming novels. “I subscribe to ten or so newspapers and sift through the stories every day, saving the interesting ones. Later, when I’m writing a new novel, I look through the articles, both for…
From Encyclopedia To Ontology: Toward Dynamic Representation Of The Discipline Of Philosophy
Too much metacontent to manage by hand
The innovative nature of the work, however, brings with it a host of new difficulties not faced by traditional encyclopedias. It is increasingly impractical, for instance, to have editorial staff manually manage cross-references, tables of contents, search keywords, and other…
How Books Will Become Machines
The future of books in the 1880s
The future of books in the 1880s. ‘Many books and stories may not see the light of print al all; they will go into the hands of their readers, or hearers rather, as phonograms’ Hubert, Philippe in an 1889 essay in the Atlantic Monthly. The same year, Edward Bellamy predicted in…
Iannotate — Whatever Happened To The Web As An Annotation System? | The Scholarly Kitchen
Personal versus social annotation
We need to distinguish personal annotation from social annotation. Much of Todd’s article seems to refer to the latter (note that this sentence refers to the entire article). Social annotation requires far more than placing anchors. The case I worked on was integrating public…
Microattribution - Wikipedia, The Free Encyclopedia
Microattribution (definition)
The term microattribution (a form of data citation) was first defined as "giving database accessions the same citation conventions and indices that journal articles currently enjoy". In the sense that the purpose of precise attribution is to extend the scholarly convention of…
Micropublications: A Semantic Model For Claims, Evidence, Arguments And Annotations In Biomedical Communications
Nanopublications were not designed for ordinary articles
There is no suggestion in the current specification that nanopublications may be applied directly to ordinary scientific articles, nor that they are de- signed to present primary scientific evidence – although more expansive claims have been made elsewhere in the literature…
Micropublications model arguments and evidence in articles
The micropublications model is adapted to the Web, and designed for (a) representing the key arguments and evidence in scientific articles, and (b) supporting the “layering” of annotations and various useful formalizations upon the full text paper.
Nature-branded Journal Goes Open Access-only: Can We Celebrate Already? | Open Knowledge Foundation Blog
Open access can lead to a proliferation of predatory publishers
The advancement of open access via the gold model also involves another risk: the proliferation of predatory publishers. They are the ones that make open access publishing (with payment by authors or institutions) a business where profit is maximized through the drastic…
Prof.dr. B. Mons
Evolution of web publishing
The period in which ‘web publishing’ apparently meant ‘putting dead PDF’s on the Internet’ is as good as over. However, the so called ‘article of the furture’, in fact not more than a mishappened Christmas tree of hyperlinks in the text that was originally meant for reading, is…
Resistance to digital methods
Ever since, approximately half of our research output is still on methodological improvements in biodata mining, disambiguation, and associative reasoning. However, the other half, and growing, is on actual knowledge discovery processes and new biological findings, only later…
Confirmational reading
The use of scientific literature and databases is rapidly shifting from ‘exploratory’ reading to ‘confirmational reading’ to check elements of the hypotheses that massive data analyses throw at us. This requires a very different role for scholarly communication and this is not…
The Diggicore Project: Aggregating And Mining The World Of Open Access Articles
Paid APCs should mean open machine access
High Article Processing Charges (APCs) have been paid for many of these articles to be available under a licence permitting re-use, such as CC-BY. We believe that restricting machine access to such articles violates the principles of openness and is at minimum unfair with…
What Authors Want From Open Access Publishing | Stm Publishing
Wiley survey: what authors want from open access
John Wiley & Sons, Inc., today announced the results of an author survey on open access, with over ten thousand respondents from across Wiley’s journal portfolio. The research explored the factors that authors assess when deciding where to publish, and whether to publish…
What Is A Versioned Article Cited In Medline/pubmed?
Version of record
A Version of Record is: "A fixed version of a journal article that has been made available by any organization that acts as a publisher by formally and exclusively declaring the article "published"." This NISO definition applies to every published article.
World War 1 As Linked Open Data
Wikipedia is not accurate enough for historical research
..while Wikipedia contains numerous articles related to military history, many historians remain sceptical of it as a resource for either themselves or their students [19]. Indeed, while Wikipedia seems reassuringly accurate compared to traditional reference sources in the…