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Supporting cognition in systems biology analysis: Findings on users' processes and design implicationsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: As the next great frontier in bioinformatics usability, tool designs for exploratory systems biology analysis need to move beyond the successes already achieved in supporting formulaic query and analysis tasks and now reduce current mismatches with several of scientists' higher order analytical practices. The implications of results for tool designs are discussed.
Source: Journal of Biomedical Discovery and Collaboration - February 13, 2009 Category: Biomedical Science Authors: Barbara Mirel Source Type: journals

Basic Blue Skies Research in the UK: Are we losing out?Email this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusion: This sample of key UK scientists and grant providers acknowledge the importance of basic blue skies research. Yet the current evaluation process often requires that scientists predict their likely findings and estimate short-term impact, which does not permit freedom of research direction. There is a vital need for prominent scientists and for universities to help the media, the public, and policy makers to understand the importance of innovative thought along with the need for scientists to have the freedom to challenge accepted thinking. Encouraging an avenue for blue skies research could have immense influen...
Source: Journal of Biomedical Discovery and Collaboration - February 29, 2008 Category: Biomedical Science Authors: Belinda Linden Source Type: journals

An open-source framework for large-scale, flexible evaluation of biomedical text mining systemsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: The software presented in this paper demonstrates the potential for novel discovery resulting from the structured evaluation of biomedical language processing systems, as well as the usefulness of such an evaluation framework for promoting collaboration between developers of biomedical language processing technologies. The code base is available as part of the BioNLP UIMA Component Repository on SourceForge.net.
Source: Journal of Biomedical Discovery and Collaboration - January 29, 2008 Category: Biomedical Science Authors: William A Baumgartner, K BRETONNEL Cohen and Lawrence Hunter Source Type: journals

Generalization through similarity: motif discourse in the discovery and elaboration of zinc finger proteinsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: More systematic application of the idea of similarity-based categorization might eliminate the assumption that biological characteristics can only contribute to narrow categorization of humans. It also raises possibilities for refining data-driven exploration efforts.
Source: Journal of Biomedical Discovery and Collaboration - October 3, 2007 Category: Biomedical Science Authors: Celeste MICHELLE Condit and L. Bruce Railsback Source Type: journals

Corpus Refactoring: a Feasibility StudyEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: We conclude that refactoring of publicly available corpora is a technically and economically feasible method for increasing the usage of data already available for evaluating biomedical language processing systems.
Source: Journal of Biomedical Discovery and Collaboration - September 13, 2007 Category: Biomedical Science Authors: Helen L. Johnson, William A. Baumgartner, Martin Krallinger, K. Bretonnel Cohen and Lawrence Hunter Source Type: journals

Nano-Bio-Genesis: Tracing the rise of nanotechnology and nanobiotechnology as 'big science'Email this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Nanotechnology research has lately been of intense interest because of its perceived potential for many diverse fields of science. Nanotechnology's tools have found application in diverse fields, from biology to device physics. By the 1990s, there was a concerted effort in the United States to develop a national initiative to promote such research. The success of this effort led to a significant influx of resources and interest in nanotechnology and nanobiotechnology and to the establishment of centralized research programs and facilities. Further government initiatives (at federal, state, and local levels) have firmly cem...
Source: Journal of Biomedical Discovery and Collaboration - July 14, 2007 Category: Biomedical Science Authors: Rajan P Kulkarni Source Type: journals

Applied information retrieval and multidisciplinary research: new mechanistic hypotheses in Complex Regional Pain SyndromeEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: The result shows the added value of a multidisciplinary approach combined with information retrieval in hypothesis discovery in biomedical research. The new hypothesis, which was derived in silico, provides a framework for further mechanistic studies into the underlying molecular mechanisms of CRPS and requires evaluation in clinical and epidemiological studies.
Source: Journal of Biomedical Discovery and Collaboration - May 4, 2007 Category: Biomedical Science Authors: Kristina M Hettne, Marissa de Mos, Anke GJ de Bruijn, Marc Weeber, Scott Boyer, Erik M van Mulligen, Montserrat Cases, Jordi Mestres and Johan van der Lei Source Type: journals

Biological information specialists for biological informaticsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Data management and integration are complicated and ongoing problems that will require commitment of resources and expertise from the various biological science communities. Primary components of successful cross-scale integration are smooth information management and migration from one context to another. We call for a broadening of the definition of bioinformatics and bioinformatics training to span biological disciplines and biological scales. Training programs are needed that educate a new kind of informatics professional, Biological Information Specialists, to work in collaboration with various discipline-specific res...
Source: Journal of Biomedical Discovery and Collaboration - February 12, 2007 Category: Biomedical Science Authors: P. Bryan Heidorn, Carole L Palmer and Dan Wright Source Type: journals

Karl Pribram, the James Arthur Lectures, and What Makes Us HumanEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
DiscussionIn his James Arthur lecture Pribram raised questions about the coding of information in the brain and about the complex association between language, symbol, and the unique human cognitive system. These questions are as pertinent today as in 1970. The emergence of modern human symbolic cognition is often viewed as a gradual, incremental process, governed by inexorable natural selection and propelled by the apparent advantages of increasing intelligence. However, there are numerous theoretical considerations that render such a scenario implausible, and an examination of the pattern of acquisition of behavioral and...
Source: Journal of Biomedical Discovery and Collaboration - November 29, 2006 Category: Biomedical Science Authors: Ian Tattersall Source Type: journals

What makes humanity humaneEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Scientific and popular lore have promulgated a connection between emotion and the limbic forebrain. However, there are a variety of structures that are considered limbic, and disagreement as to what is meant by "emotion". This essay traces the initial studies upon which the connection between emotion and the limbic forebrain was based and how subsequent experimental evidence led to confusion both with regard to brain systems and to the behaviors examined. In the process of sorting out the bases of the confusion the following rough outlines are sketched: 1) Motivation and emotion need to be distinguished. 2) Motivation and ...
Source: Journal of Biomedical Discovery and Collaboration - November 29, 2006 Category: Biomedical Science Authors: Karl H Pribram Source Type: journals

What makes man human: thirty-ninth James Arthur lecture on the evolution of the human brain, 1970Email this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
What makes man human is his brain. This brain is obviously different from those of nonhuman primates. It is larger, shows hemispheric dominance and specialization, and is cytoarchitecturally somewhat more generalized. But are these the essential characteristics that determine the humanness of man? This paper cannot give an answer to this question for the answer is not known. But the problem can be stated more specifically, alternatives spelled out on the basis of available research results, and directions given for further inquiry. My theme will be that the human brain is so constructed that man, and only man, feels the th...
Source: Journal of Biomedical Discovery and Collaboration - November 29, 2006 Category: Biomedical Science Authors: Karl H Pribram Source Type: journals

What makes us human? A biased view from the perspective of comparative embryology and mouse geneticsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
For a neurobiologist, the core of human nature is the human cerebral cortex, especially the prefrontal areas, and the question "what makes us human?" translates into studies of the development and evolution of the human cerebral cortex, a clear oversimplification. In this comment, after pointing out this oversimplification, I would like to show that it is impossible to understand our cerebral cortex if we focus too narrowly on it. Like other organs, our cortex evolved from that in stem amniotes, and it still bears marks of that ancestry. More comparative studies of brain development are clearly needed if we want to underst...
Source: Journal of Biomedical Discovery and Collaboration - November 29, 2006 Category: Biomedical Science Authors: André M Goffinet Source Type: journals

Introduction to a special series: What Makes Man HumanEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
One of the most pressing and timely scientific questions concerns the evolution of man. In 1970, Karl Pribram delivered the James Arthur Lecture at the American Museum of Natural History in New York City. His lecture, "What Makes Man Human," was one of the most eloquent and brilliant syntheses of this problem ever made. The Journal is proud to publish this Lecture for the first time in an open access format that will make its insights available widely to a new generation of students and investigators. Accompanying the lecture is a new commentary written by Prof. Pribram, and four additional commentaries from prominent inve...
Source: Journal of Biomedical Discovery and Collaboration - November 28, 2006 Category: Biomedical Science Authors: Neil R Smalheiser Source Type: journals

Tools for knowledge acquisition within the NeuroScholar system and their application to anatomical tract-tracing dataEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusion: We present a functional, working tool to permit users to populate knowledge bases for neuroanatomical connectivity data from the literature through the use of structured questionnaires. This system is open-source, fully functional and available for download from 1.
Source: Journal of Biomedical Discovery and Collaboration - August 8, 2006 Category: Biomedical Science Authors: Gully APC Burns and Wei-Cheng Cheng Source Type: journals