12 research outputs found
LAITOR - Literature Assistant for Identification of Terms co-Occurrences and Relationships
BACKGROUND: Biological knowledge is represented in scientific literature that often describes the function of genes/proteins (bioentities) in terms of their interactions (biointeractions). Such bioentities are often related to biological concepts of interest that are specific of a determined research field. Therefore, the study of the current literature about a selected topic deposited in public databases, facilitates the generation of novel hypotheses associating a set of bioentities to a common context. RESULTS: We created a text mining system (LAITOR: Literature Assistant for Identification of Terms co-Occurrences and Relationships) that analyses co-occurrences of bioentities, biointeractions, and other biological terms in MEDLINE abstracts. The method accounts for the position of the co-occurring terms within sentences or abstracts. The system detected abstracts mentioning protein-protein interactions in a standard test (BioCreative II IAS test data) with a precision of 0.82-0.89 and a recall of 0.48-0.70. We illustrate the application of LAITOR to the detection of plant response genes in a dataset of 1000 abstracts relevant to the topic. CONCLUSIONS: Text mining tools combining the extraction of interacting bioentities and biological concepts with network displays can be helpful in developing reasonable hypotheses in different scientific backgrounds
Mechanics: non-classical, non-quantum
A non-classical, non-quantum theory, or NCQ, is any fully consistent theory
that differs fundamentally from both the corresponding classical and quantum
theories, while exhibiting certain features common to both. Such theories are
of interest for two primary reasons. Firstly, NCQs arise prominently in
semi-classical approximation schemes. Their formal study may yield improved
approximation techniques in the near-classical regime. More importantly for the
purposes of this note, it may be possible for NCQs to reproduce quantum results
over experimentally tested regimes while having a well defined classical limit,
and hence are viable alternative theories. We illustrate an NCQ by considering
an explicit class of NCQ mechanics. Here this class will be arrived at via a
natural generalization of classical mechanics formulated in terms of a
probability density functional
Lorentz breaking Effective Field Theory and observational tests
Analogue models of gravity have provided an experimentally realizable test
field for our ideas on quantum field theory in curved spacetimes but they have
also inspired the investigation of possible departures from exact Lorentz
invariance at microscopic scales. In this role they have joined, and sometime
anticipated, several quantum gravity models characterized by Lorentz breaking
phenomenology. A crucial difference between these speculations and other ones
associated to quantum gravity scenarios, is the possibility to carry out
observational and experimental tests which have nowadays led to a broad range
of constraints on departures from Lorentz invariance. We shall review here the
effective field theory approach to Lorentz breaking in the matter sector,
present the constraints provided by the available observations and finally
discuss the implications of the persisting uncertainty on the composition of
the ultra high energy cosmic rays for the constraints on the higher order,
analogue gravity inspired, Lorentz violations.Comment: 47 pages, 4 figures. Lecture Notes for the IX SIGRAV School on
"Analogue Gravity", Como (Italy), May 2011. V.3. Typo corrected, references
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