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Re: Special Issue of Journal of Web Semantics on Data Linking

From: Helena Deus <helenadeus@gmail.com>
Date: Mon, 23 Apr 2012 15:48:38 +0100
Message-ID: <CAPkJ_9=ZkEKb8roUeZ_Ph+eB+c1PG6gaszFG=A8AKdT=4S2SxQ@mail.gmail.com>
To: "M. Scott Marshall" <mscottmarshall@gmail.com>
Cc: Michael Miller <Michael.Miller@systemsbiology.org>, HCLS <public-semweb-lifesci@w3.org>
can't make it today :(
but would be happy to read the meeting minutes, if you make these available

cheers,
Lena

On Mon, Apr 23, 2012 at 3:44 PM, M. Scott Marshall <mscottmarshall@gmail.com
> wrote:

> > these are at the essence of one aspect of systems biology, to which i
> > would add significance testing, i.e. most significant differentially
> > expressed genes.
> >
> > can our bioRDF paper be extended to show how gene sets can be created and
> > compared using semantic web technologies from raw gene expression data?
>
> Agreed. I have always wanted to be able to take more factors into
> consideration when performing significance analysis, such as pathways,
> co-regulated genes, common transcription factors, and other knowledge
> about the genes and conditions related to the probe being analyzed.
> That, in contrast with, looking at GO enrichment after the
> significance analysis has been done.
>
> Let's talk about this in the BioRDF / LODD telcon starting at 11AM ET
> today.
>
> Cheers,
> Scott
>
> > Michael Miller
> > Software Engineer
> > Institute for Systems Biology
> >
> >> -----Original Message-----
> >> From: M. Scott Marshall [mailto:mscottmarshall@gmail.com]
> >> Sent: Monday, April 23, 2012 2:54 AM
> >> To: HCLS
> >> Subject: Fwd: Special Issue of Journal of Web Semantics on Data Linking
> >>
> >> FYI -Scott
> >> ---------- Forwarded message ----------
> >> From: François Scharffe <francois.scharffe@lirmm.fr>
> >> Date: Mon, Apr 23, 2012 at 11:05 AM
> >> Subject: Special Issue of Journal of Web Semantics on Data Linking
> >> To: "public-lod@w3.org" <public-lod@w3.org>
> >>
> >>
> >> * Apologies for cross-posting *
> >>
> >> This special issue of the Journal of Web Semantics focuses on the
> >> problem of finding links between datasets published as linked data.
> >>
> >> Today the web of data has become a reality. The ever increasing number
> >> of datasets published as RDF according to the linked data principles,
> >> the support of major search engines, e-commerce sites and social
> >> networks give no doubt that the early scenarios of the semantic Web
> >> vision will soon become a reality.
> >>
> >> The power of the web lies in its networked structure, in the
> >> connections between the resources it contains. Similarly, linked data
> >> enable the interlinking of data resources so that databases become
> >> interconnected and the information they contain become part of a huge
> >> distributed database. The transformation of the Web from a “Web of
> >> documents” into a “Web of data”, as well as the availability of large
> >> collections of sensor generated data (“internet of things”), is
> >> leading to a new generation of Web applications based on the
> >> integration of both data and services. At the same time, new data are
> >> published every day out of user generated contents and public Web
> >> sites.
> >>
> >> This emergence of the Web of data raises many challenges, such as the
> >> need of comparing and matching data with the goal of resolving the
> >> multiplicity of data references to the same real-world objects and of
> >> finding useful and relevant similarities and correspondences among
> >> data. The Web needs techniques and tools for the discovery of data
> >> links, and a suitable theory for the understanding and definition of
> >> the data links meaning.
> >>
> >> About data links, one of the most important goals is to provide means
> >> to ensure that the interconnection between data is effective. The
> >> design of algorithms, methodologies, languages and tools that provide
> >> more efficient and automated ways to link data is essential for the
> >> growth of the Web of data rather than a set of disjoint data islands.
> >>
> >> While the problems of entity resolution have been studied in the
> >> database community for a long time, the Web of data environment
> >> presents new important challenges at different levels. Large volumes
> >> of data and the variety of repositories which have to be processed
> >> rise the need for scalable linking techniques which require minimal
> >> user involvement. On the other hand, in cases where user configuration
> >> effort is required, there is a need for tools to be usable by
> >> non-experts in the domain.
> >>
> >> Given that published data links can be used by automatic reasoning
> >> tools, it is important to capture the meaning of links in a precise
> >> way. Since quality of automatically generated links can vary, their
> >> provenance and reliability have to be modelled in an explicit way.
> >> Finally, to capture and compare the reliability of different tools and
> >> techniques, there is a need for evaluation methods for automatic data
> >> linking approaches.
> >>
> >> Challenges
> >>
> >> • Automating the process of finding links between Web datasets
> >> • Scaling data linking algorithms
> >> • Representation and interpretation of links
> >> • Providing efficient user interfaces and interaction methods
> >> • Modeling and reasoning on links trust and provenance information
> >>
> >> Topics of Interest
> >>
> >> The topics of interest for this special issue include but are not
> >> limited to the following.
> >>
> >> • data linking tools and frameworks
> >> • techniques for automated data linking
> >> • data similarity measures
> >> • similarity spreading measures
> >> • schema-based similarity measures
> >> • candidate dataset selection and datasets similarity measures
> >> • statistical analysis techniques
> >> • semi-supervised, learning-based data linking methods
> >> • optimization methods for computing similarity
> >> • web data sampling techniques
> >> • identity representation and semantics
> >> • reasoning on links, link propagation
> >> • user interaction for link elicitation and validation
> >> • provenance and trust models on links
> >> • methods for link quality assessment
> >> • innovative applications using links
> >> • evaluation of data linking techniques and tools
> >>
> >> Important Dates
> >>
> >> We will review papers on a rolling basis as they are submitted and
> >> explicitly encourage submissions well before the final deadline.
> >>
> >> • 1 June: submission deadline
> >> • 1 September: initial decisions and notifications
> >> • 1 October: major/minor revisions due
> >> • 1 November: final minor revisions due
> >> • 1 December: final decisions and notifications
> >> • 1 January: preprints available publication in 2013
> >>
> >>
> >> Instructions for submission
> >>
> >> Please see the author guidelines for detailed instructions before you
> >> submit. Submissions should be conducted through Elsevier’s Electronic
> >> Submission System. More details on the Journal of Web Semantics can be
> >> found on its homepage. See the JWS Guide for Authors for details on
> >> the submission process.
> >>
> >>
> >> Editors
> >>
> >> • Alfio Ferrara (Università degli Studi di Milano)
> >> • Andriy Nikolov (Open University)
> >> • François Scharffe (LIRMM, Université de Montpellier 2)
>
>


-- 
Helena F. Deus
Post-Doctoral Researcher at DERI/NUIG
http://lenadeus.info/
Received on Monday, 23 April 2012 14:49:32 GMT

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