Software micro array???

Rodrigue fa30346 at skynet.be
Sun Dec 28 14:21:13 EST 2003


Dear Paolo,
as searcher at the University of Liège in Belgium, I'm ellaborating a DNA
micro array. I try to find a software who gives the part of sequence who has a
big spcificity: a part of the sequence who has no identity more important than
60% with all sequences of a genome.
Could you tell me if this kind of software exists to design oligos for the
micro array?
With my best regards,
Happy new year,
Rodrigue

Paolo Romano wrote:

> This message is sent to many mailing lists.
> I apologize for duplications. Paolo Romano
> ---
>
>                NETTAB 2003 Call for Papers
>
>                     Bioinformatics for
> the management, analysis and interpretation of microarray data
>
>            November 27-28, 2003, Bologna, Italy
>
>                 http://www.nettab.org/2003/
>
> NETTAB workshops are a series of workshops focused on the most
> promising and innovative ICT tools and to their usefulness in
> Bioinformatics. Participation is at an internation level, mainly
> European, and speakers are among the most known researchers in
> the field.
>
> NETTAB workshops:
>
> - Focus on a well defined, emerging, promising ICT technology
>   (not on a specific biological research topic)
> - Introduce the basic knowledge related to the technology under
>   analysis, in a non trivial way
> - Outline the promising features of the technology in bioinformatics
> - Show some valuable examples in bioinformatics or different domains
> - Allow for as much discussion as possible
> - Demonstrate "how it works" practically, through demos or tutorials
>
> Previous editions were devoted to: "CORBA and XML: towards a
> bioinformatics integrated network environment" (Genova, 17-19
> May 2001) and "Agents in Bioinformatics" (Bologna, 12-14 July 2002).
> You are welcome to visit the workshops' web site at
> http://www.nettab.org/ .
>
> The NETTAB 2003 workshop will be focused on the "Bioinformatics
> for the management, analysis and interpretation of microarray data".
> See http://www.nettab.org/2003/ .
>
> This edition will be organized also with the help of the Hormone
> Responsive Breast Cancer (HRBC) Genomics Network
> (http://www.hrbc-genomics.net/) - about 100 researchers from about
> 15 different institutions, most of them will be at the NETTAB worskhop.
> The network has been funded by the Italian Ministry of Research
> (FIRB project) for a three-years research project on the breast cancer.
> The network makes large use of microarray technology, and it is going
> to select common platforms (both experimentals and bioinformatics)
> to generate comparable results in different labs.
>
> In the last years, biomedical research has evolved through the
> development of new technologies, as the microarray technology, able to
> assay gene expression for thousands of genes at a time.
>
> This "high-throughput" technology gives the researchers the opportunity
> to investigate with a new and powerful approach the underlying genetic
> causes of many human diseases, as well as physiological aspects of
> growth and development.
>
> After few years, during which the experimental platforms and protocols
> have been assessed, microarrays applications are now quickly growing up.
> In the meantime, bioinformatics is solicited to create the tools of
> analysis and interpretation to understand the biological phenomena under
> investigation.
>
> Analysis of massive gene expression data requires statistical methods,
> data mining approaches, and data base storage and searches tools, but
> most relevant is the standardization of experimental protocols, data
> format, information describing experimentals, and other experimental and
> analytical aspects, to be able to exploit data sets from different
> laboratories in large scale analysis of data.
>
> Workshop aims are:
> - to collect the latest ideas, achievements and proposals in the
>   application of bioinformatics to the microarray data analysis and
>   interpretation,
> - to strengthen the relationships within bioinformatics community, also
>   in view of a wider sinergical effort towards common scientific aims,
> - to improve cooperation between bioinformatics and biomedical communities.
>
> The worshop is organized in sessions, where invited speakers present
> the state of art of the session's topic, and open discussions.
> Open discussions will also be based upon submitted issues and topics.
> Tutorials are also foreseen. A limited number of submissions will be
> admitted as oral communication
>
> A call for position papers, posters and oral communication is now open.
>
> Submitted contributions must address at least one of the following issues:
>
> standardization of experiments and data, including:
> - identification of information requirements,
> - use cases,
> - data models,
> - data structures,
> - data exchange formats,
> - submission formats,
> - comparison of platforms,
> - etc...
>
> analysis and management tools, including:
> - database management systems,
> - clustering tools,
> - etc...
>
> applications of bioinformatics to microarray experiments, including:
> - integrative data analysis,
> - gene expression analysis,
> - wide genome analysis,
> - toxicogenomics,
> - oncogenomics,
> - any-omics,
> - etc....
>
> Authors are encouraged to submit:
>
> Position papers: submit a short abstract (max 1 A4 pages in length,
>   size 12pt, in pdf or MS Word format) specifying research interests
>   and issues to be discussed during the workshop. Authors submitting
>   position papers do not engage themselves to present a poster.
>   Instead, they will be invited to introduce the issues during the
>   discussions. Abstracts will be printed in the abstracts book, but
>   won't be inserted in the conference proceedings.
>
> Posters: submit an extended abstract (max 3 A4 pages, size 12pt, in
>   pdf or MS Word format). Abstracts will be reviewed and acceptation
>   will be communicated to authors. Posters will be inserted in the
>   abstract book and, only if actually presented at the workshop, in
>   the conference proceedings.
>
> Oral Communications: submit an extended abstract (max 5 A4 pages, size
>   12pt, in pdf or MS Word format) as for posters. Only a very limited
>   number of abstracts will be selected as oral communications.
>   All abstracts submitted as oral communication but not selected will
>   automatically be considered as posters.
>
> Abstracts must be sent by email to: papers2003 at nettab.org
>
> Deadlines:
>
> Abstracts due: November 10, 2003.
> Notification to authors: November 17, 2003.
> Early registration: November 17, 2003
>
> On behalf of Organizing and Scientific Committees
>
> Paolo Romano
> ---
> Paolo Romano (paolo.romano at istge.it)
> National Cancer Research Institute
> Largo Rosanna Benzi, 10, I-16132, Genova, Italy
> Tel: +39-010-5737-288  Fax: +39-010-5737-295




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