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Molecular visualization
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| News & Commentary |
DATES: January 20-22, 2009
LOCALE: Birla Institute of Scientific Research, Jaipur, India
BISR is known for providing a high quality training in advance area of biotechnology and bioinformatics. This workshop will enable participants to learn about the current trends in genome technologies and bioinformatics approaches that are being used to decipher and analyze genome of an organism. The workshop will feature morning lectures, demonstrations from the experts with evening hands-on session in bioinformatics lab.
The topics to be addressed during the workshop include: Overview of Computational Genomics, Bioinformatics Resources and Information Retrieval, Genome Sequencing Technologies, Sequence Alignments: Pairwise, BLAST and FASTA tools, Genome Assembly and Annotation, Comparative Genomics, Genomics in Drug Discovery / Personal Genomics, Genome Analysis using Online Tools, GCG and Exome Sequence Analysis Package, Microbial Genomics, Multiple Sequence Alignment and Phylogenetics Tree Reconstruction.
REGISTRATION DEADLINE:
Last date of registration is 10th January 2009. Application form and brochure can be downloaded from the website.
FOR MORE INFORMATION:
Visit http://www.bisr.res.in or email to the convener at training.bisr@gmail.com
URL: [link]
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Evidence of continuing professional development is increasingly important to scientists planning a career move, whether this is to be a promotion or simply a change in direction. Our online courses in computational biology are designed to enable biologists and computer scientists to update their skills while remaining in the workplace. These masters level courses follow two themes, Bioinformatics and Computer Science. The bioinformatics courses are:
- Introduction to Molecular Biology for Computer Scientists
- Introduction to Bioinformatics
- Bioinformatics for Systems Biology
- Introduction to Microarray Data Analysis
- Theory and Applications in Bioinformatics
- The Bioinformatics of Protein Structure
- The Science of Proteomics
- Molecular Modelling and Structure-based Drug Design
The computing courses are:
- Introduction to Software Development in Java
- Intermediate Java
- Biocomputing
- Object-oriented Analysis and Design with UML
- Introduction to Ontologies for the Biosciences
FOR MORE INFORMATION:
You will find further information, including fees and a link to the online application form, here: [link]
If you have any questions, or need advice on the module options, please contact Heather.Vincent@manchester.ac.uk
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DATES: 18-20 March 2009
LOCALE: Genova, Italy
First Announcement and Preliminary Call for Papers
The Sixth Annual Meeting of the Bioinformatics Italian Society (BITS 2009) aims at presenting some of the hottest bioinformatics achievements, as well as a landscape of Italian bioinformatics research. It is also intended to allow young researchers to present their work in a collaborative and supporting atmosphere.
BITS 2009 will include keynote lectures, oral communications, posters presentations and tutorials. Social activities will include a welcome reception, a guided tour of the historical city center of Genoa, one of the oldest towns in Italy, and the social dinner.
FOR MORE INFORMATION:
http://bits09.istge.it/
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Gene order is rapidly lost in prokaryotic genomes. However, persistent synteny blocks are found when comparing more or less distant species. These genes that remain consistently adjacent are appealing candidates for the study of genome evolution and a more accurate definition of their functional role. Such studies require visualizing conserved synteny blocks in a large number of genomes.
SynteView is an Open Source software that is designed to visualize conserved synteny blocks in a large number of genomes after choosing one of them as a reference. SynteView functions with pre-computed comparison data stored either in SynteBase or in a home-made relational database of personal data.
AVAILABILITY:
SynteView is accessible through Java Webstart at http://www.synteview.u-psud.fr.
REFERENCE:
See complete information in an Open Access article:
Lemoine F., Labedan B. & Lespinet O. 2008. SynteBase/SynteView, a tool to visualizing gene order conservation in prokaryotic genomes. BMC Bioinformatics, 9:536
FOR MORE INFORMATION:
More help can be found at [link]
Any comments are welcome.
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DATE: July 15, 2009
LOCALE: Barcelona, Spain
Paper Submission Deadline: February 25, 2009
The International Symposium of Information Visualization in Biomedical Informatics (IVBi) is a forum for the presentation of original papers in information visualization theory and applications to biomedical and biomolecular data and processes. The symposium covers all aspects of visualization and issues affecting interaction with large and complex data sets. We encourage the submission of papers covering new techniques, old techniques applied in novel ways, new methods, interesting applications and in-depth surveys.
Proceeding will be published by the IEEE Computer Society, with ISBN number, and to be indexed by IEEE Xplore and other major bibliographical search engines.
FOR MORE INFORMATION:
Symposium URL: [link]
IV 2009 URL: http://www.graphicslink.co.uk/IV09/
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DATES: January 26-28, 2009
LOCALE: Boston, Massachusetts
The Bioinformatics Organization (Bioinformatics.Org) will hold a 3-day workshop on gene expression analysis and SNP microarray data analysis using the dChip software (http://www.dchip.org) developed by Harvard University Associate Professor Cheng Li.
This hands-on course in Boston will teach the workings of the dChip application and cover topics such as importing arrays, performing normalization, model based expression calculations, gene and SNP filtering, clustering, linkage, LOH and copy number analysis.
FOR MORE INFORMATION:
[link]
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Intel® Summary Statistics Library 1.0 Update is available for downloading. It includes several features and benefits:
1. Algorithm for parameterization of correlation matrix. The algorithm transforms the input which lacks property of positive semidefiniteness into the output meeting properties of correlation matrix. The algorithm is based on spectral decomposition method and can be used in financial computations.
2. Algorithm for computation of quantiles for streaming data. Computation of quantiles is done with pre-defined deterministic error and is highly efficient in terms of memory and speed. The algorithm can be used for processing of datasets which arrive in blocks.
3. Optimized algorithm for detection of outliers in datasets. The algorithm effectively utilizes all available cores of a multi-core system.
4. Dynamic libraries for IA-32/Intel® 64 Windows* and Linux* based platforms. Intel® Summary Statistics Library now provides greater flexibility of linking your application.
Intel® Summary Statistics Library is solution for parallel processing and analysis of multi-dimensional datasets. It contains algorithms for computation of moments, skewness, kurtosis, variation coefficient, quantiles/order statistics. The library includes rich set of variance-covariance matrix estimators. The solution provides robust methods, tools for detection of outliers and support of missing values in datasets. Extended set of the library algorithms provide “progressive processing” support that is, allows analyzing the data which arrive in blocks.
The algorithms of the library heavily exploit multi-core/SSE advantages of processors.
AVAILABILITY:
The library supports C and Fortran API. Windows*/Linux* versions of the library for IA-32/Intel® 64 platforms can be downloaded at [link]
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DATES: January 12-14, 2009
LOCALE: Leipzig, Germany
Register by December 17, 2008 to attend this workshop at the Institute for Medical Informatics, Statistics and Epidemiology, Leipzig, Germany. Practical sessions, lectures and discussions will give you an insight into key computational approaches in stem cell research.
TOPICS:
- Spatio-temporal tissue models
- Stem cell ontology/ontological modelling
- Data integration/analysis
- Dynamical modelling of transcription factor interaction
FOR MORE INFORMATION:
Full programme and registration: [link]
REGISTRATION CLOSING DATE: December 17, 2008
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From the YouTube posting of the full video:
``On December 9, 1968, Douglas C. Engelbart and the group of 17 researchers working with him in the Augmentation Research Center at Stanford Research Institute in Menlo Park, CA, presented a 90-minute live public demonstration of the online system, NLS, they had been working on since 1962. The public presentation was a session in the of the Fall Joint Computer Conference held at the Convention Center in San Francisco, and it was attended by about 1,000 computer professionals. This was the public debut of the computer mouse. But the mouse was only one of many innovations demonstrated that day, including hypertext, object addressing and dynamic file linking, as well as shared-screen collaboration involving two persons at different sites communicating over a network with audio and video interface.''
Many of these technologies now serve as the basis of online "webinars," including of course Bioinformatics.Org's online conferences and courses.
Video (in parts) at YouTube:
(1/9) http://youtube.com/watch?v=JfIgzSoTMOs
(2/9) http://youtube.com/watch?v=a11JDLBXtPQ
(3/9) http://youtube.com/watch?v=61oMy7Tr-bM
(4/9) http://youtube.com/watch?v=fNXLK78ZaFo
(5/9) http://youtube.com/watch?v=7zz1SwCTCEE
(6/9) http://youtube.com/watch?v=6dVNxlLYTsQ
(7/9) http://youtube.com/watch?v=XiJA7_Sw9aM
(8/9) http://youtube.com/watch?v=EI8LZKW5Lwk
(9/9) http://youtube.com/watch?v=VYDg2wr2QfI
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LOCALE: Moscone North Convention Center, San Francisco, California
DATES: February 25-27, 2009
CHI's flagship event, the MOLECULAR MEDICINE TRI-CONFERENCE provides the breadth and depth of information critical to your organization's success. The 2009 event includes ELEVEN parallel tracks that provide compelling and in-depth insight into the future of molecular medicine. These tracks add up to an indispensable conference for professionals grappling with the challenges of delivering 21st century medicine.
Conferences Include: Sixth Annual Molecular Diagnostics, Sixth Annual Mastering Medicinal Chemistry, Fourth Annual The Stem Cells Congress, Sixth Annual Executive Summit on Strategy and Innovation, Fifth Annual Preclinical Drug Safety, Inaugural Preclinical Development of Biologics, Fifth Annual Translational Medicine, Fifth Annual Pathway Analysis, Inaugural Adopting Integrated R&D Informatics Systems, Third Annual Cancer Molecular Markers, and Inaugural Companion Diagnostics
Register By December 12, 2008 and save up to $350: [link]
FOR MORE INFORMATION:
[link]
For more information on The Molecular Medicine Tri-Conference visit: http://www.Tri-Conference.com/
(CHI is and has been a sponsor of Bioinformatics.Org.)
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| Acknowledgments |
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We wish to thank the following for their support:
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