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Call for Papers for ICDM-2010 Workshop on Biological DataMining and its Applications in Healthcare PDF Print E-mail
Written by Virginia Gonzalez   
Wednesday, 26 May 2010 12:14

We are writing to invite you to submit your papers to the ICDM 2010 (http://datamining.it.uts.edu.au/icdm10/) workshop on "Biological Data
Mining and its Applications in Healthcare" (http://www1.i2r.a-star.edu.sg/~xlli/BioDM.html), which will be held in Sydney Australia on December 13 2010. ICDM, the IEEE International Conference on Data Mining, is one of the premier conferences in the field of Data Mining.

By co-locating with ICDM 2010, we hope the workshop will bring better awareness of interesting and challenging biological and medical problems
that inspire new data mining solutions, and attract the participation of researchers in the areas of data mining and machine learning who are
interested in the real-world applications of data mining in computational biology and healthcare.

1. Introduction

Scientists in biology and healthcare are facing a growing flood of biological and clinical data that they need to digest in their research.
However, their ability to generate large amounts of biological and clinical data may soon surpass their capacity to analyze and make sense
of the data generated in a timely fashion.  As scientists begin to translate their genomic research from bench to bedside, meaningful
observations and discoveries will have to be drawn from diverse data such as DNA microarrays, protein sequences, protein-protein
interactions, biological pathways, bio-images, electronic medical records, and biomedical literature.


BCBGC-10, USA, July 2010 PDF Print E-mail
Written by Virginia Gonzalez   
Wednesday, 26 May 2010 12:10

for papers: BCBGC-10, USA, July 2010

The 2010 International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics (BCBGC-10) (website:
) will be held during 12-14 of July 2010 in Orlando, FL, USA.  BCBGC is an important event in the areas of bioinformatics, computational biology, genomics and chemoinformatics and focuses on all areas related to the conference.

RepeatMasker Cluster Upgrade PDF Print E-mail
Written by Virginia Gonzalez   
Wednesday, 26 May 2010 12:06
On Tuesday May 11th we transitioned the RepeatMasker.org webservices over to a new cluster ( two of the three compute nodes are now online
).  The new cluster should help us meet the demands on the server while leaving room for increased growth over the next few years.  We also upgraded the job scheduling software which should fix a few of the problems we experienced this past month.  Details on the new cluster can be found on the hardware page (http://www.repeatmasker.org/server.html ).  Sorry for any inconvenience the recent downtime has caused.
Third European Conference on Scientific Publishing in Biomedicine and Medicine PDF Print E-mail
Written by Virginia Gonzalez   
Wednesday, 26 May 2010 12:08
27-29 May, Leiden, the Netherlands

“Changes in Medical and Life Science publishing have accelerated in the last few years and are poised to pick up even more speed in the near future. Be sure to learn of how these rapid developments impact on your work and the way you look at knowledge dissemination and exchange in all areas of the Life and Medical Sciences. Attend the Third European Conference on Scientific Publishing in Biomedicine and Medicine in Leiden, The Netherlands, from 27 to 29 May 2010. It is still possible to register your attendance.

Please visit our web site to register: http://www.lumc.nl/ecsp2010 and join the discussion with the speakers and fellow participants."
Over 35 new features available now in Geneious Pro 5.0 PDF Print E-mail
Written by Virginia Gonzalez   
Wednesday, 26 May 2010 11:57

The new improved Geneious Pro 5.0 is out and available to download now. This major new version of Geneious Pro includes numerous features suggested by our users and is packed full of new features to inspire you to deliver better research.

"Geneious is really the perfect software package for bioinformaticians, molecular biologists, and even clinical researchers, combining both power and ease of use. I am particularly impressed by the capability of the software to assemble millions of paired-end reads de novo from metagenomic data."Dr Charles Chiu - Assistant Professor, University of California San Francisco School of Medicine

Want to see the new features of Geneious Pro 5.0 in action without downloading it? Sit back, relax and enjoy our 3-minute video: http://www.geneious.com/whats_new_video

Paired-end reference assembly
Paired-end de novo assembly
Paired-end sequence visualization
5x to 10x more efficient memory use and loading speed for large contigs SNP/Variation finder
Deleted items (recycle bin/trash) to restore previously deleted items
Split view to visualize your sequence in multiple different viewers
RNA and primer secondary structure (RNA fold in the Vienna package)
Microsatellite data (.fsa) viewer (take our survey about this feature)
.caf, .fsa, .maq and .sam file format importer
.eps, .fastQ and .qual exporter
Document history
For more details visit the new features page of our website

How to call secondary peaks in Geneious Pro
Calling the secondary peaks of chromatogram data is easy in Geneious Pro, but first requires that you install the heterozygotes plugin. In the preferences, go to plugins and features and select the heterozygotes plugin from the available plugins. From the sequence menu, select find heterozygotes and choose a peak similarity percentage that matches the type of biological question you're trying to answer (~50% for heterozygotes, or lower for identifying rare alleles or variants). Choose either to annotate the secondary peaks on the sequence, or to alter the sequence itself to contain the ambiguities introduced by the secondary peak call. For further assistance, email This e-mail address is being protected from spambots. You need JavaScript enabled to view it .

"Geneious has several capabilities that have really simplified and sped up my data analysis and interpretation! I can now move fluidly from primer design, to sequence assembly, to analysis within one platform. Further, the new Sequencher contig import option in 5.0 beta allowed me to recover years of prior analyses with little problem."Dr Sher Hendrickson - Laboratory of Genetic Diversity, National Cancer Institute

Coming soon: Geneious Server™
The Geneious Server private beta will kick off in June with a select group of institutes putting it through its paces. For those of you eager to try out Geneious Server, there will be a public beta trial of Geneious Server in six to eight weeks’ time. This will allow you to test a more stable version of the beta software and provide your feedback at any time to our development team.


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