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Protein Sequence and Structure Bioinformatics

Protein Sequence and Structure Bioinformatics. Friday, April 25, 2014. Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. In our latest paper, " Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. Read more over at JMB. Several protein domains with internal symmetry that CE-Symm detects. Coloring is by symmetry unit. Posted by Andreas Prlic. Links to this post. Tuesday, March 25, 2014. BioJava 3.0.8 released. As well as from the. New parser for Karyotype file from UCSC.

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Protein Sequence and Structure Bioinformatics | openbioinformatics.blogspot.com Reviews

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Protein Sequence and Structure Bioinformatics. Friday, April 25, 2014. Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. In our latest paper, Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. Read more over at JMB. Several protein domains with internal symmetry that CE-Symm detects. Coloring is by symmetry unit. Posted by Andreas Prlic. Links to this post. Tuesday, March 25, 2014. BioJava 3.0.8 released. As well as from the. New parser for Karyotype file from UCSC.

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Protein Sequence and Structure Bioinformatics | openbioinformatics.blogspot.com Reviews

https://openbioinformatics.blogspot.com

Protein Sequence and Structure Bioinformatics. Friday, April 25, 2014. Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. In our latest paper, " Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. Read more over at JMB. Several protein domains with internal symmetry that CE-Symm detects. Coloring is by symmetry unit. Posted by Andreas Prlic. Links to this post. Tuesday, March 25, 2014. BioJava 3.0.8 released. As well as from the. New parser for Karyotype file from UCSC.

INTERNAL PAGES

openbioinformatics.blogspot.com

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Protein Sequence and Structure Bioinformatics: September 2013

http://openbioinformatics.blogspot.com/2013_09_01_archive.html

Protein Sequence and Structure Bioinformatics. Wednesday, September 4, 2013. RCSB PDB September 2013 release. This week we released the latest RCSB PDB web site update. The main new features are:. New tools to search for drugs and drug targets. Improved interface for 3D visualisation using Jmol/JSmol. An update to the representation of protein symmetry and stoichiometry. Improvements when performing sequence searches. Jesse redesigned our what's new page. Posted by Andreas Prlic. Links to this post.

2

Protein Sequence and Structure Bioinformatics: August 2013

http://openbioinformatics.blogspot.com/2013_08_01_archive.html

Protein Sequence and Structure Bioinformatics. Thursday, August 1, 2013. Workshop on Sustainable Software for Science: Practice and Experiences. Interested in sustainability of scientific software? First Workshop on Sustainable Software for Science: Practice and. To held in conjunction with SC13, Sunday, 17 November 2013, Denver, CO, USA). Http:/ wssspe.researchcomputing.org.uk/. Posted by Andreas Prlic. Links to this post. Subscribe to: Posts (Atom). View my complete profile. RCSB - PDB web site.

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Protein Sequence and Structure Bioinformatics: October 2012

http://openbioinformatics.blogspot.com/2012_10_01_archive.html

Protein Sequence and Structure Bioinformatics. Sunday, October 28, 2012. RCSB PDB web site update Fall 2012. New Features at the RCSB PDB web site. This week the RCSB PDB. Released the latest major web site update. Here a quick description of some of the new features. One of the main new features is the new Protein Feature View. Domains or regions for which Homology Models are available from the ProteinModelPortal. The Protein Feature View is built using SVG graphics and extensively uses the jQuery-SVG.

4

Protein Sequence and Structure Bioinformatics: BioJava 3.0.8 released

http://openbioinformatics.blogspot.com/2014/03/biojava-308-released.html

Protein Sequence and Structure Bioinformatics. Tuesday, March 25, 2014. BioJava 3.0.8 released. BioJava 3.0.8 was released on March 25th 2014 and is available from. As well as from the. BioJava maven repository at http:/ www.biojava.org/. This release would not have been possible without contributions from. 13 developers, thanks to all for their support! BioJava 3.0.8 includes a lot of new features as well as numerous bug fixes and improvements. New parser for Karyotype file from UCSC. RCSB - PDB web site.

5

Protein Sequence and Structure Bioinformatics: Systematic Detection of Internal Symmetry in Proteins Using CE-Symm

http://openbioinformatics.blogspot.com/2014/04/systematic-detection-of-internal.html

Protein Sequence and Structure Bioinformatics. Friday, April 25, 2014. Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. In our latest paper, " Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. Read more over at JMB. Several protein domains with internal symmetry that CE-Symm detects. Coloring is by symmetry unit. Posted by Andreas Prlic. Subscribe to: Post Comments (Atom). View my complete profile. Systematic Detection of Internal Symmetry in Prote.

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spice-3d.org

Andreas Prlic Homepage

http://www.spice-3d.org/credits

This site is based on the following tools:. Theme from bootstrapstyler.com. Iconic font for Bootstrap. Most background images are by the author and are available under a CC-BY license. Library: British museum - CC-BY library image. By Nicolas de Camaret. Earth: screenshot taken from Google Earth.

spice-3d.org

Compare Time Between Time Zones

http://www.spice-3d.org/time

Time Zone Comparison Chart. Compare the times between your favorite time zones. Compare the time between different time zones. Plan conference calls at a time which is convenient for all parties. Arrange journey departure / arrival for your convenience. Considering Daylight Saving Time). Considering Daylight Saving Time).

prlic.org

Andreas Prlić Publications

http://www.prlic.org/publications

Detection of Circular Permutations within Protein Structures using CE-CP. Bliven SE, Bourne PE, Prlic A. The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Rose PW, Prlić A, Bi C, Bluhm WF, Christie CH, Dutta S, Green RK, Goodsell DS, Westbrook JD, Woo J, Young J, Zardecki C, Berman HM, Bourne PE, Burley SK. RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank. Journal of Molecular Biology.

prlic.org

Andreas Prlić CV

http://www.prlic.org/cv

I enjoy combining my IT and science skills to deliver high performance and scalable scientific algorithms, applications, and web sites for large user communities. More than 10 years of experience in software and web development. Java, Eclipse, IntelliJ, Git, Subversion, Python, MySQL, jQuery, web services, Hibernate, Apache, Tomcat, Memcached, SVG. Senior Scientist (February 2008 - Present). Http:/ www.rcsb.org. Technical and scientific lead at the San Diego team. Wellcome Trust Sanger Institute. Teachin...

spencer.bliven.us

Connections – Spencer Bliven

https://spencer.bliven.us/index.php/connections

Although I plan to keep this page reasonably professional, there are a few of my residences on the Street. Which may prove relevant. If you’re looking for dirt on my personal life these may or may not help. A stream of my thoughts. Here are some sites and resources that I’ve enjoyed or found useful. On the PDB website. Most code was written by Andreas Prlić. With some of the jCE Circular Permuations algorithm by myself. Provides a detailed and informative discussion of Washington weather.

prlic.org

Compare Time Between Time Zones

http://www.prlic.org/time

Time Zone Comparison Chart. Compare the times between your favorite time zones. Compare the time between different time zones. Plan conference calls at a time which is convenient for all parties. Arrange journey departure / arrival for your convenience. Considering Daylight Saving Time). Considering Daylight Saving Time).

prlic.org

Andreas Prlić Publications

http://www.prlic.org/about

Senior Scientist (February 2008 - Present). I am a Senior Scientist at the Protein Data Bank (PDB), University of California, San Diego (UCSD). With over 300,000 unique users per month from over 160 countries around the world, the RCSB PDB is one of the worldwide leading Biological Databases. The RCSB PDB's primary citation is in the top 100 of Nature's most-cited research of all time. I am part of the RCSB PDB leadership team and am acting as the scientific and technical lead for the San Diego team.

prlic.org

Andreas Prlic Homepage

http://www.prlic.org/credits

This site is based on the following tools:. Theme from bootstrapstyler.com. Iconic font for Bootstrap. Most background images are by the author and are available under a CC-BY license. Library: British museum - CC-BY library image. By Nicolas de Camaret. Earth: screenshot taken from Google Earth.

spice-3d.org

Andreas Prlić Publications

http://www.spice-3d.org/publications

Detection of Circular Permutations within Protein Structures using CE-CP. Bliven SE, Bourne PE, Prlic A. The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Rose PW, Prlić A, Bi C, Bluhm WF, Christie CH, Dutta S, Green RK, Goodsell DS, Westbrook JD, Woo J, Young J, Zardecki C, Berman HM, Bourne PE, Burley SK. RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank. Journal of Molecular Biology.

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A Tool for the Analysis of Complex Microbial Communities. PhyloTemp is a tool which can be used in the R environment. To visualize and cluster multiple microbial community samples based upon composition (e.g. 16S rRNA gene library taxonomic assignment or OTU composition). It is a modification of existing R heatmap and heatmap.2 (gplots) functions adding a phylogenetic aspect, as well as numerous other enhancements. If you find PhyloTemp useful please cite:. Sunday, May 16, 2010.

openbioinformatics.blogspot.com

Protein Sequence and Structure Bioinformatics

Protein Sequence and Structure Bioinformatics. Friday, April 25, 2014. Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. In our latest paper, " Systematic Detection of Internal Symmetry in Proteins Using CE-Symm. Read more over at JMB. Several protein domains with internal symmetry that CE-Symm detects. Coloring is by symmetry unit. Posted by Andreas Prlic. Links to this post. Tuesday, March 25, 2014. BioJava 3.0.8 released. As well as from the. New parser for Karyotype file from UCSC.

openbioinformatics.org

OpenBioinformatics.org

OpenBioinformatics.org: An open bioinformatis software repository. This website is created as an index page linking to several bioinformatics software developed by my lab. A suite of programs for copy number variation detection in high-density SNP genotyping platform. Genetic genomics analysis of complex data. Functional annotation of genetic variants from high-throughput sequencing data. Automated human exome/genome variants detection. Phenotype-based prioritization of candidate genes for human diseases.

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Discount Domain Name Registration. Search for your domain name now! Enter the domain name, specifiying .com, .net or .org. For example, enter: regnames.com. We can register your domain for a one time fee of $17 per domain/year* complete. No other fees are due any other registrar or the internic. Rates are as low as $14.50 for multiple domains or $13.00 for multiple domain transfers. See rates. How does it work? Check to see if your name is available,. Fill out the forms,. Multiple domain names. *. Domain...