Welcome to the Ares Lab Malaria Genome Browser website. This site contains the reference sequence and working draft assembly for Plasmodium Falciparum (PlasmoDb build 5.0).

Since release , we have had 1229 unique visitors with more than 7000 page views per month.

The web interface and database structure is based on the UCSC Genome Browser. We encourage you to explore these sequences with these tools. The Genome Browser zooms and scrolls over chromosomes, showing the work of annotators worldwide. Blat quickly maps your sequence to the genome. The Table Browser provides convenient access to the underlying database. Genome Graphs allows you to upload and display genome-wide data sets.

For questions, comments or problems about this Malaria (pf3) Genome Browser , please contact us or use the comment form.

For general UCSC Genome Browser questions, refer to the UCSC Genome Bioinformatics Group, a cross-departmental team within the Center for Biomolecular Science and Engineering (CBSE) at the University of California Santa Cruz (UCSC).

Oct. 31, 2007 - In the news :

UCSC Press release
GenomeWeb Daily News

Oct. 2007 - Plasmodium Falciparum Mitochondrial Genome Available

The Plasmodium Falciparum Mitochondrial genome was obtained from PlasmoDb.org , Gen Bank ID AJ276844 strain NF54.
The mitochondrial genome of P. falciparum was sequenced at the London School of Hygiene & Tropical Medicine
The data was obtained from sources affiliated with the Wellcome Trust Sanger Institute, TIGR/NRMC, and Stanford University.

Sep. 2007 - Malaria Browser (Plasmodium Falciparum , pf3) Available

The December 2005 Plasmodium falciparum 3D7 reference sequence (PlasmoDB build 5.0) was produced by the Wellcome Trust Sanger Institute, TIGR/NRMC, and Stanford University.

Created and maintained by Tim Sterne-Weiler, Jonathan Deans, Kausik Chakrabarti, John Paul Donohue and Manny Ares with the Hughes Undergraduate Research Lab

"Structural RNAs of known and unknown function identified in malaria parasites by comparative genomics and RNA analysis"
Chakrabarti K, Pearson M, Grate L, Sterne-Weiler T, Deans J, Donohue JP, and Ares M Jr.
RNA, 2007 Nov; 13(11):1923-39. Epub 2007 Sep 27

The sequence and annotation data displayed in the Genome Browser are freely available for academic, nonprofit, and personal use with the following conditions:

• Genome sequence data use restrictions are noted within the species sections on the Credits page.
• Some annotation tracks contributed by external collaborators contain proprietary data that have specific use restrictions. To check for restrictions associated with a particular genome assembly, review the database/README.txt file in the assembly's downloads directory.

The Genome Browser and Blat software are free for academic, nonprofit, and personal use. A license is required for commercial use. See the Licenses page for more information.

Program-driven use of this software is limited to a maximum of one hit every 15 seconds and no more than 5,000 hits per day.

For assistance with questions or problems regarding the UCSC Genome Browser software, database, genome assemblies, or release cycles, see the FAQ.

• Description of the annotation database
• Data organization and format
• Terminology