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UCSC Malaria Genome Browser

The UCSC Malaria Genome Browser is a bioinformatics research tool developed by the Hughes Undergraduate Research Laboratory and Prof. Manuel Ares Jr. at UC Santa Cruz to study the malaria genome. It brings together the full DNA sequences of several malaria parasite species alongside experimental results and known genes on a single screen. Users can search across 14 chromosomes of the malaria parasite genome, enter their own data, and compare findings across species. The browser also supports text and sequence searches to access regions of interest in the malaria genome.

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53 views2 pages

UCSC Malaria Genome Browser

The UCSC Malaria Genome Browser is a bioinformatics research tool developed by the Hughes Undergraduate Research Laboratory and Prof. Manuel Ares Jr. at UC Santa Cruz to study the malaria genome. It brings together the full DNA sequences of several malaria parasite species alongside experimental results and known genes on a single screen. Users can search across 14 chromosomes of the malaria parasite genome, enter their own data, and compare findings across species. The browser also supports text and sequence searches to access regions of interest in the malaria genome.

Uploaded by

william919
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© © All Rights Reserved
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UCSC Malaria Genome Browser

UCSC Malaria Genome Browser is a bioinformatic research tool to study the malaria genome, developed
by Hughes Undergraduate Research Laboratory together with the laboratory of Prof. Manuel Ares Jr. at the
University of California, Santa Cruz.[1]

The web interface and database structure is based on the UCSC Genome Browser.[2][3] UCSC Malaria
Genome Browser brings together on a single screen the full DNA sequences of several species of the
malaria parasite (Plasmodium sp.), alongside experimental results and previously discovered genes
collected from the literature. The program allows users to search through 14 chromosomes of the malaria
parasite's genome, enter their own sequence data and notes, and compare findings across species. The
Malaria Genome Browser also supports text and sequence based searches that provide quick, precise access
to any region of specific interest in the malaria genome. This site contains the reference genome sequence
and working draft assembly for Plasmodium falciparum from PlasmoDb,[4] the Plasmodium genome
database build 5.0.

References
1. Chakrabarti K.; Pearson, M; Grate, L; Sterne-Weiler, T; Deans, J; Donohue, JP; Ares Jr, M
(2007). "Structural RNAs of known and unknown function identified in malaria parasites by
comparative genomics and RNA analysis" (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2
040097). RNA. 13 (11): 923–39. doi:10.1261/rna.751807 (https://doi.org/10.1261%2Frna.75
1807). PMC 2040097 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2040097).
PMID 17901154 (https://pubmed.ncbi.nlm.nih.gov/17901154).
2. Mangan, M.; Williams J.; Lathe, S.; Karolchik, D.; Lathe, W. (2008). "UCSC genome browser:
deep support for molecular biomedical research". Biotechnology Annual Review. 14: 63–
108. doi:10.1016/S1387-2656(08)00003-3 (https://doi.org/10.1016%2FS1387-2656%2808%
2900003-3). ISBN 9780444532268. PMID 18606360 (https://pubmed.ncbi.nlm.nih.gov/1860
6360).
3. Kuhn, R.; et al. (2009). "The UCSC Genome Browser Database: update 2009" (https://www.
ncbi.nlm.nih.gov/pmc/articles/PMC2686463). Nucleic Acids Research. 37 (Database issue):
D755–D761. doi:10.1093/nar/gkn875 (https://doi.org/10.1093%2Fnar%2Fgkn875).
PMC 2686463 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686463). PMID 18996895
(https://pubmed.ncbi.nlm.nih.gov/18996895).
4. "The Plasmodium genome resource" (http://www.plasmodb.org/). PlasmoDB.org. Retrieved
2015-05-07.

External links
UCSC Malaria Genome Browser (http://areslab.ucsc.edu)
UCSC Genome Browser for human, vertebrate, invertebrate and other species (http://genom
e.ucsc.edu)
Ares lab page (http://ribonode.ucsc.edu)
UCSC Genome Browser tutorials (http://www.openhelix.com/downloads/ucsc/ucsc_home.sh
tml)
Retrieved from "https://en.wikipedia.org/w/index.php?title=UCSC_Malaria_Genome_Browser&oldid=1019974247"

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