Entamoeba Facts
Entamoeba histolytica, which accounts for between 40-100,000 deaths annually, is the causitive agent of
amebiasis. Amebiasis is predominantly seen in developing countries where a high prevalence of infection is due to fecal contamination of food and water supply.
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Entamoeba Reannotation
The current version of
E. histolytica on Pathema is the reannotation of the genome. All genes from the original annotation have been mapped to the new annotation.
Available Pathema-Entamoeba Genomes
Click on the organism of interest for a list of the genomes available.
Entamoeba Strain & DNA Availability
Get information on how to obtain
Entamoeba bacteria, DNA, antibodies and antigens through the NIAID funded
BEI Resources and the
ATCC.
Genome Annotation at JCVI
The Pathema-
Entamoeba resource provides updated gene model and functional curation following standardized protocols for all publicly available
Entamoeba genomes.
Community Annotation
Community members are encouraged to participate in our annotation effort by registering and submitting updates from individual gene pages. Sign up using the link below to register for community annotation.
Entamoeba Gene Search
Highlighted Gene Tools & Lists
Compare Genomes
The Pathema-
Entamoeba resource offers several whole-genome and multi-genome comparative tools to help identify regions and proteins of interest. Homologous protein results are pre-computed using blastp and can be viewed using a number of our homology tools under the Comparative Tools menu. Sequence alignment of specific molecules can be obtained using MUMmer.
Other Analysis
Protein ortholog clusters
Precomputed protein ortholog clusters (based on the blastp results) support a number of additional gene and genome-level reports and graphical displays, including those listed below. Each protein cluster is also displayed on a cluster report page like
this one.
Compare Genes
The Pathema-
Entamoeba resource provides pre-computed blastp results for each protein against every other protein in the database. Detailed results can be obtained via the individual gene pages' Protein vs. All Alignment link. ClustalW and BER alignments are also acccesible from this gene page tool.
Functional Genomics
Functional genomics attempts to make use of the vast wealth of data produced by genomic projects to describe gene and protein functions and interactions. Functional genomics focuses on dynamic aspects such as gene transcription, translation, and protein-protein interactions, as opposed to the static aspects of the genomic information such as DNA sequence or structures. Below we list the current tools available for functional genomics studies of Entamoeba.
KEGG Pathways
KEGG Pathways are manually drawn pathway maps representing the molecular interaction and reaction networks for metabolism, other cellular processes, and human diseases.
SRI Pathway Tools
The Pathway Tools software is a bioinformatics software system for pathway analysis of genomes, and for creating Pathway/Genome Databases (PGDBs). A PGDB, such as
EcoCyc, is a bioinformatics DB that integrates genomic data with detailed functional annotations of the genome, such as descriptions of metabolic and signaling pathways. Pathway Tools was developed by
Peter D. Karp and coworkers at the
Bioinformatics Research Group at SRI International.
Transporters
TransportDB is a relational database describing the predicted cytoplasmic membrane transport protein complement for organisms whose complete genome sequence are available. For each organism, its complete membrane transport complement was identified, classified into protein families according to the TC classification system, and functional predictions are provided. Complete lists of the transporters from each organism are accessible from the pull down menus on this page.
Entamoeba Protein Catalog
The
Entamoeba Protein Catalog provides individual lists of
Entamoeba proteins including structures, metabolism enzymes, cytoskeleton proteins and vesicular trafficking.
Cytoskeleton Proteins
Vesicular Trafficking
Genome Structure Proteins
Lateral Gene Transfer
Other Resources
Favorite Tools
Here the
top used tools and searches in Pathema are listed. In the future users will be able to put their own customized favorite tools in this box.
Entamoeba Gene Search
Entamoeba Organism Search
Can't find what you are looking for on the site? Do you want to alert us to new Entamoeba news or tools? Please contact us.
