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ERIC News
  
Welcome to ERIC! - the Enteropathogen Resource Integration Center.

ERIC is one of eight Bioinformatics Resource Centers (BRC) for Biodefense and Emerging/Re-Emerging Infectious Diseases. Funded by the National Institute of Allergy and Infectious Diseases (NIAID), ERIC serves as an information resource for five members of the bacterial family Enterobacteriaceae.  

Virulence Genes in ERIC
ERIC introduces an easier way to research virulence genes. From the Genome Tools page, you can now select from a list of known and putative virulence factors to see and download relevant annotations, sequences, and other detailed information.

ERIC Introduces Literature Text Mining
Using a powerful, proven text mining technology from SRA, ERIC now processes PubMed abstracts daily to present the Latest Articles in the past week relevant to enteropathogens. Click on Text Mining under the Genomes Tools menu bar above to see the recent articles, or to search PubMed abstracts (beyond just enteropathogens) by keyword, PubMed ID, or within a date range. All results show the PubMed abstract highlighted with extracted entities (such as genes and mutations), their roles, and relationships with those entities.

Request an Account
Participate in the ERIC community. ERIC has a new portal page for obtaining a user account. Request a free account to annotate genomes. Your input is extremely valuable.

Training: Introduction to ERIC-BRC
Please join us for a web-enabled live demo of ERIC-BRC. This quick introduction to our bioinformatics portal will introduce you to the most commonly used features and workflows for finding, adding, and analyzing genomic and proteomic data associated with our enteropathogens. We welcome requests for ad hoc training sessions; visit the registration page for more detailed information.

Literature Text Mining
   
NetOwlThe most recent week's enteropathogen related abstracts from PubMed are available here, analyzed by ERIC-NetOwl to extract relevant facts on bacterial genomics. Click here for a full page listing.
1. PMID 18646405: Studies on the survival of enterohemorrhagic and environmental Escherichia coli strains in wastewater and in activated sludges from dairy sewage treatment plants.
2. PMID 18649306: Evaluation of Organophosphorus Chemicals-Degrading Enzymes: A Comparison of Escherichia coli and Human Cytosolic Aminopeptidase P.
3. PMID 18646451: Salmonella Enteritidis-induced alteration of inflammatory CXCL chemokine messenger-RNA expression and histologic changes in the ceca of infected chicks.
4. PMID 18646464: Fowl typhoid: assessment of a disinfectant oral dose to reduce horizontal spread and mortality.
5. PMID 18646523: [Comparison of the effects of chlorine dioxide, sodium hypochlorite and their combination on simulative water disinfection]
Returned 140 Articles    Page: 
Data Summaries
   




Annotation Summary
 
Genes CDS rRNA tRNA misc_RNA pseudogenes EC # GO ID IS Elements Unique PubMed ID
Total 467,854 452,769 1,689 7,446 1,078 4,872 72,728 293,662 7,054 2,252
Changed 442,251 431,480 1,190 5,374 708 3,499 71,998 295,196 7,054 2,252


Genome Summary
 
Class of Organism Complete Draft Total
Diarrheagenic Escherichia coli 6 17 23
Shigella spp. 8 2 10
Salmonella spp. 6 0 6
Yersinia enterocolitica 1 0 1
Yersinia pestis 6 10 16
Reference Genomes 16 6 22
Totals: 43 35 78

Search Annotations
  

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Tools
  

Annotations
Displays comprehensive annotations, history, sequence, external DB links, etc.
   Virulence Genes in ERIC    Guide to Annotation

BLAST
Displays results of protein or nucleotide BLAST for query sequence.

Graphical Genome Browser
Displays query location and content on respective genome(s).

Microarray Analysis:
An integrated set of web-based analysis tools and a data management system for storing and analyzing gene expression data.
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   Guide to mAdb
   Affymetrix Upload

Mauve
Rapid alignment of multiple whole genomes.

Text Mining
Uses text mining technology to retrieve user-selected PubMed abstracts and to display functional relationships for genes and other biological molecules.

Latest Genome Additions
  

ERIC Genomes