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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.  

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.

ERIC Newsletter
The second issue of ERIC's newsletter is online. This issue discusses simplified access to ERIC-BRC annotations, a description of ERIC's online whole genome alignment tools, a description of enteropathogen-specific protein families developed for ERIC's genomes, and an article on insertion sequence annotations in ERIC.

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
   
NetOwlNew publications from Pubmed that have had important bacterial functional findings automatically extracted. The initial list displayed represents the most recent week's titles.
1. PMID 18472904: Ferrocene-derived pyrazinoyl and nicotinoyl schiff-bases: their synthesis, characterization and biological properties.
2. PMID 18476013: Biologically Active Co(II) and Ni(II) Complexes of N-(2-Thienylmethylene)-2-Aminothiadiazole.
3. PMID 18472911: Biologically Active Transition Metal Chelates of Ni(II), Cu(II) and Zn(II) With 2-Aminothiazole-Derived Schiff-bases: Their Synthesis, Characterization and the Role of Anions (NO(3), SO(4), C(2)O(4)and CH(3)CO(2-)) on Their Antibacterial Properties.
4. PMID 18473060: Quantum dot probes for bacteria distinguish Escherichia coli mutants and permit in vivo imaging.
5. PMID 18473096: Antimicrobial susceptibility of Shigella isolates in eight Asian countries, 2001-2004.
Returned 140 Articles    Page: 
Data Summaries
   




Annotation Summary
 
Genes CDS rRNA tRNA misc_RNA pseudogenes EC # GO ID IS Elements Unique PubMed ID
Total 345,722 333,257 1,281 5,722 867 4,595 47,005 38,198 6,955 2,155
Changed 204,157 195,760 823 3,817 565 3,192 46,209 39,834 6,955 2,155


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

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Displays results of protein or nucleotide BLAST for query sequence.

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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.

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