EcoliWiki - User contributions [en]

ERIC

2008-04-14T20:45:01Z

Jmgreene:

{{Pagetop}}
[[Category:Databases]]
{|{{Prettytable}} width='30%' align = 'right'
|- align='center' bgcolor = '#ddddff'
| colspan = '2' | '''{{PAGENAME}}'''
|-
| width='30%' | Who:
| ''Nicole Perna, John Greene, and Fred Blattner''
|-
| width='30%' | What:
| ''Enteropathogen Resource Integration Center''
|-
| Where:
| SRA International and Genome Center of Wisconsin [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
|-
| Updates
|
|-
| Upcoming events
| ''link to event calendar, if applicable''
|-
| Web Services
|
|}
=About {{PAGENAME}}=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}] 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''.

=Content=
Information on diarrheagenic ''E.coli'' as well as on the related pathogens ''Salmonella'', ''Shigella'', Y''ersinia enterocolitica'', and ''Yersinia pestis''. For comparative genomics purposes, ERIC also contains information on related organisms, such as other pathogenic strains and laboratory strains of ''E.coli''.

=Using {{PAGENAME}}=
==Browsing==
Access genome-specific information from list of genomes, using the ASAP system developed in Nicole Perna's lab at UWisconsin-Madison. ASAP allows community annotation of genes, which are subject to curation.

==Searching==
ERIC allows searching from the portal as well as from within the ASAP annotation subsystem.

==Usage examples==
''Add links to additional pages describing success stories here.''

=Other sites with related content=
=Technology=
ERIC runs a JBoss portal on Sun hardware running Solaris, using Oracle 10g Enterprise Edition as the relational database. In addition to the ASAP genome annotation subsystem, ERIC allows genome visualization via the Open Source GBrowse application, genome comparison via Mauve, and microarray analysis using the mAdb system developed at NIH's Center for Information Technology.

ERIC recently added text mining of PubMed abstracts using SRA's NetOwl Extractor technology, which is based on Natural Language Processing (NLP) to extract entities, and more importantly relationships between these entities, from unstructured text.

==Web Services/API==

To be developed. [mailto://info@ericbrc.org Contact us] for methods of direct interaction with ERIC systems.

=Discussion=

=References=
Glasner, J.D., Plunkett III, G., Anderson, B., Baumler, D., Biehl, B., Burland, V., Cabot, E., Darling, A., Mau, B., Neeno-Eckwall, E., Pot, D. Yu Qiu, Y., Rissman, A., Sam Zaremba, S., Fedorko, J., Liss, P., Rusch, M., Shaker, M., Shaull, L., Shetty, P., Whitmore, J., Blattner, F.R., Greene, J.M., and Perna, N.T. (2008) Enteropathogen Resource Integration Center (ERIC) – bioinformatics support for research on biodefense-relevant enterobacteria. Nucleic Acids Research 36:D519-D523.

=External Links=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
 ASAP
==Discussion of {{PAGENAME}} on other websites==

ERIC

2008-04-14T20:43:14Z

Jmgreene:

{{Pagetop}}
[[Category:Databases]]
{|{{Prettytable}} width='30%' align = 'right'
|- align='center' bgcolor = '#ddddff'
| colspan = '2' | '''{{PAGENAME}}'''
|-
| width='30%' | Who:
| ''Nicole Perna, John Greene, and Fred Blattner''
|-
| width='30%' | What:
| ''Enteropathogen Resource Integration Center''
|-
| Where:
| SRA International and Genome Center of Wisconsin [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
|-
| Updates
|
|-
| Upcoming events
| ''link to event calendar, if applicable''
|-
| Web Services
|
|}
=About {{PAGENAME}}=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}] 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''.

=Content=
Information on diarrheagenic ''E.coli'' as well as on the related pathogens ''Salmonella'', ''Shigella'', Y''ersinia enterocolitica'', and ''Yersinia pestis''. For comparative genomics purposes, ERIC also contains information on related organisms, such as other pathogenic strains and laboratory strains of ''E.coli''.

=Using {{PAGENAME}}=
==Browsing==
Access genome-specific information from list of genomes, using the ASAP system developed in Nicole Perna's lab at UWisconsin-Madison. ASAP allows community annotation of genes, which are subject to curation.

==Searching==
ERIC allows searching from the portal as well as from within the ASAP annotation subsystem.

==Usage examples==
''Add links to additional pages describing success stories here.''

=Other sites with related content=
=Technology=
ERIC runs a JBoss portal on Sun hardware running Solaris, using Oracle 10g Enterprise Edition as the relational database. In addition to the ASAP genome annotation subsystem, ERIC allows genome visualization via the Open Source GBrowse application, genome comparison via Mauve, and microarray analysis using the mAdb system developed at NIH's Center for Information Technology.

ERIC recently added text mining of PubMed abstracts using SRA's NetOwl Extractor technology, which is based on Natural Language Processing (NLP) to extract entities, and more importantly relationships between these entities, from unstructured text.

==Web Services/API==

To be developed. [mailto://info@ericbrc.org Contact us] for methods of direct interaction with ERIC systems.

=Discussion=

=References=
=External Links=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
 ASAP
==Discussion of {{PAGENAME}} on other websites==

ERIC

2007-09-06T14:53:53Z

Jmgreene: /* About {{PAGENAME}} */

{{Pagetop}}
[[Category:Databases]]
{|{{Prettytable}} width='30%' align = 'right'
|- align='center' bgcolor = '#ddddff'
| colspan = '2' | '''{{PAGENAME}}'''
|-
| width='30%' | Who:
| ''Nicole Perna, John Greene, and Fred Blattner''
|-
| width='30%' | What:
| ''Enteropathogen Resource Integration Center''
|-
| Where:
| SRA International and Genome Center of Wisconsin [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
|-
| Updates
|
|-
| Upcoming events
| ''link to event calendar, if applicable''
|-
| Web Services
|
|}
=About {{PAGENAME}}=
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''. [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}] is...

=Content=
Information on diarrheagenic ''E.coli'' as well as on the related pathogens ''Salmonella'', ''Shigella'', Y''ersinia enterocolitica'', and ''Yersinia pestis''. For comparative genomics purposes, ERIC also contains information on related organisms, such as other pathogenic strains and laboratory strains of ''E.coli''.

=Using {{PAGENAME}}=
==Browsing==
Access genome-specific information from list of genomes, using the ASAP system developed in Nicole Perna's lab at UWisconsin-Madison. ASAP allows community annotation of genes, which are subject to curation.

==Searching==
ERIC allows searching from the portal as well as from within the ASAP annotation subsystem.

==Usage examples==
''Add links to additional pages describing success stories here.''

=Other sites with related content=
=Technology=
ERIC runs a JBoss portal on Sun hardware running Solaris, using Oracle 10g Enterprise Edition as the relational database. In addition to the ASAP genome annotation subsystem, ERIC allows genome visualization via the Open Source GBrowse application, genome comparison via Mauve, and microarray analysis using the mAdb system developed at NIH's Center for Information Technology.

==Web Services/API==

To be developed. [mailto://info@ericbrc.org Contact us] for methods of direct interaction with ERIC systems.

=Discussion=

=References=
=External Links=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
 ASAP
==Discussion of {{PAGENAME}} on other websites==

ERIC

2007-09-06T14:53:28Z

Jmgreene: /* Web Services/API */

{{Pagetop}}
[[Category:Databases]]
{|{{Prettytable}} width='30%' align = 'right'
|- align='center' bgcolor = '#ddddff'
| colspan = '2' | '''{{PAGENAME}}'''
|-
| width='30%' | Who:
| ''Nicole Perna, John Greene, and Fred Blattner''
|-
| width='30%' | What:
| ''Enteropathogen Resource Integration Center''
|-
| Where:
| SRA International and Genome Center of Wisconsin [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
|-
| Updates
|
|-
| Upcoming events
| ''link to event calendar, if applicable''
|-
| Web Services
|
|}
=About {{PAGENAME}}=
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. [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}] is...

=Content=
Information on diarrheagenic ''E.coli'' as well as on the related pathogens ''Salmonella'', ''Shigella'', Y''ersinia enterocolitica'', and ''Yersinia pestis''. For comparative genomics purposes, ERIC also contains information on related organisms, such as other pathogenic strains and laboratory strains of ''E.coli''.

=Using {{PAGENAME}}=
==Browsing==
Access genome-specific information from list of genomes, using the ASAP system developed in Nicole Perna's lab at UWisconsin-Madison. ASAP allows community annotation of genes, which are subject to curation.

==Searching==
ERIC allows searching from the portal as well as from within the ASAP annotation subsystem.

==Usage examples==
''Add links to additional pages describing success stories here.''

=Other sites with related content=
=Technology=
ERIC runs a JBoss portal on Sun hardware running Solaris, using Oracle 10g Enterprise Edition as the relational database. In addition to the ASAP genome annotation subsystem, ERIC allows genome visualization via the Open Source GBrowse application, genome comparison via Mauve, and microarray analysis using the mAdb system developed at NIH's Center for Information Technology.

==Web Services/API==

To be developed. [mailto://info@ericbrc.org Contact us] for methods of direct interaction with ERIC systems.

=Discussion=

=References=
=External Links=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
 ASAP
==Discussion of {{PAGENAME}} on other websites==

ERIC

2007-09-06T14:51:28Z

Jmgreene: /* Web Services/API */

{{Pagetop}}
[[Category:Databases]]
{|{{Prettytable}} width='30%' align = 'right'
|- align='center' bgcolor = '#ddddff'
| colspan = '2' | '''{{PAGENAME}}'''
|-
| width='30%' | Who:
| ''Nicole Perna, John Greene, and Fred Blattner''
|-
| width='30%' | What:
| ''Enteropathogen Resource Integration Center''
|-
| Where:
| SRA International and Genome Center of Wisconsin [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
|-
| Updates
|
|-
| Upcoming events
| ''link to event calendar, if applicable''
|-
| Web Services
|
|}
=About {{PAGENAME}}=
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. [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}] is...

=Content=
Information on diarrheagenic ''E.coli'' as well as on the related pathogens ''Salmonella'', ''Shigella'', Y''ersinia enterocolitica'', and ''Yersinia pestis''. For comparative genomics purposes, ERIC also contains information on related organisms, such as other pathogenic strains and laboratory strains of ''E.coli''.

=Using {{PAGENAME}}=
==Browsing==
Access genome-specific information from list of genomes, using the ASAP system developed in Nicole Perna's lab at UWisconsin-Madison. ASAP allows community annotation of genes, which are subject to curation.

==Searching==
ERIC allows searching from the portal as well as from within the ASAP annotation subsystem.

==Usage examples==
''Add links to additional pages describing success stories here.''

=Other sites with related content=
=Technology=
ERIC runs a JBoss portal on Sun hardware running Solaris, using Oracle 10g Enterprise Edition as the relational database. In addition to the ASAP genome annotation subsystem, ERIC allows genome visualization via the Open Source GBrowse application, genome comparison via Mauve, and microarray analysis using the mAdb system developed at NIH's Center for Information Technology.

==Web Services/API==

To be developed. [Contact us]mailto://info@ericbrc.org for methods of direct interaction with ERIC systems.

=Discussion=

=References=
=External Links=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
 ASAP
==Discussion of {{PAGENAME}} on other websites==

ERIC

2007-09-06T14:38:25Z

Jmgreene: /* Technology */

{{Pagetop}}
[[Category:Databases]]
{|{{Prettytable}} width='30%' align = 'right'
|- align='center' bgcolor = '#ddddff'
| colspan = '2' | '''{{PAGENAME}}'''
|-
| width='30%' | Who:
| ''Nicole Perna, John Greene, and Fred Blattner''
|-
| width='30%' | What:
| ''Enteropathogen Resource Integration Center''
|-
| Where:
| SRA International and Genome Center of Wisconsin [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
|-
| Updates
|
|-
| Upcoming events
| ''link to event calendar, if applicable''
|-
| Web Services
|
|}
=About {{PAGENAME}}=
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. [http://www.ericbrc.org/portal/eric/ {{PAGENAME}}] is...

=Content=
Information on diarrheagenic ''E.coli'' as well as on the related pathogens ''Salmonella'', ''Shigella'', Y''ersinia enterocolitica'', and ''Yersinia pestis''. For comparative genomics purposes, ERIC also contains information on related organisms, such as other pathogenic strains and laboratory strains of ''E.coli''.

=Using {{PAGENAME}}=
==Browsing==
Access genome-specific information from list of genomes, using the ASAP system developed in Nicole Perna's lab at UWisconsin-Madison. ASAP allows community annotation of genes, which are subject to curation.

==Searching==
ERIC allows searching from the portal as well as from within the ASAP annotation subsystem.

==Usage examples==
''Add links to additional pages describing success stories here.''

=Other sites with related content=
=Technology=
ERIC runs a JBoss portal on Sun hardware running Solaris, using Oracle 10g Enterprise Edition as the relational database. In addition to the ASAP genome annotation subsystem, ERIC allows genome visualization via the Open Source GBrowse application, genome comparison via Mauve, and microarray analysis using the mAdb system developed at NIH's Center for Information Technology.

==Web Services/API==

=Discussion=

=References=
=External Links=
[http://www.ericbrc.org/portal/eric/ {{PAGENAME}}]
 ASAP
==Discussion of {{PAGENAME}} on other websites==

ERIC

2007-09-06T14:34:35Z

Jmgreene: /* Searching */

ERIC

2007-09-06T14:21:57Z

Jmgreene: /* Browsing */

ERIC

2007-09-06T14:20:01Z

Jmgreene: /* About {{PAGENAME}} */

ERIC

2007-09-06T14:19:36Z

Jmgreene: /* Content */

ERIC

2007-09-06T14:17:02Z

Jmgreene: /* About {{PAGENAME}} */

ERIC

2007-08-29T22:33:15Z

Jmgreene: /* Content */

ERIC

2007-08-29T22:31:25Z

Jmgreene: