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EcID specifications

Information


Unique identifier OMICS_18722
Name EcID
Alternative name Escherichia coli Interaction Database
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained No

Taxon


  • Bacteria
    • Escherichia coli

Maintainer


This tool is not available anymore.

Publication for Escherichia coli Interaction Database

EcID citations

 (4)
library_books

DNA microarray based assessment of virulence potential of Shiga toxin gene carrying Escherichia coli O104:H7 isolated from feedlot cattle feces

2018
PLoS One
PMCID: 5927410
PMID: 29708991
DOI: 10.1371/journal.pone.0196490

[…] ) at 37°C. Total DNA was extracted from 1 ml of the culture and fragmented by a brief digestion with RQ1 RNase-Free DNase I. The 3' end of the digested DNA was labelled with biotin, hybridized to FDA-ECID array and incubated for 16 h at 45°C. The presence or absence of each gene was determined using Robust MultiArray Averaging (RMA) method and MAS5.0 algorithm. Robust MultiArray Averaging (RMA) su […]

library_books

FDA Escherichia coli Identification (FDA ECID) Microarray: a Pangenome Molecular Toolbox for Serotyping, Virulence Profiling, Molecular Epidemiology, and Phylogeny

2016
Appl Environ Microbiol
PMCID: 4959244
PMID: 27037122
DOI: 10.1128/AEM.04077-15

[…] Upon comprehensive evaluation of 103 strains of E. coli, the FDA-ECID microarray was demonstrated to be a rapid and reliable molecular typing tool capable of differentiating potential disease-causing strains of E. coli from nonpathogenic strains. The array was able […]

library_books

Advances in Molecular Serotyping and Subtyping of Escherichia coli†

2016
Front Microbiol
PMCID: 4853403
PMID: 27199968
DOI: 10.3389/fmicb.2016.00644

[…] oups involved spotting O-group-specific wzx or wzy gene oligonucleotides or PCR products onto the chip and hybridized with labeled PCR products of the entire O-AGCs (). reported on the use of an FDA-ECID (E. coli identification) microarray for O- and H-typing of E. coli. The ECID chip was designed based on >250 E. coli genomes and incorporates over 40,000 E. coli genes, including O- and H-group-s […]

library_books

Inferring a protein interaction map of Mycobacterium tuberculosis based on sequences and interologs

2012
BMC Bioinformatics
PMCID: 3348046
PMID: 22595003
DOI: 10.1186/1471-2105-13-S7-S6

[…] [] was employed and a radial basis function was chosen as the kernel function in our implementation. The positive pairs of training are those known interactions which are experimentally validated in EcID. There were 14,058 pairs of positive interactions. We selected the negative set by choosing the pairs when the length of shortest path between the two terminals in EcID network is larger than a g […]

Citations

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EcID institution(s)
Structural Biology and Biocomputing Programme, Spanish National Cancer Research Centre–CNIO, Madrid, Spain; Computer Sciences Department, Universidad Carlos III de Madrid, Spain
EcID funding source(s)
Supported by EC [LSHG-CT-2003-503265 (BioSapiens) and LSHG-CT- 2004-512092 (EMBRACE)].

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