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EcOH: In silico serotyping of E. coli - Supplementary material

dataset
posted on 22.04.2016 by DANIELLE INGLE

This supplementary data accompanies the manuscript "In silico serotyping of E. coli from short read data identifies limited novel O loci but extensive diversity of O:H serotype combinations within and between pathogenic lineages".

Sequences used in the EcOH database are given in EcOH Supplementary Table 1.

NCBI preliminary validation results are given in EcOH Supplementary Table 2.

Validation of phenotype from genotype on 197 EPEC isolates are in EcOH Supplementary Tables 3-5.

Diversity analyses results on 1547 E. coli are given in EcOH Supplementary Table 6.

 

Supplementary Figures 1-3 are given in EcOH Supplementary Figures.

Sequences and annotations for the novel loci identified in GEMS and the ETEC and GenomeTrakr datasets are given in GEMS_6novel_Oantigen.gbk and GT_ETEC_32novel_Oantigen.gbk. Three O-antigens with variant alleles are in Variants_prototypical_Oantigens.gbk.

Funding

NHMRC of Australia (Project Grants #1043830 to KEH, #1009296 and #1067428 to RRB; Fellowship #1061409 to KEH; Fellowship #1061435 to MI; the Bill & Melinda Gates Foundation (Grant #38874 to MML) and Victorian Life Sciences Computation Initiative (VLSCI).

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