Genomics

Dataset Information

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Imputed_bacterial_meningitis

ABSTRACT: This study includes 1146 samples of host genotyping data (imputed) from Illumina Omni arrays, using https://imputation.sanger.ac.uk/ with the Haplotype Reference Consortium v1.1. Samples were collected from adults (>16 yrs) patients with CSF confirmed bacterial meningitis in the Netherlands between 2006 and 2015. Metadata includes patient outcome, species of bacteria, and for 467 samples a link to an ENA run with the associated bacterial genome (S. pneumoniae only).

PROVIDER: EGAD00010002327 | EGA |

REPOSITORIES: EGA

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Publications

Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis.

Lees John A JA   Ferwerda Bart B   Kremer Philip H C PHC   Wheeler Nicole E NE   Serón Mercedes Valls MV   Croucher Nicholas J NJ   Gladstone Rebecca A RA   Bootsma Hester J HJ   Rots Nynke Y NY   Wijmega-Monsuur Alienke J AJ   Sanders Elisabeth A M EAM   Trzciński Krzysztof K   Wyllie Anne L AL   Zwinderman Aeilko H AH   van den Berg Leonard H LH   van Rheenen Wouter W   Veldink Jan H JH   Harboe Zitta B ZB   Lundbo Lene F LF   de Groot Lisette C P G M LCPGM   van Schoor Natasja M NM   van der Velde Nathalie N   Ängquist Lars H LH   Sørensen Thorkild I A TIA   Nohr Ellen A EA   Mentzer Alexander J AJ   Mills Tara C TC   Knight Julian C JC   du Plessis Mignon M   Nzenze Susan S   Weiser Jeffrey N JN   Parkhill Julian J   Madhi Shabir S   Benfield Thomas T   von Gottberg Anne A   van der Ende Arie A   Brouwer Matthijs C MC   Barrett Jeffrey C JC   Bentley Stephen D SD   van de Beek Diederik D  

Nature communications 20190515 1

Streptococcus pneumoniae is a common nasopharyngeal colonizer, but can also cause life-threatening invasive diseases such as empyema, bacteremia and meningitis. Genetic variation of host and pathogen is known to play a role in invasive pneumococcal disease, though to what extent is unknown. In a genome-wide association study of human and pathogen we show that human variation explains almost half of variation in susceptibility to pneumococcal meningitis and one-third of variation in severity, ide  ...[more]

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