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  • Introduction
  • Science for Life Laboratory - Infrastructure for Molecular Bioscience
  • National Genomics Infrastructure, Sweden
  • NGS in clinical bacteriology and virology
  • WGS of multi-resistant bacteria on PGM
  • Genome of resistant bacteria
  • WGS of bacteria on Pacific Biosciences RSII
  • WGS of bacterial pathogen sequenced on 1 PacBio SMRT Cell
  • Cervical Cancer
  • FTA-elute sample format
  • FTA collected cervical samples from rural villages in LAOS
  • Automation of punching and DNA extraction
  • Introduction of HPV-testing in organized screening
  • Patients for NGS sequencing
  • Workflow
  • Bioinformatics pipeline
  • HPV-RCA+Ion Proton
  • HPV Genotyping (Roche Linear Array + Real-time PCR)
  • De novo assembly and variant calling
  • Bioinformatics pipeline
  • Novel HPV types
  • Bioinformatics pipeline
  • Co-infections - virus and small plasmids
  • Co-infections - large references and unidentified
  • Open reading frames (ORFs) within a ~25kb long contig resulting from de novo assembly of remaining reads
  • Correlation between HPV amount by real-time PCR and by Ion Proton sequencing
  • HPV Genotyping
  • PacBio HPV sequencing
  • PacBio - complete HPV genome in a single read
  • Conclusions
  • NGS in clinical bacteriology and virology
  • Acknowledgments
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  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University
  • Current Speaker: Ulf Gyllensten, Ph.D / Uppsala University