Curriculum vitae

Haruka OZAKI, Ph.D.

Associate Professor at Bioinformatics Laboratory, Faculty of Medicine, University of Tsukuba

Employment

2018 June - Present | Associate Professor at Bioinformatics Laboratory, Faculty of Medicine, University of Tsukuba
2016 Apr - 2018 May | Special Postdoctoral Researcher, Bioinformatics Research Unit, Advanced Center for Computing and Communication, RIKEN 2015 Apr - 2016 March | Postdoctoral Researcher, Bioinformatics Research Unit, Advanced Center for Computing and Communication, RIKEN

Education

2015 Mar | Ph.D., Department of Computational Biology, Graduate School of Frontier Sciences, the University of Tokyo
2012 Mar | Master of Science, Department of Computational Biology, Graduate School of Frontier Sciences, the University of Tokyo
2010 Mar | Bachelor of Science, Department of Biophysics and Biochemistry, School of Science, the University of Tokyo

Programming

  • Perl, R, Java, Python, Julia

Bioinformatics

  • Single-cell RNA-seq data anlaysis
  • ChIP-Seq and RNA-Seq data analyses
  • DNA-binding motif discovery
  • Sequence analyses
  • Variant detection

Software development

  • MOCCS (Software for enumerating DNA-binding motifs from ChIP-seq data)
  • ramdaq (A Nextflow-based pipeline for quality control of single-cell RNA-seq data)
  • Millefy (An R package for visualizing cell-to-cell variability of read coverage in scRNA-seq datasets)
  • ReadCoverage.jl (A Julia package for the fast calculation of read coverage from NGS data)
  • FastqSubsample (A Julia package for subsampling reads from a FASTQ file)
  • qacctTable (A Julia package for processing job scheduler reports)

Awards

  • 2nd award in DDBJ Data Challenge 2016 (Collaboration with Dr. Hirotaka Matsumoto) (2016)
  • Dean Prize, Graduate School of Frontier Sciences, the University of Tokyo (Doctoral Course) (2015)
  • Dean Prize, Graduate School of Frontier Sciences, the University of Tokyo (Master Course) (2012)

Community

  • Japanese Society for Bioinformatics
  • Molecular Biology Society of Japan
  • Society of Evolutionary Studies, Japan
  • Society of Genome Microbiology, Japan
  • NGS Field (2011-present board member)
  • Young Researchers Group for Computational/Omics/Systems Biology in Japan (2014-present staff)
  • Asian Young Researchers Conference on Computational and Omics Biology (AYRCOB) (2012-present committee member)

Publications

See Publications

Contacts