Team

Computational Biology // Massey University

Sebastian Schmeier

Short Bio

Sebastian is a research group leader and Senior Lecturer in Bioinformatics/Genomics at the Institute of Natural and Mathematical Sciences (INMS) at Massey University Auckland, a bioinformatics advisor to the genomics service company New Zealand Genomics Ltd (NZGL), and an Affiliate Investigator at the Maurice Wilkins Centre for Molecular Biodiscovery. His group combines computational methods and biology to answer questions in the fields of genomics and transcriptomics, with a focus on gene regulation, non-coding RNAs, and data-driven biomedical applications. Besides research, Sebastian is also highly interested in the computational and bioinformatics up-skilling of students and scientists. Being a certified software carpentry and data carpentry instructor, he regularly runs hands-on computational workshops for students and scientists of all fields.

Professional Experience

2017/01 - present
Senior Lecturer in Bioinformatics/Genomics at the Institute of Natural and Mathematical Sciences (INMS), Massey University (Auckland), Auckland, New Zealand

2014/03 - present
Affiliate Investigator, Maurice Wilkins Centre for Molecular Biodiscovery, Auckland, New Zealand

2012/12 - present
Bioinformatics staff at Massey Genome Service (MGS), Institute of Fundamental Sciences (IFS), Massey University, NZ

2012/12 - present
Bioinformatics advisor and supervisor of bioinformatics technicians of New Zealand Genomics Limited (NZGL)

2012/12 - 2016/12
Lecturer in Bioinformatics/Genomics at the Institute of Natural and Mathematical Sciences (INMS), Massey University (Auckland), Auckland, New Zealand

2011/06 - 2011/12
Visiting Scientist, RIKEN Omics Science Center, Yokohama, Japan

2010/03 - 2010/05
Visiting Scholar, Lab of PY Qian, Department of Biology, Hong Kong University of Science and Technology (HKUST), Hong Kong

2009/10 - 2012/09
Postdoctoral Fellow, Computational Bioscience Research Center, KAUST, Saudi Arabia

2006/06 - 2009/09
Ph.D. student, South African National Bioinformatics Institute (SANBI, Prof. Vladimir Bajic), University of the Western Cape, Cape Town, South Africa

2004/09 - 2004/11
Research Intern, Dietrich Rebholz-Schumann's group at the European Bioinformatics Institute, Hinxton/Cambridge, United Kingdom

2002/10 - 2006/05
Research Assistant, Edda Klipp's Computational Systems Biology Group at the Max-Planck-Institute for molecular Genetics, Berlin, Germany

2002/08 - 2002/09
Research Intern, Edda Klipp's Computational Systems Biology Group at the Max-Planck-Institute for molecular Genetics, Berlin, Germany

Education

2006/06 - 2009/09
Ph.D. Bioinformatics, South African National Bioinformatics Institute, University of the Western Cape, Cape Town, South Africa

2003/10 - 2005/11
M.Sc. Bioinformatics, Freie Universitaet Berlin, Germany

2000/10- 2003/07
B.Sc. Bioinformatics, Freie Universitaet Berlin, Germany

Additional Qualifications

2016/02 - present
Certified Software Carpentry Instructor

2016/02 - present
Certified Data Carpentry Instructor

Publications

.bib

Professional Activities

International Research Projects/Consortia

2016 - present
Team member of Project 1.3 in the Biological Heritage National Science Challenge of New Zealand

2015 - present
Functional Annotation of the Mammalian Genome 6 (FANTOM6)

2014 - present
Gene Regulation Consortium (GRECO) – Developing guidelines and standards for the annotation, archiving, and sharing of information concerning the domain of gene regulation

2010 - present
Functional Annotation of the Mammalian Genome 5 (FANTOM5)

2006 - 2010
Functional Annotation of the Mammalian Genome 4 (FANTOM4)

Editorial Activities

Associate Editor, Journal of Open Research Software

Referee Activities

PLoS Computational Biology, Briefings in Bioinformatics, Bioinformatics, BMC Bioinformatics, Database, PLoS ONE, BMC Research Notes, Frontiers in Genetics, Journal of Biomedicine and Biotechnology, and others.

Service to the University

Massey University Genome Service committee, INMS Research Seminar committee, Program committee for Natural Sciences.

Contact

Dr. Sebastian Schmeier
Research Group Leader
Senior Lecturer in Bioinformatics/Genomics

Massey University, INMS
Auckland, New Zealand
+64 9 414 0800 (ext: 43538)

Publications // latest

Genome-wide profiling of transcribed enhancers during macrophage activation. bioRxiv preprint

Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer. Scientific Reports, 2017, doi: 10.1038/s41598-017-11237-6

Consensus molecular classification of colorectal cancer and association with the colonic microbiota. Diseases of the Colon & Rectum, 2017, 60(6):E90-E91 (In proceedings: Annual Meeting of the American Society of Colon and Rectal Surgeons)

Workshops // upcoming

[ Nov 2017 ] Software Carpentry Workshop, Massey University Auckland

Tweets // latest