'Asiyah' Yu Lin

Postdoctoral Research Fellow

She has a interdiscipline background: Pediatrics, Immunology and Medical Informatics; a multi-industry working experience: a web content manager in China, web developer and bioinformatician in Japan. Currently she is a postdoctoral research fellow in Oliver He's lab, University of Michigan Medical School, Ann Arbor, Michigan, USA.

Her research is focus on ontology, semantic web and its application in the transaltaional medicine and biomedical research.

WORKING EXPERIENCE

• Unit of Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI, USA 
  Postdoctoral Fellow, Dec.2010-present
  Working on ontologies and text mining based on Brucella related vaccine research
• Genomics Laboratory, RIKEN Center for Developmental Biology (CDB), Kobe, Japan
  Bioinformatician, May.2009-Nov. 2010
  Working on the data assembly of next generation sequencer Roche 454
  Building EST database for non-model organisms
• Translational Research Informatics Center, Kobe, Japan
  Part-time researcher, 2003-2004
  Working on the development of integrated databases for genetic and metabolic pathways of Diabetes
• http://www.motor-japan.com
  Administrator and developer of this website since 2004,Programming in PHP and MySQL
• Shenzhen E-sun Internet Co.,Ltd., Shenzhen, China
  Content Manager & Project Manager, 2000 to 2002
• Caimao Hospital, Wuhan, China
  Pediatrician, 1996 to 1997

EDUCATION

• Ph.D., Medical Informatics, March 2009
  Graduate School of Medicine, Kobe University, Kobe, Japan
• M.Sc., Immunology, July 2000
  Tongji Medical College of Huazhong University of Science and Technology, Wuhan, Hubei, China
• M.D., Pediatrics, July 1996
  Tongji Medical College of Huazhong University of Science and Technology, Wuhan, Hubei, China

SPECIAL TRAINING

• Computational & Comparative Genomics, Nov., 2009 Cold Spring Harbor Laboratory,N.Y.
    One week course on computational genomics: sequence similarity searching and comparison, multi alignment, phylogenetic tree, etc.
• The sixth Summer School on Ontological Engineering and the Semantic Web, Jul., 2008 Madrid,Spain
  A one week course introducing ontology and semantic web technology held by Open University
• NIIT, Aug., 2002- Oct., 2002, Shenzhen, China
  Relational database design and SQL

SKILLS

• Bioinformatics: experienced developer on biomedical databases and ontologies
• IT skills: HTML, PHP, MySQL, Perl [beginner level: XML, OWL]
• Biotechnology: PCR, genotyping, immunological tests, mono-antibody technology
• Languages: Chinese (native), English (near native), Japanese (good)
  

Membership
International Society for Biocurator (2009-2011)

ONTOLOGY LIST

1. Ontology of Glucose Metabolism Disorder (OGMD)
   http://bioportal.bioontology.org/ontologies/1085
2. Ontology for disease genetic investigation (ODGI)
   http://bioportal.bioontology.org/ontologies/1086
3. Ontology of Geographical Region (OGR)
   http://bioportal.bioontology.org/ontologies/1087
4. Ontology for Genetic Interval (OGI)
   http://bioportal.bioontology.org/ontologies/1100
5. Brucellosis Ontology (BO)
   http://sourceforge.net/projects/bo-ontology
6. COG(Cluster of orthologous Groups) Analysis Ontology (CAO)
   http://cao.svn.sourceforge.net/

SELECTED PUBLICATION LIST
1. Yu Lin, Guanxin Shen, Xiaolin Wang (2000) “The construction, expression of anti-TFR scFv and 3D molecular modeling in the Internet”. M.Sc. defense thesis paper (in Chinese).
2. Lin Yu, Guo Masuda, Hiroyuki Hoshimoto, Norihiro Sakamoto (2004) “GeneticDiabetes as a metabolic pathway databases in Diabetes Mellitus” The 24th Joint Conference on Medical Informatics, Nagoya, 26th-28th Nov.,2004.
3. Yu Lin, Norihiro Sakamoto (2008) “Ontology Driven Modeling for the Knowledge of Genetic Susceptibility to Disease” Kobe Journal of Medical Sciences (Vol.54 No.6, pp.290-303) Ph.D. defense thesis paper
4. Yu Lin, Norihiro Sakamoto (2009) “Genome, Gene, Interval and Ontology” Interdisciplinary Ontology Vol.2 - Proceedings of the Second Interdisciplinary Meeting, Tokyo, Feb. 28th- Mar. 1st, 2009. Page(s):25-34
5. Yu Lin, Hiroshi Tarui, Peter Simons (2009) “From Ontology for Genetic Interval(OGI) to Sequence Assembly – Ontology apply to next generation sequencing” Proceeding of the Semantic Web Applications and Tools for Life Science Workshop, Amsterdam, Nov.20th, 2009.
6. Yu Lin, Peter Simons (2010) “DNA sequence from below: A Nominalist Approach ” Interdisciplinary Ontology Vol.3 - Proceedings of the Second Interdisciplinary Meeting, Tokyo, Feb. 28th- Mar. 1st, 2010.
7. Yu Lin, Zuoshuang Xiang, Yongqun He (2011) “Towards a Semantic Web application: Ontology-driven ortholog clustering analysis” ICBO 2011, July 27-29, Buffalo, NY.
8. Yu Lin, Zuoshuang Xiang, Yongqun He(2011) “ Brucellosis Ontology (IDOBRU) as an extension of the Infectious Disease Ontology Journal of Biomedical Semantics 2011,2:9.