Chunlei Wu

 Email

---

Scripps Research Joint Appointments

---

Research Focus

We are currently focusing on applying data science methodology and cloud computing technologies to facilitate biomedical discovery, through the large-scale biological data integration.

Research areas
? Biomedical knowledgebase infrastructure and inference engine
? Semantic knowledge presentation and integration
? Biomedical resource discovery
? Clinical informatics
? Crowdsourcing in biological research
? Scientific data management
? Gene network and pathway analysis
? Large-scale genomic data analysis

Scientific applications developed
? http://biogps.org (Gene-centric resource portal)
? https://mygene.info (Gene-centric API, ~30M hits per month)
? https://myvariant.info (Genetic Variant API, ~7M hits per month)
? https://mychem.info (Chemical/drug-centric API)
? https://mydisease.info (Disease-centric API)
? https://biothings.io (Generic SDK to power APIs above)
? https://smart-api.info (Biomedical API registry and semantic integration)
? https://discovery.biothings.io (Biomedical resource discovery)

---

Education

Ph.D. (Biomathematics and Biostatistics), The University of Texas Health Science Center at Houston, 2006
B.S. (Biochemistry), Nanjing University, 1997
M.S. (Biochemistry), Nanjing University, 2000

---

Professional Experience

2021-Present  Associate Professor with Tenure, Integrative Structural and Computational Biology, Scripps Research
2017-2021  Associate Professor, Integrative Structural and Computational Biology, Scripps Research
2017-2017 Associate Professor of Molecular Medicine, Molecular Medicine, Scripps Research
2011-2017 Associate Professor of Molecular Medicine, Molecular and Experimental Medicine (MEM), Scripps Research
2010-2011 Research Investigator II, Genomics Institute of the Novartis Research Foundation (GNF)
2007-2010 Research Investigator I, Genomics Institute of the Novartis Research Foundation (GNF)

---

Awards & Professional Activities

2017 Best In-Use Paper Award, ESWC
2015 2nd-place, BD2K Hackathon
2014 1st Place, Network of BioThings Hackathon
2005 GSBS Student Travel Award, University of Texas at Houston
2003 Co-Author for Best Presentation Award, CAMSA

---

Selected Publications

Xin, J.; Afrasiabi, C.; Lelong, S.; Adesara, J.; Tsueng, G.; Su, A.; Wu, C. Cross-linking BioThings APIs through JSON-LD to facilitate knowledge exploration. BMC Bioinformatics 2018, 19.
[View]

Xin, J.; Mark, A.; Afrasiabi, C.; Tsueng, G.; Juchler, M.; Gopal, N.; Stupp, G. S.; Putman, T. E.; Ainscough, B. J.; Griffith, O. L.; Torkamani, A.; Whetzel, P. L.; Mungall, C. J.; Mooney, S. D.; Su, A.; Wu, C. High-performance web services for querying gene and variant annotation. Genome Biology 2016, 17.
[View]

Liu, X.; Wu, C.; Li, C.; Boerwinkle, E. dbNSFP v3.0: A one-stop database of functional predictions and annotations for human nonsynonymous and splice-site SNVs. Human Mutation 2016, 37, 235-241.
[View]

Wu, C.; Jin, X.; Tsueng, G.; Afrasiabi, C.; Su, A. I. BioGPS: Building your own mash-up of gene annotations and expression profiles. Nucleic Acids Research 2016, 44, D313-D316.
[View]

Wu, C.; Macleod, I.; Su, A. I. BioGPS and MyGene.info: Organizing online, gene-centric information. Nucleic Acids Research 2013, 41, D561-D565.
[View]

Wu, C.; Orozco, C.; Boyer, J.; Leglise, M.; Goodale, J.; Batalov, S.; Hodge, C. L.; Haase, J.; Janes, J.; Huss III, J. W.; Su, A. I. BioGPS: an extensible and customizable portal for queryingand organizing gene annotation resources. Genome Biology 2009, 10, R130.