Chunlei Wu, PhD
Professor
Department of Integrative Structural and Computational Biology
Research Focus
At the Wu Lab, we develop novel data science approaches to advance Open Science and FAIR (Findable, Accessible, Interoperable, and Reusable) data sharing. By integrating large-scale, heterogeneous biomedical data and knowledge, we build open infrastructure and intelligent tools that drive novel biomedical discoveries.
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)
Select Publications
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Xin, Jiwen; Afrasiabi, C.; Lelong, S.; Adesara, J.; Tsueng, G.; Su, Andrew; Wu, Chunlei Cross-linking BioThings APIs through JSON-LD to facilitate knowledge exploration. BMC Bioinformatics 2018, 19.
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Xin, Jiwen; Mark, A.; Afrasiabi, C.; Tsueng, G.; Juchler, M.; Gopal, N.; Stupp, G. S.; Putman, T. E.; Ainscough, B. J.; Griffith, O. L.; Torkamani, Ali; Whetzel, P. L.; Mungall, C. J.; Mooney, S. D.; Su, Andrew; Wu, Chunlei High-performance web services for querying gene and variant annotation. Genome Biology 2016, 17.
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Liu, X.; Wu, Chunlei; 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.
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Wu, Chunlei; Jin, Xuefeng; Tsueng, Ginger; Afrasiabi, Cyrus; Su, Andrew I. BioGPS: Building your own mash-up of gene annotations and expression profiles. Nucleic Acids Research 2016, 44, D313-D316.
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Tsunemoto, R.; Lee, Sohyon; Sztics, A.; Chubukov, Pavel A.; Sokolova, I.; Blanchard, Joel W.; Eadel, K. T.; Bruggemann, Jacob J.; Wu, Chunlei; Torkamani, Ali; Sanna, Pietro P.; Baldwin, Kristin K. Diverse reprogramming codes for neuronal identity. Nature 2018, 557, 375-380.
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Wu, Chunlei; Macleod, Ian; Su, Andrew I. BioGPS and MyGene.info: Organizing online, gene-centric information. Nucleic Acids Research 2013, 41, D561-D565.
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Wu, Chunlei; Orozco, Camilo; Boyer, Jason; Leglise, Marc; Goodale, James; Batalov, Serge; Hodge, Christopher L.; Haase, James; Janes, Jeff; Huss III, Jon W.; Su, Andrew I. BioGPS: an extensible and customizable portal for queryingand organizing gene annotation resources. Genome Biology 2009, 10, R130.
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Wu, Chunlei; Orozco, C.; Boyer, J.; Leglise, M.; Goodale, J.; Batalov, S.; Hodge, C. L.; Haase, J.; Janes, J.; Huss, J. W.; Su, Andrew Biogps: An extensible and customizable portal for querying and organizing gene annotation resources. Genome Biology 2009, 10, R130.
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