Yuk Yee Leung, PhD

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Research Assistant Professor of Pathology and Laboratory Medicine
Department: Pathology and Laboratory Medicine

Contact information
3700 Hamilton Walk
D101 Richards Medical Research Building
Perelman School of Medicine, University of Pennsylvania
Philadelphia, PA 19104
Lab: 215-573-3729
BEng (Medical Engineering )
University of Hong Kong, 2005.
PhD (Electrical and Electronic Engineering (Bioinformatics))
University of Hong Kong, 2010.
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Description of Clinical Expertise

non-coding variants for Alzheimer's disease and other neurodegenerative diseases
small RNA biomarkers for Alzheimer's disease and other neurodegenerative diseases
translational bioinformatics in Alzheimer's disease and other neurodegenerative diseases

Description of Research Expertise

Machine Learning
Biomarker Discovery
Translational bioinformatics
Pipeline development
Alzheimer's disease genetics & genomics

Selected Publications

Pavel P Kuksa, Chien-Yueh Lee, Alexandre Amlie-Wolf, Prabhakaran Gangadharan, Elizabeth E Mlynarski, Yi-Fan Chou, Han-Jen Lin, Heather Issen, Emily Greenfest-Allen, Otto Valladares, Yuk Yee Leung, Li-San Wang: SparkINFERNO: A scalable high-throughput pipeline for inferring molecular mechanisms of non-coding genetic variants. Bioinformatics April 2020 Notes: https://doi.org/10.1093/bioinformatics/btaa246.

Alexandre Amlie-Wolf, Mitchell Tang, Jessica Way, Beth Dombroski, Ming Jiang, Nicholas Vrettos, Yi-Fan Chou, Yi Zhao, Amanda Kuzma, Elisabeth E. Mlynarski, Yuk Yee Leung, Christopher D. Brown, Li-San Wang, Gerard D. Schellenberg: Inferring the molecular mechanisms of noncoding Alzheimer's disease-associated genetic variants. Journal of Alzheimer's Disease Oct 2019 Notes: doi: 10.3233/JAD-190568.

Butkiewicz M, Blue E, Leung YY, Jian X, Marcora E, Renton A, Kuzma A, Wang L-S, Koboldt D, Haines JL, Bush WS : Functional Annotation of genomic variants in studies of Late-Onset Alzheimer’s Disease. Bioinformatics Mar 2018 Notes: https://doi.org/10.1093/bioinformatics/bty177.

Leung YY, Valladares O, Chou Y-F, Lin H-J, Kuzma A, Cantwell L, Qu L, Gangadharan P, Alzheimers Disease Sequencing Project (ADSP), Salerno W.J., Schellenberg G.D., Wang L-S.: VCPA: genomic variant calling pipeline and data management tool for Alzheimer's Disease Sequencing Project. Bioinformatics Oct 2018 Notes: https://doi.org/10.1093/bioinformatics/bty894.

Kuksa PP, Amlie-Wolf A, Katanic Z, Valladares O, Wang LS, Leung YY: SPAR: Small RNA-seq Portal for Analysis of sequencing expeRiments. Nucleic Acids Research WebServer Issue May 2018 Notes: https://doi.org/10.1093/nar/gky330.

Pavel P Kuksa, Alexandre Amlie-Wolf, Živadin Katanić, Otto Valladares, Li-San Wang, Yuk Yee Leung: DASHR 2.0: integrated database of human small non-coding RNA genes and mature products. Bioinformatics Aug 2018 Notes: https://doi.org/10.1093/bioinformatics/bty709.

Partch A., Valladares O., Cweibel R., Greenfest-Allen E., Childress M., Malamon J., Gangadharan P., Zhao Y., Qu L., Leung Y.Y., Naj A.C., Stoeckert, Jr. C.J., Schellenberg G.D. and Wang L.-S. : NIAGADS: The NIA Genetics of Alzheimer's Disease Data Storage Site. Alzheimer's & Dementia: The Journal of the Alzheimer's Association 12(11): 1200–1203, Nov 2016 Notes: http://dx.doi.org/10.1016/j.jalz.2016.08.018.

Leung Y.Y., Toledo J.B, Nefedov A., Polikar R., Raghavan N., Xie S.X., Farnum M., Schultz T., Baek Y., Deerlin V., Hu W.T., Holtzman D.M., Fagan A.M., Perrin R.J., Grossman M., Soares H.D., Kling M.A., Mailman M., Arnold S.E., Narayan V.A., Lee V.M.-Y., Shaw L.M., Baker D., Wittenberg G.M., Trojanowski J.Q., Wang L.S., for the Alzheimer's Disease Neuroimaging Initiative. : Identifying amyloid pathology-related CSF biomarkers for Alzheimer’s disease in a multicohort study. Alzheimer’s and Dementia: Diagnosis, Assessment and Disease Monitoring 1(3): 339-348, 2015 Notes: http://dx.doi.org/10.1016/j.dadm.2015.06.008.

Crowe E.P., Tuzer F., Gregory B.D., Donahue G., Gosai S.J., Leung Y.Y., Yetkin E., Cohen J., Nativio R., Wang L.-S., Sell C., Bonini N.M., Berger S.L., Johnson F.B. and Torres C.: Changes in the transcriptome of human astrocytes accompanying oxidative stress-induced senescence. Frontiers in Aging Neuroscience 8: 208, Aug 2016 Notes: https://doi.org/10.3389/fnagi.2016.00208.

Leung Y.Y.*, Ryvkin P.*, Gregory B. and Wang L.S.: CoRAL: Predicting non-coding RNAs from small RNA-sequencing data. Nucleic Acids Research 41(14): e137, Aug 2013 Notes: doi: 10.1093/nar/gkt426.

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Last updated: 08/18/2020
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