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| Shirley is a Research Associate in the Bader Lab at the University of Toronto. | |
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| Email: [[MailTo(shirleyh AT SPAMFREE gmail DOT com)]] | '''Email''': <<MailTo(shirley.hui AT SPAMFREE utoronto DOT ca)>> |
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| Shirley is a graduate student in the Bader Lab at the University of Toronto in the Department of Molecular Genetics. * Supervisor: Gary Bader * Supervisory Committee: Tony Pawson, Quaid Morris, Charlie Boone |
'''Supervisor''': Gary Bader |
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| == Research Project == * [wiki:/../DomainSpecificityPredictionProject Computational prediction of protein domain-peptide interactions using machine learning methods] * [wiki:/../DomainSpecificityPredictionProject/Log Progress] |
== Research Projects == * Current * RCC single cell genomics project * [[/RCCscRNAProject/Weekly|Weekly Update]] |
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| == Current Interests == * Algorithms: Machine Learning - Support Vector Machines * Protein-protein interaction prediction |
## *Breast Cancer GSEA Projects ## * Progess [[http://baderlab.org/ShirleyHui/BreastCancerGSEAProjects|Log]] * Past * Breast Cancer Pathway GSEA Project * [[attachment:BreastCancerPathwayGSEA-2017.pdf|PDF]] * Precision Medicine Projects * [[/../MedicalDecisionMakingProject/Log| Progress Log]] * [[/../DomainSpecificityPredictionProject|PDZ domain interaction prediction]] * Thesis: [[http://hdl.handle.net/1807/43599|Computational Prediction of PDZ mediated Protein-Protein Interactions]] * Supervisory Committee: [[http://www.utoronto.ca/boonelab/|Charlie Boone]], [[http://morrislab.med.utoronto.ca/|Quaid Morris]], [[http://pawsonlab.mshri.on.ca/|Tony Pawson]] * POW! Website: http://webservice.baderlab.org/domains/POW/ ## * [wiki:/../DomainSpecificityPredictionProject/Log Progress] ##== Current Interests == ## * Algorithms: Machine Learning - Support Vector Machines ## * Peptide Recognition Domains: PDZ Domain |
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| * 1996 - 2001 [http://www.cs.uwaterloo.ca/ University of Waterloo] - B.Math Hons Computer Science Co-op * 2002 - 2005 [http://www.cs.uwaterloo.ca/ University of Waterloo] - M.Math focusing on applications in Bioinformatics |
* 2007 - 2013 [[http://www.utoronto.ca|University of Toronto]] - Ph.D. Department of Molecular Genetics * 2002 - 2005 [[http://www.cs.uwaterloo.ca/|University of Waterloo]] - M.Math, focus on Computational Biology * 1996 - 2001 [[http://www.cs.uwaterloo.ca/|University of Waterloo]] - B.Math, Honours Computer Science Co-op |
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| == Skills == * Technical: * Programming Languages: Java, C++ * Numerical Analysis Software: Matlab * Non-Technical: * Play the Piano/Read Music (Gr 10 [http://www.rcmusic.ca/html Toronto Royal Conservatory]) |
== Publications == * Association analysis identifies 65 new breast cancer risk loci, Michailidou K, Lindström S, Dennis J, Beesley J, '''Hui S''', et al.<<BR>> [[https://www.nature.com/articles/nature24284|Nature (2017) Nov 2;551(7678):92-94. Epub 2017 Oct 23]] * Identification of ten variants associated with risk of estrogen-receptor-negative breast cancer, Milne RL, Kuchenbaecker KB, Michailidou K, Beesley J, Kar S, Lindström S, '''Hui S''', et al.<<BR>> [[https://www.nature.com/articles/ng.3785|Nat Genet. (2017) Dec;49(12):1767-1778. Epub 2017 Oct 23]] * Predicting PDZ domain mediated protein interactions from structure, '''Hui S''', Xing X, Bader GD<<BR>>[[http://www.biomedcentral.com/1471-2105/14/27/abstract|BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-27]] [[http://www.ncbi.nlm.nih.gov/pubmed/23336252|PubMed Abstract]] [[attachment:pdz-struct-2013.pdf|PDF]] |
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| == A Bit About Me == * Myer Briggs Personality Type: [http://en.wikipedia.org/wiki/INTJ INTJ] (Introverted Intuitive Thinking Judging) * INTJ's are "Scientists" and make up 1% of the personalities. * Born, grew up in Central Etobicoke (Highschool: Silverthorn C.I.) * Capricorn, Snake in the Chinese Zodiac |
* Domain-mediated protein interaction prediction: From genome to network, Reimand J, '''Hui S''', Jain S, Law B, Bader GD<<BR>> [[http://www.sciencedirect.com/science/article/pii/S001457931200316X|FEBS Lett. 2012 May 3]][[http://www.ncbi.nlm.nih.gov/pubmed/22561014|PubMed Abstract]] [[attachment:Genome2NetworkReview.pdf|PDF]] |
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| == Things I Support == * [http://convio.cancer.ca/site/PageServer?pagename=RFL_ON_about_relay Canadian Cancer Society Relay For Life - Team Steven Hui] * [http://www.earthhour.org/ Earth Hour] * [http://wwfcentral.ca/NetCommunity/Page.aspx?pid=503&srcid=500 WWF CN Tower Climb] * [http://www.canadarunningseries.com/sportinglife/ Sporting Life 10K - Easiest 10K!] |
* Proteome scanning to predict PDZ domain interactions using support vector machines, '''Hui S''', Bader GD<<BR>> [[http://www.biomedcentral.com/1471-2105/11/507|BMC Bioinformatics. 2010 Oct 12;11(1):50]] [[http://www.ncbi.nlm.nih.gov/pubmed/20939902|PubMed Abstract]] [[attachment:2010_HuiBader-ProteomeScanningPDZ_BMCBioinformatics.pdf|PDF]] |
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| == List of Interests (With Top 3 - or more - Recommends) == || i || Interest || #(1 + 3i) || #(2 + 3i) || #(3 + 3i) || || 0 || Snowboarding || Snowbird, UT || Vail, CO || Whistler/Blackcomb, BC || || 0 || Leisure reading || The Time Traveler's Wife, Niffeneger || Kite Runner, Hosseini || The Curious Incident of The Dog in The Night Time, Haddon || || 0 || Traveling || Munich, Germany || Guilin, China || Rockies, BC || || 0 || Camping/Hiking || West Coast Trail, BC (HARD!) || Moab, UT *haven't been but want to go || Algonquin Park, ON || || 0 || Natural Wonders || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=Canadian+Rockies+BC&btnG=Search+Images Rockies, BC] || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla:en-US:official&sa=X&oi=spell&resnum=0&ct=result&cd=1&q=grand+canyon&spell=1 Grand Canyon, CO] || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=athabasca+glacier&btnG=Search+Images Athabasca Glacier, BC] || || 1 || || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=Ben+Nevis&btnG=Search+Images Ben Nevis, UK] || [http://images.google.ca/images?q=guilin&ie=UTF-8&oe=utf-8&rls=org.mozilla:en-US:official&client=firefox-a&um=1 Guilin Landscape, China] || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=owen%27s+point%2C+west+coast+trail&btnG=Search+Images Owen's Point, BC] || || 2 || || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=mt.+st.+helen&btnG=Search+Images Mt. St. Helen, WA] || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=badlands%2C+alberta&btnG=Search+Images Badlands, AB] || ... || || 0 || Man Made "Wonders" || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=great+wall+china&btnG=Search+Images Great Wall, China] || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=Neuschwanstein%2C+germany&btnG=Search+Images Neuschwanstein, Germany] || [http://images.google.ca/images?um=1&hl=en&client=firefox-a&rls=org.mozilla%3Aen-US%3Aofficial&q=Edinburgh+castle&btnG=Search+Images Edinburgh Castle, UK] || || 0 || Places I Want to Travel to || Japan || Australia || Spain/Egypt/Morocco || || 0 || Favourite Foods || Sushi || Seafood (crab, lobster) || Veggies || || 0 || Favourite Coffee || Guatemala, Starbucks || Belgium Chocolate, Second Cup || || || 0 || German Games || Carcassonne || Puerto Rico || Bohnanza || || 0 || Cute "Kawaii" Characters || Toroto || Carebears || || || 0 || Animated Series/Movies|| Spongebob || Myazaki || Samurai Jack || || 0 || Graphic Novels || Stangers in Paradise || Bones || Persepolis || || 0 || Prime Time TV || CSI (Las Vegas) || Dexter || Law and Order SVU || || 0 || Documentaries || Journey of Man (PBS) || Guns, Germs and Steel (PBS) || Anything that airs on PBS || |
* Rapid evolution of functional complexity in a domain family, Ernst A, Sazinsky SL, '''Hui S''', Currell B, Dharsee M, Seshagiri S, Bader GD, Sidhu SS<<BR>> [[http://stke.sciencemag.org/cgi/content/full/sigtrans;2/87/ra50|Science Signaling 2009 Sep 8;2(87):ra50]] [[http://www.ncbi.nlm.nih.gov/pubmed/19738200|PubMed Abstract]] [[attachment:2009_Ernst_PDZEvolution_ScienceSignaling_Sep.pdf|PDF]] |
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| == Places I Have Worked == | == Work == * 2006 * Toronto (Sunnybrook Hospital - Medical Imaging) - Research Analyst * 2001 - 2006 * Waterloo (AGFA Healthcare) - Software Development |
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| * Ottawa (Corel) * Mississauga (Pervasive Software, Platform Computing) * San fransisco (Evolve Digital Consulting) * 2001 - 2006 * Waterloo (AGFA Healthcare) - Software Development * 2006 * Toronto (Sunnybrook Hospital - Medical Imaging) - Research Analyst |
* Ottawa (Corel) * Mississauga (Pervasive Software, Platform Computing) * San fransisco (Evolve Digital Consulting) ## == Skills == ## * Technical: ## * Programming Languages: Java ## * Numerical Analysis Software: Matlab, R ## * Non-Technical: ## * Piano/Read Music (Gr 10 [[http://www.rcmusic.ca/html|Toronto Royal Conservatory]]) ## == Things I Support == ## * [[http://convio.cancer.ca/site/PageServer?pagename=RFL_ON_about_relay|Canadian Cancer Society Relay For Life - Team Steven Hui]] ## * [[http://www.ottawanrf.com/2007/our_kids.htm|Ottawa Neuroblastoma Fund]] ## * [[http://www.earthhour.org/|Earth Hour]] ## * [[http://wwfcentral.ca/NetCommunity/Page.aspx?pid=503&srcid=500|WWF CN Tower Climb]] ## * [[http://www.canadarunningseries.com/sportinglife/|Sporting Life 10K - Easiest 10K!]] ## == Places I Have Worked == |
Shirley Hui
Shirley is a Research Associate in the Bader Lab at the University of Toronto.
Email: <shirley.hui AT SPAMFREE utoronto DOT ca>
Supervisor: Gary Bader
Research Projects
- Current
- RCC single cell genomics project
- Past
- Breast Cancer Pathway GSEA Project
- Precision Medicine Projects
PDZ domain interaction prediction
Thesis: Computational Prediction of PDZ mediated Protein-Protein Interactions
Supervisory Committee: Charlie Boone, Quaid Morris, Tony Pawson
POW! Website: http://webservice.baderlab.org/domains/POW/
Education
2007 - 2013 University of Toronto - Ph.D. Department of Molecular Genetics
2002 - 2005 University of Waterloo - M.Math, focus on Computational Biology
1996 - 2001 University of Waterloo - B.Math, Honours Computer Science Co-op
Publications
Association analysis identifies 65 new breast cancer risk loci, Michailidou K, Lindström S, Dennis J, Beesley J, Hui S, et al.
Nature (2017) Nov 2;551(7678):92-94. Epub 2017 Oct 23Identification of ten variants associated with risk of estrogen-receptor-negative breast cancer, Milne RL, Kuchenbaecker KB, Michailidou K, Beesley J, Kar S, Lindström S, Hui S, et al.
Nat Genet. (2017) Dec;49(12):1767-1778. Epub 2017 Oct 23Predicting PDZ domain mediated protein interactions from structure, Hui S, Xing X, Bader GD
BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-27 PubMed Abstract PDFDomain-mediated protein interaction prediction: From genome to network, Reimand J, Hui S, Jain S, Law B, Bader GD
FEBS Lett. 2012 May 3PubMed Abstract PDFProteome scanning to predict PDZ domain interactions using support vector machines, Hui S, Bader GD
BMC Bioinformatics. 2010 Oct 12;11(1):50 PubMed Abstract PDFRapid evolution of functional complexity in a domain family, Ernst A, Sazinsky SL, Hui S, Currell B, Dharsee M, Seshagiri S, Bader GD, Sidhu SS
Science Signaling 2009 Sep 8;2(87):ra50 PubMed Abstract PDF
Work
- 2006
- Toronto (Sunnybrook Hospital - Medical Imaging) - Research Analyst
- 2001 - 2006
- Waterloo (AGFA Healthcare) - Software Development
- 1996 - 2001 (Co-op work terms - Software Development)
- Ottawa (Corel)
- Mississauga (Pervasive Software, Platform Computing)
- San fransisco (Evolve Digital Consulting)