Short Bio
I am a Ph.D. student of Computer Science Deptment in Stony Brook University. My interests are computational biology using Machine Learning. Currently I am advised by Prof. Michael Schatz, Simons Center for Quantitative Biology in Cold Spring Harbor Laboratory (CSHL). I received my Master's degree from Carnegie Mellon University. Master thesis is published at 70th IEEE Vehicular Technology Conference. My undergraduate degree with Cum Laude was received at Seoul National University in Korea and worked for 4 years at Ahnlab, Inc., where I programmed Windows kernel-level file system filter driver for V3 anti-virus program.
Research Interests
I am interested in developing methods (tools/software) using statistical machine learning for long reads produced by 3rd generation sequencing technology such as PacBio, Moleculo and Oxford Nanopre. This includes de-novo genome assembly, alternative splicing, population structure analysis in large scale to discover biological importance.
Key words : Computationsl Biology, Machin Learning (ML), Probabilistic Graphical Model (PGM), Cloud Computing; Operating System, Computer Security, Virtualization and Wireless Sensor Network
Latest News
Software
Publications and Talks
- Conferences/Journals
Hayan Lee*, James Gurtowski*, Shinjae Yoo, Shoshana Marcus, W. Richard McCombie, and Michael Schatz (2014)
Error corection and assembly complexity of single molecule sequencing reads
(PDF)
In submission
Shoshana Marcus, Hayan Lee, and Michael Schatz (2014)
SplitMEM: Graphical pan-genome analysis with suffix skips
Bioinformatics 30 (24): 3476-3483, Oxford Journals
Michael C Schatz, Lyza G Maron, Joshua C Stein, Alejandro H Wences, James Gurtowski, Eric Biggers, Hayan Lee, Melissa Kramer, Eric Antonio, Elena Ghiban, Mark H Wright, Jer-ming Chia, Doreen Ware, Susan R McCouch and William R McCombie (2014)
New whole genome de novo assemblies of three divergent strains of rice (O. sativa) documents novel gene space of aus and indica
Genome Biology 15(11)
Sangwoo Kim, Kyowon Jeong, Kunal Bhutani, Jeong Ho Lee, Anand Patel, Eric Scott, Hojung Nam, Hayan Lee, Joseph G Gleeson and Vineet Bafna (2013)
Virmid: accurate detection of somatic mutations with sample impurity inference
Genome Biology 14(8)
Hayan Lee, Michael C. Schatz (2012)
Genomic Dark Matter: The reliability of short read mapping illustrated by the Genome Mappability Score
Bioinformatics 28(16)
cited by the papers
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cited by the papers
- Citations
- Posters/Talks
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Hayan Lee, Ravi Pandya, Gabriel Margarido, Bob Davidson, Michael Schatz, David Heckerman, "Sugarcane De Novo genome assembly chllenges,
Biological Data Science, Nov 5-8, 2014, Cold Spring Harbor Laboratory, NY,
[slides]
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Hayan Lee, James Gurtowski, Shinjae Yoo, Shoshana Marcus and Michael Schatz
''How long is long enough?'',
in Quantitative Biology Seminar, Cold Spring Harbor, NY, Feburary 2014
[slides]
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Program Committee
Paper Review
Previous Projects
- Libraray level virtualization using only graphic library beyond platforms with WINE at ECSL (Experimental Computer Systmes Lab)
- Multimodal Wireless Sensor Networks for Buildings as a part of iCast project at CyLab, Carnegie Mellon University. Collaborated with and sponsored by
ITRI, Tiwan. Advised by
Prof. Virgil Gligor.
- Patent applied and pendding (Lee-Chun Ko, Hayan Lee, Virgil Gligor)
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Hayan Lee
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Department of Computer Science
Stony Brook University
100 Nicolls Road
Stony Brook, NY 11794
Simons Center for Quantitative Biology
Cold Spring Harbor Laboratory
One Bungtown Road
Koch Building rm1123
Cold Spring Harbor, NY 11724
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