photo by Kui Shen

Success is the ability to go from failure to failure without losing your enthusiasm. --- Winston Churchill

Ying Liu is a Ph.D candidate of the Joint CMU-Pitt Ph.D. Program in Computational Biology, University of Pittsburgh.
He is working with Prof. Ivet Bahar, in computational structural biology. His project mentor was Eran Eyal.
Click here for more details about past and on-going projects.

E-mail: YIL43 @ {PITT, CMU}.EDU
Office: 3064 BST 3, 3501 Fifth Ave, Pittsburgh, PA 15260
Phone: 412 383 7256

Education

B.E., Electrical Engineering, Wuhan University, Wuhan, China
M.E., Software Engineering, Tsinhgua University, Beijing, China

Publications

Ying Liu and Ivet Bahar. (2009) Binding of Nucleotide Exchange Factors to HSP70 ATPase Domain: Intrinsic vs Specific Interactions. (in preparation)
Ying Liu and Ivet Bahar. (2009) Toward Understanding Allosteric Signaling Mechanisms in the ATPase Domain Of Molecular Chaperones. Pac Symp Biocomput. 2010:269-80. (Pubmed)
Ying Liu, Eran Eyal, Ivet Bahar. (2008) Analysis of Correlated Mutations in HIV-1 Protease Using Spectral Clustering. Bioinformatics. 24:1243-1250. (access)
Ying Liu, Yuanlie Lin.(2004) A novel method for N-terminal acetylation prediction. Genomics Proteomics Bioinformatics. 2(4):253-5. (Pubmed)

Web Server

MI Suite (deployed internally)

Selected Courses

• CMU 10-701 Machine Learning
• Pitt MSMBPH2001 Molecular Biophysics I
• CMU 02-710 Computational Genomics
• Pitt MSCBIO2030,2035 Computational Structural Biology I & II
• Pitt Math2370,2371 Matrices and Linear Operaors I & II
• CMU 15-750 Graduate Algorithms
• CMU 15-852 Computational Geometry (audit)

TA Courses

• MSCBIO2030 Computational Structural Biology I (fall 2008)
  Tutorial on Calculating &Delta&DeltaG Lecture Video (Recorded by Keith Callenberg)
• MSCBIO2050 Laboratory Methods for Computational Biologists (fall 2007)
• Applied Stochastic Process (fall 2005 with Prof. Yuanlie Lin) at Institute of Automation, Chinese Academy of Sciences

Thesis Proposal

• Defense Slides

Code Pieces and Miscellaneous

• Mutual Information for Correlated Mutation Analysis (C++ version, Matlab version)
  If this code has helped you in your publication, please kindly cite
  Ying Liu, Eran Eyal, Ivet Bahar. (2008) Analysis of Correlated Mutations in HIV-1 Protease Using Spectral Clustering. Bioinformatics. 24:1243-1250.
• Dijkstra algorithm (C++ version Python version)
• Guidelines of Writing a Research Paper

Who has Been Here