Yan Huang is currently a fifth year Ph.D. candidate in Department of Computer Science, University of Kentucky. Before that, she got her B.E. from University of Science and Technology of China (USTC) in 2009. She also holds a M.S. in Statistics from University of Kentucky.

My GitHub page

Education

1. ❖University of Kentucky
   

         Ph.D Candidate in Computer Science

1. ❖University of Kentucky
   

         M.S. in Statistics

1. ❖University of North Carolina at Chapel Hill 
   

         Visiting Student in Computer Science

1. ❖University of Science & Technology of China
   

         B.E. in Computer Science

   2009 - present  

2010 - 2013

2010 - 2011

2005 - 2009

Publications

1. ❖Yan Huang, Yin Hu, and Jinze Liu. Piecing the puzzle together: a revisit to transcript reconstruction problem in RNA-seq. BMC Bioinformatics, in press.
   

1. ❖Yan Huang, Yin Hu, and Jinze Liu. Piecing the Puzzle Together: a Revisit to Transcript Reconstruction Problem in RNA-seq. 4th Annual RECOMB Satellite Workshop on Massively Parallel Sequencing (RECOMB-SEQ), March 31 - April 1, 2014, Pittsburgh, USA.
   

1. ❖Yan Huang, Yin Hu, Corbin D. Jones, James N. MacLeod, Derek Chiang, Yufeng Liu, Jan F. Prins, and Jinze Liu. A Robust Method for Transcript Quantification with RNA-seq Data. Journal of Computational Biology, 2013, doi: 10.1089/cmb.2012.0230.
   

1. ❖Yin Hu, Yan Huang, Ying, Du, Christian Orellana, Darshan Singh, Amy Johnson, Anais Monroy, Pei-Fen Kuan, Scott Hammond, Liza Makowski, Scott Randell, Derek Chiang, David Hayes, Corbin Jones, Yufeng Liu, Jan Prins, Jinze Liu. DiffSplice: the Genome-Wide Detection of Differential Splicing Events with RNA-seq. Nucleic Acids Research, 2012, doi: 10.1093/nar/gks1026.
   

1. ❖Yan Huang, Yin Hu, Corbin D. Jones, James N. MacLeod, Derek Chiang, Yufeng Liu, Jan F. Prins, and Jinze Liu. A Robust Method for Transcript Quantification with RNA-seq Data. 16th Annual International Conference on Research in Computational Molecular Biology (RECOMB). April 21 - April 24, 2012, Barcelona, Spain.
   

1. ❖Kai Wang, Darshan Singh, Zheng Zeng, Stephen Coleman, Yan Huang, Gleb L. Savich, Xiaping He, Piotr Mieczkowski, Sara A. Grimm, Charles M. Perou, James N. MacLeod, Derek Y. Chiang, Jan F. Prins and Jinze Liu. Accurate Mapping of RNA-seq Reads for Splice Junction Discovery. Nucleic Acids Research, 2010, doi: 10.1093/nar/gkq622.
   

Interests

  

1. ❖Computational Biology and Genomics: develop novel algorithms, statistical models and learning methods for genome and transcriptome analysis using high-throughput sequencing data;
   

1. ❖Scientific Software Engineering: build robust, efficient and scalable open-source software for utilizing and understanding massive biological data; incorporate data mining and cloud computing techniques to ease the interpretation of complex, large data.

Awards and Honors

1. ❖Kentucky Opportunity Fellowship, 2014
   

2. ❖Nominee of Dissertation Year Fellowship in University of Kentucky, 2014
   

3. ❖National Science Foundation (NSF) travel grant for RECOMB, 2012
   

4. ❖2010 CRA-W Travel Grant, 2010
   

5. ❖Outstanding Student Scholarship, 2006, 2007, 2008
   

6. ❖Undergraduate Research Project Excellent Award (Top 1), 2008
   

7. ❖Ranked 1st in Undergraduate Research Program (supported by Microsoft), 2007
   

Conference Posters and Presentations

1. ❖Yan Huang, Yin Hu, and Jinze Liu. Simultaneous transcript reconstruction and quantification using paired-end RNA-Seq reads. UT-ORNL-KBRIN Bioinformatics Summit 2014, Cadiz, USA, April, 2014. (Oral presentation)
   

1. ❖Yan Huang, Yin Hu, and Jinze Liu. Piecing the Puzzle Together: a Revisit to Transcript Reconstruction Problem in RNA-seq. 4th Annual RECOMB Satellite Workshop on Massively Parallel Sequencing (RECOMB-SEQ), Pittsburgh, USA, April, 2014. (Oral presentation)
   

1. ❖Yan Huang, Yin Hu, Corbin D. Jones, James N. MacLeod, Derek Y. Chiang, Yufeng Liu, Jan F. Prins, and Jinze Liu. A Robust Linear Framework for Transcript Quantification using MultiSplice Features. 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, USA, July, 2012. (Oral presentation)
   

1. ❖Yin Hu, Yan Huang, Ying Du, Christian F. Orellana, Darshan Singh, Amy Johnson, Anais Monroy, Pei-Fen Kuan, Scott Hammond, Liza Makowski, Scott Randell, Derek Y. Chiang, David Hayes, Corbin D. Jones, Yufeng Liu, Jan F. Prins, and Jinze Liu. DiffSplice: the Genome-Wide Detection of Differential Splicing Events with RNA-seq. 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, USA, July, 2012. (Recommended by Faculty of 1000)
   

1. ❖Yan Huang, Yin Hu, Corbin D. Jones, James N. MacLeod, Derek Y. Chiang, Yufeng Liu, Jan F. Prins, and Jinze Liu. A Robust Method for Transcript Quantification with RNA-seq Data. 16th Annual International Conference on Research in Computational Molecular Biology (RECOMB), Barcelona, Spain, April, 2012. (Oral presentation)
   

1. ❖Yan Huang, Yin Hu, Corbin D. Jones, James N. MacLeod, Derek Y. Chiang, Yufeng Liu, Jan F. Prins, and Jinze Liu. A Linear Framework for Transcript Quantification from RNA-seq Data. UT-ORNL-KBRIN Bioinformatics Summit 2012, Louisville, USA, March, 2012. (Oral presentation)
   

1. ❖Yin Hu, Yan Huang, Derek Y. Chiang, Corbin D. Jones, Jan F. Prins, and Jinze Liu. An Ab Initio Method for Differential Transcriptome Analysis. UT-ORNL-KBRIN Bioinformatics Summit 2012, Louisville, USA, March, 2012.
   

1. ❖Yan Huang, Yin Hu, Corbin D. Jones, James N. MacLeod, Derek Y. Chiang, Yufeng Liu, Jan F. Prins, and Jinze Liu. A Robust Method for Transcript Quantification using RNA-seq Data. Southeast Regional IDeA Meeting, New Orleans, USA, September, 2011.
   

1. ❖Yin Hu, Yan Huang, Corbin D. Jones, James N. MacLeod, Derek Chiang, D. Neil Hayes, Jan F. Prins, and Jinze Liu. Detection and Quantification of Differentially Expressed Genes using RNA-seq. Southeast Regional IDeA Meeting, New Orleans, USA, September, 2011. (Oral presentation)
   

1. ❖Yan Huang, Yin Hu, Matthew S. Hestand, Corbin D. Jones, James N. MacLeod, Derek Y. Chiang, Yufeng Liu, Jan F. Prins, and Jinze Liu. A Robust Method for Transcript Quantification with RNA-seq Data. ISMB Special Interest Group on High Throughput Sequencing Analysis and Algorithms (HiTSeq), Vienna, Austria, July, 2011.
   

1. ❖David Fardo, Yan Huang. Testing Gene-Environment Interactions in Family-Based Genetic Asso- ciation Studies: A Causal Inference Approach to Adjust for Ascertainment-induced Bias. UT-ORNL-KBRIN Bioinformatics Summit 2010, Cadiz, USA, March, 2010.