Welcome to My Homepage

 

My name is Zhaoming Yin, I finished my PhD from Georgia Institute of Technology. My supervisor is Prof. David A. Bader. I got my Bachelor of Engineering in Software Engineering from Hunan University in 2007, and My master of Engineering in Software Engineering from Peking University in 2010. I passed my Ph.D qualify exam on Mar 27th 2012 [pdf] [ppt] . I passed my PhD thesis proposal on April 26th, here is my proposal write up [pdf] [ppt] . On March 25th, 2014, I passed my PhD. thesis defense, here is the electronic version [pdf]. [ppt]

My research interests include: High Performance Computing, Bioinformatics, Large Scale Graph Analysis and Nature Language Processing, currently I am working on the project PETA-APPS: Petascale Simulation for Understanding Whole-Genome Evolution.

I like playing basketball, playing guitar, running, singing. My dream is traveling around the world and one day the program I write or the algorithm I designed can change the world as well as my life :) a little bit.

Courses

 
Fall 2010
CSE6001: Intro-Comp Sci & Engr
CSE6740: Computational Data Analy, Guy Lebanon
CSE6140: Comp Sci&Engr Algorithms, David A. Bader
CSE6230: High Perf Parallel Comp, Jeffery Vetter
Spring 2011
CSE 6220: High Performance Computing, George Biros
CSE 6730: Modeling and Simulation: Fundamentals & Implementation, Richard Fujimoto
Summer 2011
ISYE 6414: Statistical Modeling and Regression Analysis, Kobi Abayomi
Fall 2011
MATH-6014: Graph Theory, Robin Thomas
Spring 2012
BIOL-7110: Macromolecular Modeling, Steve Harvey
BIOL-8802: Special Topics in Drug Discovery, Jeffrey Skolnick
CS-6290: High Performance Computer Architecture, Thomas Conte
Fall 2012
CSE-8803-MGA: Massive Graph Analysis, David A. Bader

Teaching

 
Fall 2011
CSE-4140,6140: Computational Science and Engineering (CSE) Algorithms, David A. Bader
Guest Lecture 1: Mapreduce Algorithm, Sep 2011 [pdf]
Guest Lecture 2: Analysis of Real World NP-Complete Graph Problem: DCJ Median Algorithm to Find Ancestor of Genome of Three, Nov 2011 [ppt]
Fall 2012
CSE-4140,6140: Computational Science and Engineering (CSE) Algorithms, Alberto Apostolico
Guest Lecture 1: NP Optimization Problems: From PTAS to APX, Sep 2011 [pdf]

Publication

 
[1] Zhaoming Yin, Jijun Tang, Stephen Schaeffer, David A. Bader A Lin-Kernighan Heuristic for the DCJ Median Problem of Genomes with Unequal Contents, The 20th International Computing and Combinatorics Conference (COCOON'14), Atlanta, USA, August, 2014.[pdf]
[2] Zhaoming Yin, Jijun Tang, Stephen Schaeffer, David A. Bader Streaming Breakpoint Graph Analytics for Accelerating and Parallelizing the Computation of DCJ Median of Three Genomes, International Conference on Computational Science, Barcelona, Spain, June, 2013.[pdf] [src]
[3] Zhihui Du, Zhaoming Yin, Wenjie Liu, David A. Bader On Accelerating Iterative Algorithms with CUDA: A Case Study on Conditional Random Fields Training Algorithm for Biological Sequence AlignmentWorkshop on Data-mining of Next-Generation Sequencing Data (In conjunction with BIBM 2010) Hongkong, China, Dec 17, 2010 [pdf]
[4] Zhihui Du, Zhaoming Yin, David A Bader A Tile-based Parallel Viterbi Algorithm for Biological Sequence Alignment on GPU with CUDA Ninth IEEE International Workshop on High Performance Computational Biology (In conjunction with IPDPS 2010) Atlanta, GA, April 19, 2010 [pdf][src]
[5] Zhaoming Yin, Huarui Zhang Research on Chinese n-gram Statistical Rule and its application 14th Youth Conference on Communication (YCC) 2009, Dalian, China. (ISTP: 000270587500121) [pdf]

MISC

 
Reading List
This google site contains the link for my research related reading [www]
External Reviewer
[1] 24th International Symposium on Computer Architecture and High Performance Computing (SBAC-PAD 2012) October 24-26, 2012 Columbia University, New York, USA
[2] ICPP 2012 : IEEE International Conference on Parallel Processing
[3] Theoretical Computer Science (Journal, Editor in Chief, Prof. Giorgio Ausiello)
Technical Talks
[1] Optkit: Optimization Tool-kit for Prallellizing Discrete Combinatoric Problems in Emerging Platforms, Big Data Industry Forum, Mar 27th, Atlanta [pdf]
[2] DCJUC: A Maximum Parsimony Simulator for Constructing Ðhylogenetic Tree of Genomes with Unequal Contents Polo-Bader joint group meeting [ppt]
[3] Streaming Breakpoint Graph Analytics for Accelerating and Parallelizing The Computation of DCJ Median of Three Genomes, Georgia Tech Research & Innovation Conference (GTRIC 2013) [ppt]
[4] Parallel Graph Analytics, Intel Labs Intern Report.
[5] A Lin-Kerninghan Heuristic for the DCJ Median Problem of Genomes with Unequal Contents, Genome Biology and Bioinformatics November 7-9, 2013 Georgia Tech & Emory 9th International Conference [ppt]
[6] Optimized ASMedian Algorithm to Find DCJ Median Genome of Three, 03.2012 Georgia Tech HotCSE Seminar [ppt]
 
 
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