Song
Li
Email Address: lisong@iastate.edu
Homepage : http://www.cs.iastate.edu/~lisong
Phone No. 515-290-1502(H), 515-294-2832(O)
Objective
An R&D internship position utilizing my experience in
computer science research and software development.
Skills:
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Programming :
Languages: C/C++(5 yrs), Java(3 yrs), Perl(1 yrs)
General
API: wxWidgets(1yrs), Xerces and Expat(for XML) (1yrs), MS Visual Studio
(2yrs)
Graphics API: OpenGL(2 yrs), SGI Performer(2 yrs),VTK(2 yrs),VRJuggler(2
yrs), graphViz(1yrs)
Distributed/high-performance computing: CORBA(2 yrs), MPI/OpenMP(1 yrs),
Socket(1yrs)
OS:
Unix, MS Windows, MacOS
Software Engineering: CVS, OOAD, design patterns
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VR Hardware:
C6 and C2 systems(CAVE) in VRAC, Iowa State University
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Products experience(administration level):
1.Cisco routers (2500,7500,12000series): 5 years
2.SUN's workstations and servers (E3500,E4500),Solaris system: 5 years
3.HP workstation, HP-UX: 3 years
4.Windows NT/2000: 3 years
5.Network management softwares,such as CISCOworks,
HP openview/ITO, Ascend's NavisAccess: 3 years
6.DNS,EMAIL,WWW,PROXY servers: 4.5years
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Bioinformatics software (user level):
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1. Genome data processing: Lucy, Phred/Phrap, TIGR Assembler
2. Gene prediction: genescan, FgeneSH, PFam, Blast, geneBank
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Publications
Song Li and Hui-Hsien Chou Integrate Qualitative Biological Knowledge for Gene Network Reconstruction using Dynamic Bayesian Networks Submitted
Song
Li and Hui-Hsien Chou.
Lucy2: An Interactive DNA quality trimming and vector removal tool.
Bioinformatics, Nov 2004; 20: 2865 - 2866.
Song Li and Hui-Hsien Chou. UBviz: A software tool for exploring
Metabolic Pathways in 3-D
Space.
BioTechniques, Vol.
38, No. 4: pp 540-542 (Apr 2005).
Conference
activities
Plant and Animal Genome XIII
Conference, Jan 15-19, 2005, San Diego, CA
Give two demos in the computer demo session:
1. LUCY2: An Interactive DNA Sequence Quality Trimming and Vector
Removal Tool
2. Easy Perl Programming Using VECT: The Visual Extraction and
Conversion Tool
7th Annual Conference on
Computational Genomics, Oct 21-24, 2004, Reston, VA
Present poster: "Picky: A Large Genome Oligo Microarray Designing Tool"
Education
2003 - present: Department of Computer Science, Iowa State University, USA
Ph.D. Candidate (expected graduation date: Summer 2007), GPA: 3.80/4.0
Dissertation Topic: “Integrate Qualitative Biological Knowledge for Gene Network Reconstruction using Dynamic Bayesian
Networks” Advisor: Hui-Hsien Chou
2001- 2003: Department of Computer Engineering, Iowa State University, USA
MS degree, GPA: 3.78/4.0
1991-1995: Department of Radio engineering , Southeast University, China
BS degree GPA: 81/100
Senior design project: develop Intel 8051-based blood-pressure measurer
Working Experience
2006-present: Ames Laboratory, Department of Energy, Ames, Iowa
Research Assistant. Developing MacMolPlt (URL: http://www.scl.ameslab.gov/~brett/MacMolPlt/), a software tool which allows
users to draw and visualize molecular structures in 3-D space.
2005: Lightline Networks Inc., Palo Alto, California
Paid summer intern. Developing a remote playback functionality in virus capture modules. The major responsibilities include:
1. Developing freeBSD kernel-level code to assembly/disassembly data.
2. Developing server daemons realizing remote data playback.
2003-- present : Complex Computing Lab, Iowa State University
Research Assistant. Developing Bioinformatics tools. Major research projects:
1. Creating data integration method for gene network reconstruction.
URL: http://www.complex.iastate.edu/download/geneDBN/
2. Developing 3-D biological network visualization tool.
URL: http://www.complex.iastate.edu/download/UBViz/
3. Developing interactive DNA quality trimming and vector removal tool.
URL: http://www.complex.iastate.edu/download/Lucy2
2003: FuelTech Inc., Batavia, Illinois
Paid summer intern. Contributor of the commercial VR scientific visualization software – Acuitiv. Major responsibility is using
CORBA to migrate Acuitiv to client/server architecture.
2001-- 2003 : VRAC ( virtual reality application center) of Iowa State University.
Research assistant, developing applications to visualize CFD (computational fluid dynamics) works and combine it with CAVE system.
Project 1: enhance analyzing of the airflow data for John Deere
Project 2: develop remote controlling software for VR application based on CORBA
Project 3: Build CFD virtual reality application software on heterogenous computing environment(Using CORBA+MPI)
please see some of the snapshots
2000 : Data Communication Bureau, China Telecom
Project engineer, participated in national 163 backbone network ( 50 GSRs, 2.5G link)'s construction project in China.
1995 -- 2000 : Data Communication Bureau of Zhejiang Province,
China Telecom
Network engineer/administrator of IP and X.25 network , LAN administrator , team leader of 8-people group which in charge of the management of provincial IP and X.25 network.
Project 1: participated in construction and management provincial network(12 area nodes , 1,000,000 users)
Project 2: UNIX administrator, provide service to all employee of Data Communication Bureau
1994: Nanjing measurement instrument factory, Nanjing, China
Internship,
participated in develop frequency generator
Have
participated the technical trainings:
-- The medium-level and advanced-level IP network system integration training, by Asiainfo Inc.
-- The medium-level and network management training of DPN-100 X.25 switch, by Nortel .
--The Advanced-level network management training of CBX ATM switch, by Ascend (Lucent).
Certifications
Passed CCNA in April, 2000, with score 934, pursuing CCNP, already passed
BCMSN, with score 945.