Publications

• Judy Qiu, Scott Beason, Seung-Hee Bae, Saliya Ekanayake, Geoffrey Fox Performance of Windows Multicore Systems on Threading and MPI Technical report. January 17, 2010.

• Jong Youl Choi, Judy Qiu, Marlon Pierce, Geoffrey Fox Generative Topographic Mapping by Deterministic Annealing Technical Report January 15 2010

• Jaliya Ekanayake, Thilina Gunarathne, Judy Qiu, Cloud Technologies for Bioinformatics Applications, Technical report. January 4, 2010.

• Judy Qiu, Jaliya Ekanayake, Thilina Gunarathne, Jong Youl Choi, Seung-Hee Bae, Yang Ruan, Saliya Ekanayake, Stephen Wu, Scott Beason, Geoffrey Fox, Mina Rho, Haixu Tang Data Intensive Computing for Bioinformatics Technical Report December 29 2009

• Jong Youl Choi, Seung-Hee Bae, Xiaohong Qiu and Geoffrey Fox High Performance Dimension Reduction and Visualization for Large High-dimensional Data Analysis Technical Report submitted for publication November 14 2009

• Jaliya Ekanayake, Thilina Gunarathne, Judy Qiu, Geoffrey Fox, Scott Beason, Jong Youl Choi, Yang Ruan, Seung-Hee Bae, Hui Li Draft Report: Applicability of DryadLINQ to Scientific Applications Technical Report October 16 2009

• Jaliya Ekanayake, ( Advisor Geoffrey Fox) Architecture and Performance of Runtime Environments for Data Intensive Scalable Computing Doctoral Showcase SC09 Portland Oregon November 14-20 2009

• Xiaohong Qiu, Jaliya Ekanayake, Thilina Gunarathne, Seung-Hee Bae, Jong Youl Choi, Scott Beason, Geoffrey FoxUsing MapReduce Technologies in Bioinformatics and Medical Informatics in Using Clouds for Parallel Computations in Systems Biology workshop at SC09 Portland Oregon November 16 2009

• Thilina Gunarathne, Chathura Herath, Eran Chinthaka, Suresh Marru Experience with Adapting a WS-BPEL Runtime for eScience Workflows GCE09 Grid Computing Environments 2009 workshop at SC09 Portland Oregon November 20 2009

• Xiaohong Qiu, Jaliya Ekanayake, Scott Beason, Thilina Gunarathne, Geoffrey Fox, Roger Barga, Dennis Gannon Cloud Technologies for Bioinformatics Applications 2nd ACM Workshop on Many-Task Computing on Grids and Supercomputers (SC09), Portland, Oregon, November 16th, 2009

• Geoffrey Fox, Xiaohong Qiu, Scott Beason, Jong Youl Choi, Mina Rho, Haixu Tang, Neil Devadasan, Gilbert Liu Biomedical Case Studies in Data Intensive Computing Keynote talk at The 1st International Conference on Cloud Computing (CloudCom 2009) at Beijing Jiaotong University, China December 1-4, 2009

• Jong Youl Choi Deterministic Annealing for Generative Topographic Mapping GTM Technical report September 2 2009

• Jaliya Ekanayake, Xiaohong Qiu, Thilina Gunarathne, Scott Beason, Geoffrey Fox High Performance Parallel Computing with Clouds and Cloud Technologies Technical Report August 25 2009 to appear as Book Chapter

• Xiaohong Qiu, Jaliya Ekanayake, Geoffrey Fox, Thilina Gunarathne, Scott Beason Computational Methods for Large Scale DNA Data Analysis Microsoft eScience workshop, October 16 2009, Gates Center Carnegie Mellon University Pittsburgh

• Jaliya Ekanayake, Atilla Soner Balkir, Thilina Gunarathne, Geoffrey Fox, Christophe Poulain, Nelson Araujo, Roger Barga DryadLINQ for Scientific Analyses 5th IEEE International Conference on e-Science Oxford UK, December 9-11 2009

• Geoffrey Fox, Xiaohong Qiu, Scott Beason, Jong Youl Choi, Mina Rho, Haixu Tang, Neil Devadasan, Gilbert Liu Case Studies in Data Intensive Computing: Large Scale DNA Sequence Analysis as the Million Sequence Challenge and Biomedical Computing Technical Report 9 August 2009

• Geoffrey Fox, Seung-Hee Bae, Jaliya Ekanayake, Xiaohong Qiu, and Huapeng Yuan Parallel Data Mining from Multicore to Cloudy Grids Proceedings of HPC 2008 High Performance Computing and Grids workshop Cetraro Italy July 3 2008

• Jaliya Ekanayake, Geoffrey Fox High Performance Parallel Computing with Clouds and Cloud Technologies First International Conference CloudComp on Cloud Computing October 19 - 21, 2009, Munich, Germany

• Geoffrey Fox, Seung-Hee Bae, Jaliya Ekanayake, Xiaohong Qiu, and Huapeng Yuan Parallel Data Mining from Multicore to Cloudy Grids Proceedings of HPC 2008 High Performance Computing and Grids workshop Cetraro Italy July 3 2008

• Xiaohong Qiu and Geoffrey Fox Parallel Data Mining for Medical Informatics Technical Report January 13 2009

• Geoffrey Fox, Marlon Pierce, Xiaohong Qiu and Shrideep Pallickara Summary of Community Grid laboratory Activities January to December 2008 Technical Report January 5 2009

• Seung-Hee Bae Parallel Multidimensional Scaling Performance on Multicore Systems at workhop on Advances in High-Performance E-Science Middleware and Applications in Proceedings of eScience 2008 Indianapolis IN December 7-12 2008

• Xiaohong Qiu (presenter), Geoffrey C. Fox, Huapeng Yuan, Seung-Hee Bae, George Chrysanthakopoulos, Henrik Frystyk Nielsen Parallel Data Mining on Multicore Clusters ( Old version Parallel Data Mining on Multicore Systems) 7th International Conference on Grid and Cooperative Computing GCC2008 Shenzhen China October 24-26 2008

• Xiaohong Qiu, Geoffrey C. Fox (presenter), Huapeng Yuan, Seung-Hee Bae, George Chrysanthakopoulos, Henrik Frystyk Nielsen PARALLEL CLUSTERING AND DIMENSIONAL SCALING ON MULTICORE SYSTEMS Invited talk at the 2008 High Performance Computing & Simulation Conference (HPCS 2008) In Conjunction With The 22nd EUROPEAN CONFERENCE ON MODELLING AND SIMULATION (ECMS 2008) Nicosia, Cyprus June 3 - 6, 2008

• Xiaohong Qiu, Geoffrey C. Fox, Huapeng Yuan, and Seung-Hee Bae Parallel Data Mining on Multicore Systems Technical Report May 13 2008

• Xiaohong Qiu, Geoffrey C. Fox, Huapeng Yuan, Seung-Hee Bae, Parallel Datamining on Multicore Systems Technical Report February 20 2008

• Xiaohong Qiu, Geoffrey C. Fox, Huapeng Yuan, Seung-Hee Bae, George Chrysanthakopoulos, Henrik Frystyk Nielsen Performance of Multicore Systems on Parallel Data Clustering with Deterministic Annealing ICCS 2008: "Advancing Science through Computation" Conference; ACC CYFRONET and Institute of Computer Science AGH University of Science and Technology Kraków, POLAND; June 23-25, 2008. Springer Lecture Notes in Computer Science Volume 5101, pages 407-416, 2008. DOI

• Xiaohong Qiu, Geoffrey Fox, H. Yuan, Seung-Hee Bae, George Chrysanthakopoulos, Henrik Frystyk Nielsen High Performance Multi-Paradigm Messaging Runtime Integrating Grids and Multicore Systems (updated from original) September 23 2007 published in proceedings of eScience 2007 Conference Bangalore India December 10-13 2007

• Xiaohong Qiu, Geoffrey C. Fox, Huapeng Yuan, Seung-Hee Bae, George Chrysanthakopoulos, Henrik Frystyk Nielsen Performance of Multicore Systems on Parallel Datamining Services Technical report November 19 2007

• Geoffrey Fox, Seung-Hee Bae, Rajarshi Guha, Marlon E. Pierce, Xiaohong Qiu, David J. Wild , H. Yuan High Performance Robust Datamining for Cheminformatics PAPER ID: 1168842 at Division of Chemical Information session on Cheminformatics: From Teaching to Research Tuesday, April 8, 2008 from 11:35 AM to 12:00 PM at Spring 2008 American Chemical Society National Meeting & Exposition Sunday, April 6 — Thursday, April 10, 2008 New Orleans, LA USA

• Xiaohong Qiu, Geoffrey Fox, H. Yuan, Seung-Hee Bae, George Chrysanthakopoulos, Henrik Frystyk Nielsen Web 2.0 Grids and Cyberinfrastructure , Web 2.0 Workshop at The 21st Open Grid Forum - OGF21 Grand Hyatt Seattle Seattle, Washington October 15-19, 2007

• Geoffrey Fox, Seung-Hee Bae, Rajarshi Guha, Marlon E. Pierce, Xiaohong Qiu, David J. Wild , H. Yuan, Neil M Devadasan, George Chrysanthakopoulos, Henrik Frystyk Nielsen Parallel Clustering in a Cheminformatics Grid The 2007 Microsoft eScience Workshop at RENCI (The Friday Center for Continuing Education UNC - Chapel Hill 100 Friday Center Drive Chapel Hill, NC 27599-1020) October 21-23 2007

• Xiaohong Qiu, Geoffrey Fox, H. Yuan, Seung-Hee Bae, George Chrysanthakopoulos, Henrik Frystyk Nielsen Performance of a Multi-Paradigm Messaging Runtime on Multicore Systems Abstract of Poster at Grid 2007 Conference, Omni Austin Downtown Hotel Austin Texas, September 19 2007

• Xiaohong Qiu Multi-Paradigm Run Time MPR for Multicore Systems Position Paper for Microsoft Multicore Computing Workshop Seattle June 20-21 2007

• Xiaohong Qiu, Geoffrey Fox, George Chrysanthakopoulos, Henrik Frystyk Nielsen High Performance Multi-Paradigm Messaging Run Time on Multicore Systems Technical Report April 16 2007

• Xiaohong Qiu, Geoffrey Fox, Alex Ho Analysis of Concurrency and Coordination Runtime CCR and DSS for Parallel and Distributed Computing Technical Report January 21 2007

• Xiaohong Qiu and Anumit Jooloor Web Service Architecture for e-Learning Special issue for EISTA 2004 International Conference on Education and Information Systems: Technologies and Applications July 21-25 2004 Orlando published in Journal of Systemics, Cybernetics and Informatics Volume 3, Issue 5 2006

• Xiaohong Qiu and Anumit Jooloor Web Service Architecture for e-Learning March 2006, to be published in Journal of Systemics, Cybernetics and Informatics

• Xiaohong Qiu, Shrideep Pallickara, and Ahmet Uyar Making SVG a Web Service in a Message-based MVC Architecture SVGOpen Conference 2004 Tokyo September 2004. Original Abstract

• Xiaohong Qiu Building Desktop Application with Web Services in a Message-based MVC Paradigm IEEE 2nd International Conference on Web Services (ICWS 2004) pages 765-769, San Diego July 2004 DOI

• Xiaohong Qiu and Geoffrey Fox Building Desktop Application with Web Services in a Message-based MVC Paradigm Technical Report

• Xiaohong Qiu, Bryan Carpenter and Geoffrey C. Fox Internet Collaboration using the W3C Document Object Model in Proceedings of the 2003 International Conference on Internet Computing, Las Vegas June 2003

• Xiaohong Qiu, Bryan Carpenter and Geoffrey C. Fox Collaborative SVG as a Web service updated to Longer Word Version or in official form in Proceedings of SVG Open Conference Vancouver July 2003

• Xiaohong Qiu, Bryan Carpenter and Geoffrey C. Fox Collaborative Web services and the W3C Document Object Model technical report

• Geoffrey Fox, Hasan Bulut, Kangseok Kim, Sung-Hoon Ko, Sangmi Lee, Sangyoon Oh, Shrideep Pallickara, Xiaohong Qiu, Ahmet Uyar, Minjun Wang, Wenjun Wu Collaborative Web Services and Peer-to-Peer Grids or in sxw presented at 2003 Collaborative Technologies Symposium (CTS'03)

• Geoffrey Fox, Dennis Gannon, Sung-Hoon Ko, Sangmi Lee, Shrideep Pallickara, Marlon Pierce, Xiaohong Qiu, Xi Rao, Ahmet Uyar, Minjun Wang, Wenjun Wu Book chapter on Peer-to-Peer Grids

• Xiaohong Qiu, Flash Tutorial October 2000 in Word or HTML

• Xiaohong Qiu Message-based MVC Architecture for Distributed and Desktop Applications Syracuse University PhD March 2 2005