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US-India Workshop

Click here to download detailed Tutorial Program Information Version 7.0 (Excel spreadsheet).

  Sunday 5 December
Timeslot Item/Description
9.00 - 12.30

Concurrent Morning Tutorial M1 - Technology, Cyberinfrastructure, Networks and Advanced Communication Systems (Presentation)

Tutorial leaders: Dr. Radha Nandkumar and Dr. Subrata Chattopadhyay, CDAC
  Session 1: Interoperability of the Grid, Mr. B. Asvija, CDAC

This tutorial gives a brief overview of Grid Computing, its need, evolution and the current state of affairs on various popular implementations worldwide. It describes the role and importance of the Grid Middleware in sustaining the massive, distributed, collaborative infrastructure of the grid. An overview of different grid middle-ware implementations will also be presented. Highlighting the differences among the various grid architectures and technologies that build the current day grids, it tries to emphasize on the need for interoperability among these infrastructures to address global collaborative research challenges. Interoperability areas, at various layers of technology, management and operation, will be enlisted. Detailed analysis of achieving interoperability at the various technology layers shall be carried out. An understanding of various attempts from global grid community in this regard will be highlighted. Finally, a case study of the joint collaboration between the European EGEE and the Indian Garuda grid, will be described.

Session 2: GridChem/ParamChem (Dr. Sudhakar Pamidighantam, NCSA) (Presentation)

In this tutorial we will introduce and give detailed description of GridChem and ParamChem virtual organizations. GridChem represents a Computational Chemistry Grid, a production cyber infrastructure serving computational chemistry community in areas such as quantum chemistry, molecular dynamics and computational biochemistry. This NSF(USA) funded project deploys multiple popular molecular modeling applications across a Grid consisting of several HPC sites and provides intuitively familiar application specific user interfaces for research and education in molecular/material modeling. ParamChem is a new virtual organization that is being built on the core GridChem services for molecular forcefield parameterization purposes that will be used in molecular mechanics and molecular dynamics. The tutorial consists of a lecture on the various components of GridChem and ParamChem user interfaces and will provide a detailed view of how web services are integrated into application specific information provisioning frameworks for the end user benefit. Examples will be provided for specific implementation of services and user interfaces. Some implementation details as to how the user data is managed will be demonstrated. A brief discussion on sustainability of such virtual organizations will be presented. Specific examples for usage for a user and portal administrator will be provided. A set of training accounts will be used for interested participants to use the GridChem Client to create and submit a molecular model for a brief simulation to provide a first hand experience.

Intended Audience
: Researchers and educators in Science and Engineering and middleware development community for science and engineering discovery environments.

: Interest in cyber infrastructure for science and engineering

Participants to learn
: How to build virtual organizations and sustain them for e-science.

: Feedback on what has been learned based evaluation forms. Deployment of scientific and engineering discovery environments based on GridChem core provides a success criterion.

9.00 - 12.30

Concurrent Morning Tutorial M2 - Open Source Drug Discovery - "Ligand-based Virtual Screening Using Ensemble Classifiers" (Presentation, Presentation, Presentation)

Tutorial leaders: Dr. Max Kuhn - Director, Nonclinical Statistics at Pfizer, United States of America
Professor Sanghamitra Bandyopadhyay
- Machine Intelligence Unit, Indian Statistical Institute, Kolkata
Professor Ujjwal Maulik
- Department of Computer Science and Technology, Jadavpur University, Kolkata
Dr. Sundarajan
- Group coordinator of the Scientific and Engineering Computing Group, CDAC-Pune
Dr. Jaleel
- Assistant Professor, Malabar Christian College, Calicut
Dr. Andrew Lynn
- Associate Professor, School of Communication and Information Systems Jawaharlal Nehru University, New Delhi
Dr. S. Ramachandran
- Scientist EII, Institute of Genomics and Integrative Biology
The tutorial would be assisted by members from their groups, and coordinated by Nisha Chandran, Jawaharlal Nehru University
  The Open Source Drug Discovery (OSDD) project envisages the sourcing of geographically distributed scientific manpower and resources towards collectively solving the problem of drug discovery against M. tuberculosis. The project is presently building an infrastructure of federated resources consisting of analytical instruments, computational resources and personnel distributed across the country. The project seeks to bridge the unequal distribution of resources required for science and education by connecting resource-rich CSIR laboratories and central universities with participants students and research personnel from smaller less equipped institutions. The community of users for the OSDD project is now over 4000 persons, and has generated interest in a wider global community.

Existing tutorials deal with portal development and grid middleware involved with the cyberinfrastructure for scientific communities. This tutorial is designed as the development of applications, documentation and use in a real world scientific project, using work-flows, wikis linked to grid technology. The main focus of implementing these methods would be through the use of R :- An open source application for statistical analysis, using the package CARET (Classification and Regression Training), applied to the problem of drug discovery.

Aims and Objectives
The tutorial is designed to run on-line, in the two months preceding the conference, and would involve open participation from members of the Open Source Drug Discovery Consortium. The on-site presentation will summarise the experiences of the on-line sessions.

A parallel aim of the build-up to this tutorial would be to train and develop documentation on machine learning methods and their application as an exercise on a large scale collaboration WIkibooks, will be used to cover the the various methods already available with CARET - more detail is available in the supplementary material.
9.00 - 12.30

Concurrent Morning Tutorial M3 - Cloud Computing for Scientific Research and Education

  Tutorial Sessions:

Dr. Sorav Bansal
- Department of Computer Science and Engg., IIT, Delhi The talk will introduce the area of virtualization and cloud computing, followed by a discussion on my research group’s recent work at IIT Delhi. In introduction topics, I will provide an overview of the virtualization technology followed by an introduction on cloud computing. In research topics, I will discuss our ongoing efforts to apply virtualization to three goals: security, reliability, and performance. I will discuss our approach and present preliminary results. (Presentation)

Prasad Dharmavaram
- VMware R&D, Bangalore In this session, the speaker will talk about the evolution of the virtual data center - A Journey from Desktop to Cloud. The presentation will provide an overview of virtualization and the various cloud computing models. VMWare solutions in the IAAS, PAAS, and SAAS space will also be discussed. The speaker will also explain how educational and research institutes can use the power of 'on-demand' computing provided by internal, external, and hybrid clouds for their compute needs. Jothi Padmanabhan - Yahoo R&D, Bangalore This talk will start with introducing the problem of large scale data processing and the challenges associated with it. It will then go on to introduce the Map/Reduce programming paradigm and how M/R can be used to solve the large scale data processing problems at Yahoo! and elsewhere. This will be followed by an overview of its most popular implementation – Apache Hadoop (http://hadoop.apache.org). Hadoop is in wide use at leading Internet companies including Yahoo!, Amazon & Facebook. The presentation will walk through the high level design and architecture of the Hadoop Map-Reduce Framework and the Hadoop Distributed File System (DFS). The objective of the talk is to introduce Hadoop to an audience that is interested in technical and technological aspects of Hadoop. (Presentation)

Dr. A. Paventhan
- ERNET India R & D, Bangalore This talk will present how economic benefits of cloud as seen by business enterprises can be extended to educational domain. Also, ERNET India's research and development plan for cloud educational services and its application in secondary school education will be covered. (Presentation)
12.30 - 14.00 Lunch
14.00 - 17.30

Concurrent Afternoon Tutorial A1 - caBIG® (cancer Biomedical Informatics Grid)

1. caBIG Overview and Indo-US Cancer Research Grid
(20 mins - Presentation)
Deputy Director, Center for Biomedical Informatics and Information Technology (CBIIT) and Interim CIO, US National Cancer Institute

2. caBIG Technical infrastructure
(30 mins - Presentation)
covering SOA; SAIF/ECCF; Semantics; and caGRID
Deputy Director, Center for Biomedical Informatics and Information Technology (CBIIT) and Interim CIO, US National Cancer Institute, and Ravi Madduri, Argonne National Laboratory, University of Chicago

3. caBIG Capabilities
(40 mins - Presentation)
1. Clinical Services: John Speakman, Chief Program Officer, Associate Director, Clinical Products and Programs, Center for Biomedical Informatics and Information Technology (CBIIT) and Interim CIO, US National Cancer Institute 2. Life Sciences: Ian Fore, Associate Director, Tissue Banking and Pathology Tools, US National Cancer Institute

4. caBIG Deployment
(50 mins - Presentation)
John Speakman

Ganesh Shankar
, caBIG Deployment Lead and Manager, Advanced IT Core, Indiana University Simon Cancer Center
CS Ramesh
, Associate Professor, Thoracic Surgery and Officer in Charge, Clinical Research Secretariat, Tata Memorial Hospital
Gaur Sunder
Team Coordinator. Medical Informatics, Centre for Development of Advanced Computing (C-DAC)
Madhulika Tripathi
, BioMantra

5. Q&A
(40 mins)

14.00 - 17.30

Concurrent Afternoon Tutorial A2 - The HUBzero™ Platform for Scientific Collaboration (Presentation)

Tutorial leaders:
Michael McLennan
, Senior Research Scientist, the Rosen Center for Advanced Computing, Purdue University
William K. Barnett
, Senior Manager for Life Sciences in Research Technologies, and Associate Director of the Pervasive Technology Institute, Indiana University.

"HUBzero™ is an open-source software platform used to create web sites or “hubs” for scientific collaboration, research, and education. It has a unique combination of capabilities that appeals to many people engaged in research and educational activities. A little like YouTube.com, HUBzero allows people to upload content and “publish” to a wide audience, but instead of being restricted to short video clips, it handles many different kinds of scientific content. A little like Google Groups, HUBzero lets people work together in a private space where they can share documents and send messages to one another. A little like Askville on Amazon.com, HUBzero lets people ask questions and post responses, but about scientific concepts instead of products.

Perhaps the most interesting feature of HUBzero is the way it handles simulation and modeling programs, or “tools.” A little like SourceForge.net, HUBzero allows researchers to work collaboratively on the source code of their simulation programs and share those programs with the community. But instead of sharing only by offering source code bundles to download, HUBzero also offers live published programs available for use instantly and entirely within an ordinary web browser. Computationally demanding runs can be dispatched to remote computing resources in a way that is completely transparent to users. In effect, each hub is an “app store” for a scientific community connected to a cloud of resources for execution, complete with a library of training materials and other collaboration features.

HUBzero brings this functionality together in a package that campus IT organizations can use to create their own online communities or “virtual organizations.” HUBzero is not meant to be a closed solution, but rather, an open platform, supported by a consortium of universities, that other institutions can build upon. For more details, see http://hubzero.org

In this tutorial, participants will learn about the features of HUBzero and how existing hubs are being used to support research and educational activities. They will learn how to publish simulation tools and other resources within a hub and track their use by a worldwide community. Specific sessions are: • What are virtual organizations and how does HUBzero help them work? • How do the features of HUBzero support various types of projects? • Tutorial: Uploading tools and other resources to “publish” on a hub • Audience feedback: What features do you need to support your own projects? Intended Audience: Researchers and educators engaged in science and engineering. IT professionals interested in building virtual organizations to support researchers and educators.

: Some familiarity with the web.
14.00 - 17.30

Concurrent Afternoon Tutorial A3 - What makes for a successful Indo-US network-enabled collaboration? Development and Enhancement of International Collaborations, especially between Indiana University and Institutions of Higher Education in India (Presentation)

Tutorial Leaders
Bradley Wheeler
, Vice President for Information Technology, Professor of Indiana University
P. Sarita Soni
, Associate Vice President for Research, Professor of Optometry and Vision Science, Indiana University

Drawing on the Indiana University experience on collaboration with partners in India, this tutorial will focus on the arts, business and vision science experiences of developing collaborations and enhancing these collaboration through high performance computing networks. This tutorial will also discuss the use of open access resources to enhance dissemination of knowledge.

In this tutorial, participants will learn how collaborations develop, responsibility of partnerships and how these will be enhanced through high performance computing. There will be an hour long breakout session into five small groups so that the participants can discuss the five presentations in detail with the presenters and bring up new possibilities for collaboration between Indiana University and Indian Institutions of higher education. (Presentation)

Specific topics that will be covered
Business Education (30 minutes - Presentation) - Presenters: Professors M. A. Venkataramanan, Ashok Soni and Ishwar MurthyPreservation of Collections (30 minutes) – Presenters: Ruth Stone and Shubha ChaudhuriEducation and Research in Vision Science and Eye Care (50 minutes - Presentation) – Presenters: Sarita Soni, Akila Ganesan, L. Srinivasa Varadharajan, and Shrikant Bharadwaj • Open Access Resources and Dissemination of knowledge (30 minutes - Presentation) – Presenter: Brad Wheeler

Following these presentations, there will be 3 breakout sessions for presenters and attendees to futher discuss these and other topics.

The breakout session will be for 45 minutes.

Audience feedback: Are there collaborations that you are working on or would like to develop that you would like to discuss with the participants of this tutorial?

Intended Audience: Researchers and educators who are interested in developing international collaborations

Prerequisites: Interest in sharing information broadly and in international collaboration in research, creative activity, scholarship and teaching

For the workshop program sessions please see the workshop agenda.