(Responses are listed beginning with the most recent)

App#	INVESTIGATOR(s)	LOCATION	SUBMITTED
39 (34)	Chandar Raman	LHRB463 (office), LHRB452 (labaratory)	February 1, 1999
	Internet2-Access to DNA sequence database and sequence analysis tools. The research in my laboratory involves the identification of new genes, genetic polymorphisms and structural analysis of proteins.For these studies we very frequently (often more than once a day) access the NCBI data base toaccess the EST sequences, the genome sequencing database and proteins database. The tools we use are primarily BLAST analysis and secondary structure analysis, both of which are intensive processes. Accessibility will greatly speed up completion of these projects at any given time.  Presently, I often use BLAST severs at NCBI and overseas (such as JAPAN) siumltaneously to speed analyses.
38 (30)	David Shealy Neal Evans	CH 310c, CH314, CH 394	March 31, 1998
	Optical design using genetic algorithms for optimization using parallel processing. High speed data link need between nodes around country or campus running this parallel optimization code. UAH, NASA centers MSFC and JPL, Univ. Rochester, Univ. AZ
37 (29)	Joseph G. Harrison	308 Campbell Hall	March 29, 1998
	"Electromagnetic Analysis System for NMR" This connection is needed to allow access to solid modeling software on platform at Mass. General Hospital, MRI Center. This work is part of research sponsored by NSF grant -DBI-9724627 with Dr. J. T. Vaughan as PI and J.G. Harrison as Co-PI. The modeling will entail remote use of CAD-like package (ARIES) running on an HP platform at MGH and displayed locally on a Sun UltraSparcI with Creator Graphics. A similar mode of operation was carried out locally with software running at CNIR and displayed on an SGI in Campbell Hall. The T1 speed available at the time made the work somewhat tedious. Another application run from an SGI at Tuscaloosa and displayed locally was totally unworkable at T1 speeds. Upgrade to T3 will not be sufficient to rectify problem. We anticipate need for I2 speed/bandwidth. Access to EMAS/ARIES software running on remote HP computer at Mass Gen Hospital.
36 (28)	Yogesh K. Vohra Steven Beaver Neal Chesnut	Diamond Research Laboratory (Room 393 Campbell Hall) High Pressure Research Laboratory (Room 395 Campbell Hall)	March 12, 1998
	High Speed Connection to National Laboratories for Data Transfer: Brookhaven National Laboratory, Lawrence Livermore National Lab and Cornell High Energy Synchrotron Source Mission:This NSF supported research is geared towards synthesizing new materials under high pressures and temperatures and study phase transformation in metals and alloys. As a part of this project, UAB faculty and graduate students travel to National synchrotron facilities to collect data and transfer this data using file transfer protocol. Data is analyzed at UAB Image Plate X-ray Data files are 10.24 Mbytes each exposure with a total of 100 exposures per sample. At the present rate of data transfer, it takes us several hours to transfer this data to UAB. workstations. I2 capabilities will greatly reduce our data transfer times and will let the researcher concentrate on the actual experiment. Synchrotron facilities which we typically use are the Cornell High Energy Synchrotron Source (CHESS) and Brookhaven National Laboratory. Connection to ESnet: UAB has ongoing collaboration with Lawrence Livermore National Laboratory in diamond technology where a large amount of data and video images are transfered between the two laboratories. A video link between the Campbell Hall and the DOE laboratories will facilitate the data transfer and allow access to exchange of live images. (Live video, large data sets)
35 (27)	Steve Harvey	559 MCLM 514 MCLM	March 3, 1998
	Teaching Macromolecular Modeling (BMG 759) This course is an interactive laboratory course aimed at teaching the basic principles of the molecular mechanics approach to modeling macromolecules. Students run the MSI QUANTA/CHARMM package on the SGI workstations of the Macromolecular Visualization Center. The course is currently limited to students at UAB, but tutorials are being developed that could be used remotely.
34 (26)	Steve Harvey	559 MCLM 514 MCLM	March 3, 1998
	Multiscale Methods in Macromolecular Modeling Traditional molecular mechanics programs (molecular dynamics, energy minimization, Monte Carlo, etc.) represent every atom explicitly. This is impractical for very large macromolecular assemblies, for which reduced representations are often used. A reduced representation of a protein, for example, might have one pseudoatom to represent each amino acid. Reduced representations are commonly used in refining very large macromolecular assemblies, such as the ribosome. They are also useful for models of protein folding. In collaboration with investigators at Scripps Research Institute, we are developing multiscale modeling methods that incorporate both all-atom representations (in regions of particular importance, or where pieces of the structure have been determined by x-ray crystallography or NMR) and reduced representations (in areas of less importance, or where there are few data). This jointly funded collaboration is carried out by visits between our laboratories every few months, but most of the work is done over the internet. We share large datasets and run interactive programs both at UAB and at Scripps, and we are beginning to develop and share graphical representations at both sites. This work is funded by a grant for a National Shared Computational Resource, and the packages will become available to researchers around the world over the next three years. Real Time Interaction, Animated Graphics, Static Graphics/Slides, Large Data Sets
33 (25)	Karlene Ball Kathy Goode	Campbell Hall 201	February 17, 1998
	ACTIVE Multi-Site Clinical Trial Data is being collected over 5 years at 6 sites as part of a clinical trial of a cognitive intervention. Large scale data sets will be transferred among sites as part of the data analysis segment of the project. Because of the fast turnaround that will be necessary for analyses and results, high-speed networking is required. Analyzing data and reporting of the results are integral parts of the specific aims of this research investigation. Data consists of Static Graphics/Slides and Large Data Sets, which will be transfered on a daily basis. Collaborating locations include New England Research Institute - Clinical Trial Coordinating Site
32 (24)	David Bedwell	Bevill 170	February 8, 1998
	Distance Learning for CMB Graduate Program This connection can be used to transmit CMB lectures and research seminars to remote sites; the room is used on a daily basis. High-speed networking is required for real-time video link. Also, real-time modeling software, etc. will also be available for interactive uses. Courses in advanced subjects and special seminars may be transmitted to multiple (anticipate 2-10) sites across the state (and region).
31 (23)	JoAnn Lan	EB 155	January 27, 1998
	Center for Educational Technology The project will research and develop instructional applications for teacher education, and provide service and out reach programs related to teacher professional development. New instructional methods will include: two-way videoconferencing, tele-collaboration and tele-mentoring, mulitmedia-on-demand for the classroom, digital library, remote access, high-speed vitualization and data manipulation,etc. UAB School of Education, preK-12 schools in Birmingham area and in the State, other professional schools in UAB
30 (22)	Frank Amthor	229 Campbell Hall	January 24, 1998
	Realistic biophysical simulations of neural activity from single neurons to large assemblies Project will involve visualization of remote simulation of biophysically realistic neural activity in single neurons, and in large neural assemblies. Simulations will be conducted on supercomputers within and outside of Alabama, and results viewed and interacted with at 229 Campbell Hall. Data will be transmitted from Campbell Hall for the simulations. High speed networking will be necessary for topologically accurate graphical visualization of neural activity locus either in the dendrites of single cells, or in various activities of the brain.
30 (21)	Charles L. Watkins	CHEM 138, CHEM 313	January 23, 1998
	Nuclear Magnetic Resonance Spectrometry for the UAB Metropolitan Consortium of Universities The UAB Metropolitan Consortium for NMR Spectroscopy use a joint multinuclear Fourier Transform Nuclear Magnetic Resonance for routine use. Four universities provided matching money for the NSF-Instrumentation and Laboratory Improvement grant (UAB, Birmingham Southern, Samford and Montevallo). This instrument is being used to modernize the undergraduate chemistry curricula, laboratory programs, existing cooperative course offerings, and joint undergraduate student/ faculty research collaborations among consortium members. The slow responses resulting from movement of large data sets in real time discourages off-site participation, particularly in an educational setting. The specific data requirements are for interactive processing of the free-induction decay signals, downloading of the same for off-site processing, and spectral library searches.
29 (20)	Tracy P. Hamilton	CHEM, 2nd floor, Room number to be assigned after renovation	January 16, 1998
	High-Performance Quantum Chemistry Computations Quantum chemical simulation using the GAUSSIAN 94 program is required on the Alabama Supercomputer when local resources are insufficient. Current simulation projects are boron lithides as potential additives for high energy density materials (HEDM), and nitrogen oxides as HEDM. The large binary files created by GAUSSIAN are analyzed using any of a number of graphics front ends to display molecular orbitals, do real time movements of the molecular graphics, and plot molecular orbitals and electrostatic potentials. In order to analyze a binary file produced by the CRAY C90, the Unichem program needs to use X Windows or SGI workstations as front ends, with large amounts of visualization data being sent in real time. Our research involves frequent analyses of GAUSSIAN molecular structure optimizations and vibrational frequency computations.
28 (19)	Tom Nordlund	Campbell Hall, 3rd Fl 348E and 301 lecture hall	January 16, 1998
	Laser Tweezers Micromanipulation and Imaging Need to transfer high-quality video to and from microscope system, run by Dell computer with high-resolution video/imaging capabilities. The video/graphics are of tissue and micro-objects being manipulated by a laser system. I would like to be able to set up a web site where such videos can be viewed by anyone with high- speed capabilities. I would also like to be able to download similar graphics from other locations (e.g., ORNL). The projects are/will be grant-supported and will involve basic research and an educational component, which (hopefully) will eventually involve joint Med Center/NSM courses and seminars.
27 (18)	David G. Pritchard, Ph.D.	School of Dentistry Building, Room 813B	January 14, 1998
	Biochemical Characterization of Gbroup B Streptococcal Hyaluronate Lyase Plan to exchange crystallographic data with collaborators at Argonne National Laboratory, and use the enhanced capabilities of Internet2 to speed up nucleotide and amino acid sequence analysis.
26 (17)	Christopher Lorish	Access points are needed in Tuscaloosa, Huntsville and UAB for medical students to access the software on a server located probably in Lister Hill library	January 9, 1998
	Web-based Courseware to Teach Clinical Medicine to 3rd and 4th Year Medical Students Courseware that includes sound, video as well as text requires high speed transmission rates to minimize wait time and user frustration. Up to 160 students could access the server simultaneously to use one or more of the web-based courseware programs. In time, more web-based courseware is likely to be developed that medical students at all 3 campuses will need to access.
25 (16)	Pat Higgins John Marko	Bevill 860, 861, 859	January 9, 1998
	Analysis of chromosome dynamics Research involves genome project type studies of bacteria including the organisms E. coli and Salmonella typhimurium. The needs include teaching for the CMB program, where I am a COURSEMASTER of the CMBII course on genetics. There is also need for high computing for comparing sequences generated in a S. typhimurium mapping project and in a survey of chromosome structure by transposition/sequence analysis. John Marko is in the Physics Department at the University of Illinois in Chicago.
24 (15)	Jamila Horabin	MCLM 558, 525A	January 9, 1998
	Real Time Access to Large Data Sets We require faster network speeds in order to transfer large databases across the Internet to our collaborators. A dedicated 10MB/second rate would be a great improvement over our current slow rate (functionally < 1MB/sec.)
23 (13)	Elliot Lefkowitz Susan Hollingshead John Glass	BBRB; 6th 4th, and 2nd floors; Rooms 644, 654, , 416, 281	January 8, 1998
	Microbial Genome Analysis: The complete sequences of the bacteria Streptococcus pneumoniae and Ureaplasma urealyticum The research project involves determining the complete genetic sequence of several bacterial species and analyzing the data to determine the genetic complement of these bacteria. This work results in the generation of large datasets and graphic files that need to be transferred between computers within UAB and to colleagues outside of UAB. At least two NIH grants are highly dependent on such data access. UAB, Birmingham, AL National Institutes of Health, Bethesda, Maryland The Institute of Genomic Research, Gaithersburg, Maryland Many Others
22 (12)	Michael Jablonsky N. R. Krishna	CHSB Basement B-20	January 8, 1998
	Macromolecular Structures, Multi-Dimensional NMR, and Imaging The research projects being pursued in Dr. Krishna's laboratory and at the NMR Facility involve a wide range of applications requiring high-speed networking with other terminals (both at UAB, e.g., crystallography group, and outside UAB) to permit transfer of large size data matrices, images etc, as well as manipulation of these 3-dimensional images in real time from remote locations (e.g., University of Lubeck in Germany which is collaborating with Dr. Krishna's laboratory). The research applications range from the generation of large size 3-dimensional NMR spectral images, generation of 3-dimensional structures at atomic resolution of large proteins and other macromolecules, anatomical MRI images, as well as large files from computer software applications. Realization of these goals with high-speed networking is in line with our programmatic efforts in the area of structural biology. Our laboratrory also frequently uses the Supercomputer Facility for protein structure refinement calculations, and will benefit significantly from high-speed networking. UAB Investigators from the Departments of Biochemistry and Molecular Genetics, Microbiology, Neurobiology, Physiology and Biophysics, Cell Biology, Medicine, Pathology, Physics, Chemistry, Divisons of Hematology & Oncology, Gerontology and Geriatric Medicine, Cell Adhesion and Matrix Research Center, Comprehensive Cancer Center, AIDS Research Center, Atheroslerosis Research Unit and Researchers at other academic institutions within US such as University of Florida, Mt. Sinai Medical Center, University of Texas Medical Branch at Galveston, Montana State University, University of Georgia, etc., and foreign institutions such as the University of British Columbia in Canada, and the University of Lubeck in Germany.
21 (10)	Roger C. Nance	Campbell 158	January 7, 1998
	Teaching Anthropology via Internet, UAB/UA UAB and UA share a cooperative MA program in anthropology. Courses are routinely taught via aTelevision/telephone facilities currently available at both universities. This will enable the anthropology departments at both universites to schedule seminars, lectures and courses to reach students on both campuses. Many more events/courses can be scheduled if we can use internet and don't have to work within the constraints of the present system
20 (9)	Herbert C. Cheung Wen-Ji Dong Jun Xing	CHSB 517	January 7, 1998
	Protein and DNA sequencing analysis (1) Verification of experimentally obtained DNA genes with those that have known sequences. (2) Search for homologous amino acid sequences in new proteins.
19 (8)	Herbert C. Cheung Wen-Ji Dong Jun Xing	CHSB 519, 517	January 7, 1998
	Simulation of protein dynamics A given set of experimental FRET (fluorescence resonance energy transfer) data from a protein frequently may be fitted with more than one structural model. It is necessary to carry out simulations of the several potential models and find one model that is considered more realistic than the others. This is one approach in our work.
18 (6)	Herbert C. Cheung Wen-Ji Dong Jun Xing	CHSB 519, 517	January 7, 1998
	Protein dynamics Communication with Protein Data Bank (PDB) and other structural biology laboratories for visualization of protein structures. This requires transmission of large data files, images of x-ray structures, NMR data sets,electron micrographs, reconstruction of optical images, etc.
17 (5)	J. Kevin Smith Lincoln Berland	3rd floor JT north wing	January 5, 1997
	Radiology learning file for the internet (submitted this as part of the I2 proposal) Location of radiology offices, requiring high bandwidth for clinical work (CT, MR, plain radiographs) Clinical/research needs and the need to upgrade our clinical areas in the hospital are a high priority.
16 (4)	Leo Semes	HBP 103 and 203	January 2, 1998
	Continuing education via internet Internet Continuing Education is in its infancy. As regulatory boards recognize the acceptance of this form of relicensure, the industry will grow. In order to be a leader, UAB requires the high-speed connection.
15 (3)	Harry W. Schroeder, Jr. M.D., Ph.D.	TI 408	December 31, 1997
	Development of the Antibody Repertoire Genetics of Rheumatoid Arthritis Sib Pairs Genetics of Common Variable Immunodeficiency/IgA Deficiency Immunoglobulin Usage in Chronic Lymphocytic Leukemia Each of these applications involves creation of databases for the analysis of immunoglobulin utilization or the genetics of diseases of immune function. These applications require communication via the internet, both to deposit data in our databases or to analyze the data in the database. These applications are the foundation of our research funding. (National Institutes of Health, Arthritis Foundation, North American Rheumatoid Arthritis Consortium)
14 (2)	Richard Maisiak	CHSB 420	December 23, 1997
	Internet Conferencing of National Arthritis Center Researchers Internet2 would allow us to share both visual scientific presentations and visual real-time educational workshops with other national centers. There are at least 15 universities involved, including Stanford, Harvard, and Cornell.
13 (970023)	Rodney C. P. Go	Professional Arts Building	December 22, 1997
	Family History and Genetic Counseling for Hereditary Cancers The application is an interactive JAVA based system which interacts with a database on families with hereditary cancers. It is a user friendly interactive instrument to collect family history of cancers. It draws the pedigree of the family in real time as the user answers questions regarding his/her family history. The next module will build upon this to provide two-way video conferencing with the consultant, physician, and genetic counselor.
12 (970022)	Tamas Simor Gabriel A. Elgavish	THT-332	December 22, 1997
	Magnetic Resonance Image (MRI) processing Magnetic Resonance Spectroscopy (MRS) processing Collaborators: Mark Doyle (UAB CVMRI BDB), James Hugg (UAB CNIR), Roderic Pettigrew (Emory University, Atlanta, Georgia; Department of Radiology Frederic Philips NMR Center) Magnetic Resonance Image processing, mainly cardiac MRI data with cardiac perfusion image and cardiac movie processings. (with CVMRI - BDB at UAB, and FFNMRC at Emory University, Atlanta,GA) Magnetic Resonance Spectroscopy (Spectroscopic Imaging) processing running programs on a host computer (4.1T MRSI data processing). (with CNIR - UAB)
11 (970021)	Marc Feldman, M.D.	Center for Psychiatric Medicine, 4th floor, Rm 415	December 22, 1997
	Outcome studies and best practice development in UAB psychiatric services Clinical Services, the Center for Psychiatric Medicine, and Division of Adult Psychiatry. Use of Internet resources is very high, and constrained by the current slow connection. Research of outcome and best practices instruments. Sharing of data with other academic medical centers. Acquisition of data from on-line clinical databases. Exploration of telemedicine across UAB satellite sites and into rural areas.
10 (970020)	Ryoichi Kawai	CH309, CH394	December 18, 1997
	Large Scale Simulations of Materials/Molecular Physics Using Massively Parallel Computers Programs developed at UAB to simulate dynamics of atoms from first principles are called parallel ab initio molecular dynamics (PAIMD). The PAIMD simulator simultaneously solves many electron Schrodinger equations and atomic motion equations, and requires up to 10 GB of memory, generating output files up to 1 GB. Analysis of such large data sets requires large scale, animated visualizations. Because of the current slow, non-deterministic Internet traffic, data from several successful simulations (many 100 GB in size) must be left in national supercomputer centers without detailed analysis. High-speed, deterministic access to national supercomputer centers will facilitate transfer of this data to a local graphics workstation where a more advanced visual analysis can be performed off-line or in real-time as the simulations evolve.
9 (970019)	Ian Knowles Yanni Zeng	Campbell 459-A	December 12, 1997
	Modelling and Partial Differential Equations Knowles: Currently working on 2D models of groundwater systems; the next stage will be to consider 3D modelling of comtaminant flow in aquifers, and this will require the use of the Alabama Supercomputer in Huntsville. The modelling requires the transmission of large numbers of still graphics images. Zeng: Has commitments to continue work with the group at StonyBrook under the direction of James Glimm. This group is also concerned with contaminant flow in groundwater systems. They currently running code on a 128 node Paragon supercomputer. Once again the need is for transmission of large amounts of still graphic images.
8 (970018)	Dr. Edward Taub David Edwards	Spain Rehabilitation Center, R518	December 11, 1997
	Motor Recovery After Stroke Project Cortical reorganization and neuroimaging research. This project is currently in cooperation with the BME department in a cortical reorganization study. A high speed internet connection would enable us to transfer large image data file.
7 (970017)	Gary Spradley Paul Henderson	MCLM 470	December 10, 1997
	Biochemistry Continuous use of file server used to store high definition images, gel samples and dna sequences from the departments of Biochemistry and Cellular Biology.
6 (970016)	Stuart Capper Michael Maetz	Ryals, 3rd floor, (room tbd)	December 9, 1997
	Focused Interventions in Public Health Education This is a three year project funded in 1997 to experiment with innovative and low cost distance learning technologies for public health practice.
5 (970015)	Peter E. Prevelige Jr	Bevill 416	December 9, 1997
	Building a Local Rules Based Kinetic Simulator of Viral Capsid Assembly (submitted as part of the vBNS proposal) This is a collaborative project with Dr. Bonnie Berger at the MIT Lab for Computer Science. We expect the application to be made available to the non profit research community at large through a world wide web based interface
4 (970014)	Shu-Zhen Wang Run-Tao Yan	Eye Foundation Hospital, DB104	December 8, 1997
	Molecular Biology of Retinal Development Large image files need to be transferred to collaborators, or to Photography and Graphics. The current connection is much too slow.
3 (970013)	Joseph G. Harrison	Campbell Hall 308	December 6, 1997
	Computational Simulation and Coil Design for High-Frequency / High-Field Magnetic Resonance Imaging I will be working with Dr. J. T. Vaughan at the Mag. Res. Imaging Center at Mass. General Hospital / Harvard Medical School. He has received funding for equipment and software license through an NIH equipment grant. I will be carrying out computational work that will be greatly facilitated by high-speed connection to computers at that site for production runs and for retrieval of large data sets. The code uses CAD-type programs for model creation which will be carried out via X-windows on a local ultra-Sparc in Rm 308 CH. The slow speed of present T1 connections make such an effort impractical because of the large data flow need for image updates. The computational work which will use the models created will be carried out on platforms local to MGH but some of the results (data sets of gigabyte size) will be retrieved to the UAB site for use in a thermal code licensed for use on the Alabama Cray. Thus high-speed connection is needed to carry out the overall work from modeling to analysis.
2 (970003)	Leo Semes, O.D.	ground floor (clinic) First floor (tbd) and 203	November 25, 1997
	Telemedicine for remote consultation (intrastate) Imaging of the ocular fundus for diabetes screening, for example.
1 (970001)	David L. Shealy	CH 310C	November 18, 1997
	High Performance Network Application in Alabama - NSF vBNS and NSF EPSCoR Cooperative Agreement Testing our high performance network applications; multi-site "parallel-running" of optimization codes; multi-media instructional applications. Participants: Internet2 universities, NSF, AREN, State of Georgia, SURA schools

visitors to UAB Internet2.