Introduction to the Workshop
URLs Provided by Attendees

Abstracts

Mapping

Informatics

Sequencing

Instrumentation

Ethical, Legal, and Social Issues

Infrastructure

The electronic form of this document may be cited in the following style:
Human Genome Program, U.S. Department of Energy, DOE Human Genome Program Contractor-Grantee Workshop IV, 1994.

Abstracts scanned from text submitted for November 1994 DOE Human Genome Program Contractor-Grantee Workshop. Inaccuracies have not been corrected.

Digiboard - A General Purpose Measurement System Used for FISH Mapping

David J. Ow (owl@llnl.gov), Arthur Kobayashi, Mark C. Wagner, and Tom Slezak
Human Genome Center, L-452, Biology and Biotechnology Research Program, Lawrence Livermore National Laboratory, Livermore, California 94550.

We have developed a software program, called Digiboard, which is being used for measurement and ordering in Fluorescence in situ Hybridization (FISH) mapping efforts supporting LLNL's chromosome 19 project. This data has provided the backbone of the physical map by providing both order and distance (see posters by L. Ashworth, et. al., B. Brandriff, et. al., and M. Wagner, et. al. for details).

Slide images are projected onto a 3' by 4' digitizing tablet. The system is calibrated, and then distance measurements from the projected image are collected by selecting end points or by tracing segments using a hand cursor with crosshairs. The measurements are transferred from the tablet to the computer via a serial interface. Sets of measurements, in a user-defined format, can be generated and stored for each experiment. The data sets are organized in a hierarchical manner, and measurement information may be exported to data files for hardcopy output or for post processing by other programs running locally or remotely over the network.

This program is written in C and runs under the X Window system on a Sun Sparc workstation using a Motif based interface. The user interface portion was created using a commercial Graphical User Interface (GUI) builder. By design, the program can be modified to accept measurements or data from other types of input devices. This system was built to solve immediate needs for data measurement until an adequate multi-color digital image processing system can be completed to handle all the demanding requirements of our FISH work.

This work was performed under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory contract no. W-7405-ENG-48.