ChromoScope: A graphic interactive browser for E. coli data expressed in the NCBI data model

Jinghui Zhang, James Ostell, Kenneth Rudd

Research output: Chapter in Book/Report/Conference proceedingConference contribution

10 Scopus citations

Abstract

An interactive graphic viewer, ChromoScope, was developed to explore scientific visualization of complicated genome data. Escherichia coli was selected as the test organism. An ASN.1 data set has been built for the entire E. coli chromosome, including a genetic map, a physical (ordered restriction) map, the alignment between the two maps, Kohara clones and some short repeat features. The E. coli sequence is modeled as a segmented sequence, incorporating both the sequence and the physical map data. The alignment between the contig and the published sequences is stored as sequence history, allowing direct access to the same sequence in the public databases. The alignment is displayed graphically, with both the sequence alignment and feature annotations. The alignment viewer also supports a detailed text display, providing information to resolution at residue level with annotated features.

Original languageEnglish (US)
Title of host publicationProceedings of the Hawaii International Conference on System Sciences
EditorsJay F. Nunamaker, Ralph H.Jr. Sprague
PublisherPubl by IEEE
Pages58-67
Number of pages10
ISBN (Print)0818650907
StatePublished - 1995
EventProceedings of the 27th Hawaii International Conference on System Sciences (HICSS-27). Part 4 (of 5) - Wailea, HI, USA
Duration: Jan 4 1994Jan 7 1994

Publication series

NameProceedings of the Hawaii International Conference on System Sciences
Volume5
ISSN (Print)1060-3425

Other

OtherProceedings of the 27th Hawaii International Conference on System Sciences (HICSS-27). Part 4 (of 5)
CityWailea, HI, USA
Period1/4/941/7/94

ASJC Scopus subject areas

  • Computer Science(all)

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