Name
Title | ||
|---|---|---|
Searching for genomic organizational motifs: Explorations of the Escherichia coli chromosome |
Abstract | ||
|---|---|---|
Understanding the coordinated control of gene expression is a central goal for much of the work in molecular biology. In order to understand how the mechanics of these control systems operate at the genome level, the data for the genetic organization of the model organism in question needs to be accessible. In previous work, we developed an integrated database to support analysis of the Escherichia coli genome. That system provided a pidgin English query facility, rudimentary pattern matching capabilities, and the ability to rapidly extract answers to a wide variety of questions about the organization of the E. coli genome. We have used a parser/grammar approach to identify the chromosomal positions of all of the mapped tRNA genes to be found in the aligned sequence fragments. Also, we have used this integrated data set to explore the global organization of the E. coli chromosome. We have begun to develop regulation classifications based on the arrangements of control features in relation to specific genetic control components. For example, using the individual DNA sequences for 111 known transcriptional promoters as a the starting position for analysis, we have identified the relative positions of potential control sites for 47 different procaryotic transcription factors, sigma factor 70 binding sites, and potential ribosome binding sites that occur within the region −500 to +500 bases upstream or downstream of the anchor position (the first base of the sequence feature). We have defined local descriptions for regulation based on the cross-correlated control features revealed through these analyses. |
Year | DOI | Venue |
|---|---|---|
1993 | 10.1016/0097-8485(93)85012-2 | Computers & Chemistry |
Keywords | Field | DocType |
escherichia coli | Genome,Promoter,Gene,Biology,Nucleic acid sequence,Transfer RNA,DNA sequencing,Bioinformatics,Model organism,Genetics,Sigma factor | Journal |
Volume | Issue | ISSN |
17 | 2 | 0097-8485 |
Citations | PageRank | References |
0 | 0.34 | 1 |
Authors | ||
5 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| George S. Michaels | 1 | 9 | 4.10 |
| Ronald C. Taylor | 2 | 238 | 19.01 |
| Ray Hagstrom | 3 | 91 | 28.88 |
| Morgan Price | 4 | 0 | 0.34 |
| Ross Overbeek | 5 | 62 | 13.28 |