DNA binding sites: representation and discovery

GD Stormo - Bioinformatics, 2000 - academic.oup.com
The purpose of this article is to provide a brief history of the development and application of
computer algorithms for the analysis and prediction of DNA binding sites. This problem can …

Bacteriophage T4 genome

ES Miller, E Kutter, G Mosig, F Arisaka… - Microbiology and …, 2003 - Am Soc Microbiol
Phage T4 has provided countless contributions to the paradigms of genetics and
biochemistry. Its complete genome sequence of 168,903 bp encodes about 300 gene …

Nucleotide sequence of the iap gene, responsible for alkaline phosphatase isozyme conversion in Escherichia coli, and identification of the gene product

Y Ishino, H Shinagawa, K Makino… - Journal of …, 1987 - Am Soc Microbiol
The iap gene in Escherichia coli is responsible for the isozyme conversion of alkaline
phosphatase. We analyzed the 1,664-nucleotide sequence of a chromosomal DNA segment …

Sequence logos: a new way to display consensus sequences

TD Schneider, RM Stephens - Nucleic acids research, 1990 - academic.oup.com
A graphical method is presented for displaying the patterns in a set of aligned sequences.
The characters representing the sequence are stacked on top of each other for each position …

Directed evolution of novel binding proteins

RC Ladner, SK Guterman, BL Roberts… - US Patent …, 1993 - Google Patents
In order to obtain a novel binding protein against a chosen target, DNA molecules, each
encoding a protein comprising one of a family of similar potential binding domains and a …

Modular optimization of multi-gene pathways for fatty acids production in E. coli

P Xu, Q Gu, W Wang, L Wong, AGW Bower… - Nature …, 2013 - nature.com
Microbial fatty acid-derived fuels have emerged as promising alternatives to petroleum-
based transportation fuels. Here we report a modular engineering approach that …

Directed evolution of novel binding proteins

RC Ladner, SK Guterman, BL Roberts… - US Patent …, 1996 - Google Patents
In order to obtain a novel binding protein against a chosen target, DNA molecules, each
encoding a protein comprising one of a family of similar potential binding domains and a …

Use of the 'Perceptron' algorithm to distinguish translational initiation sites in E. coli

GD Stormo, TD Schneider, L Gold… - Nucleic acids …, 1982 - academic.oup.com
We have used a “Perceptron” algorithm to find a weighting function which distinguishes E.
coli translational initiation sites from all other sites in a library of over 78,000 nucleotides of …

A division inhibitor and a topological specificity factor coded for by the minicell locus determine proper placement of the division septum in E. coli

PAJ De Boer, RE Crossley, LI Rothfield - Cell, 1989 - cell.com
The E. coli minicell locus (min6) was shown to code for three gene products (MinC, MinD,
and MinE) whose coordinate action is required for proper placement of the division spetum …

Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements

JJ Dunn, FW Studier, M Gottesman - Journal of molecular biology, 1983 - Elsevier
The complete nucleotide sequence of bacteriophage T7 DNA, 39,936 base-pairs, has been
determined by the techniques of Maxam & Gilbert. All previously known T7 genes and …