Published in Nucleic Acids Res on January 25, 1989
Sequence logos: a new way to display consensus sequences. Nucleic Acids Res (1990) 36.74
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Strong minor groove base conservation in sequence logos implies DNA distortion or base flipping during replication and transcription initiation. Nucleic Acids Res (2001) 3.77
Cyclic amplification and selection of targets (CASTing) for the myogenin consensus binding site. Mol Cell Biol (1991) 3.54
Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay. Nat Biotechnol (2012) 3.52
Using deep sequencing to characterize the biophysical mechanism of a transcriptional regulatory sequence. Proc Natl Acad Sci U S A (2010) 2.32
Anatomy of Escherichia coli sigma70 promoters. Nucleic Acids Res (2006) 2.25
Information analysis of Fis binding sites. Nucleic Acids Res (1997) 1.66
Evolution of biological information. Nucleic Acids Res (2000) 1.37
A reexamination of information theory-based methods for DNA-binding site identification. BMC Bioinformatics (2009) 1.12
Effects of saturation mutagenesis of the phage SP6 promoter on transcription activity, presented by activity logos. Proc Natl Acad Sci U S A (2000) 1.05
T7 promoter contacts essential for promoter activity in vivo. Nucleic Acids Res (1992) 1.05
Information theory based T7-like promoter models: classification of bacteriophages and differential evolution of promoters and their polymerases. Nucleic Acids Res (2005) 0.95
A brief review of molecular information theory. Nano Commun Netw (2010) 0.91
Binding of the bacteriophage T4 regA protein to mRNA targets: an initiator AUG is required. Nucleic Acids Res (1990) 0.90
Critical sequences in the core of the P1 plasmid replication origin. J Bacteriol (1991) 0.89
Specificity of the Mnt protein determined by binding to randomized operators. Proc Natl Acad Sci U S A (1991) 0.88
High information conservation implies that at least three proteins bind independently to F plasmid incD repeats. J Bacteriol (1992) 0.86
Comparative analysis of tandem T7-like promoter containing regions in enterobacterial genomes reveals a novel group of genetic islands. Nucleic Acids Res (2006) 0.85
Analysis of the EIAV Rev-responsive element (RRE) reveals a conserved RNA motif required for high affinity Rev binding in both HIV-1 and EIAV. PLoS One (2008) 0.79
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A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res (1979) 214.95
Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J Mol Biol (1986) 55.34
A bacteriophage T7 RNA polymerase/promoter system for controlled exclusive expression of specific genes. Proc Natl Acad Sci U S A (1985) 46.59
Analysis of gene control signals by DNA fusion and cloning in Escherichia coli. J Mol Biol (1980) 41.18
Supercoil sequencing: a fast and simple method for sequencing plasmid DNA. DNA (1985) 40.01
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Prolonged incubation in calcium chloride improves the competence of Escherichia coli cells. Gene (1979) 25.53
Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates. Nucleic Acids Res (1987) 25.34
Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements. J Mol Biol (1983) 19.98
Cloning and expression of the gene for bacteriophage T7 RNA polymerase. Proc Natl Acad Sci U S A (1984) 13.68
A critical test of a current theory of genetic recombination in bacteriophage. Genetics (1962) 8.12
New RNA polymerase from Escherichia coli infected with bacteriophage T7. Nature (1970) 7.71
Utilization of bacteriophage T7 late promoters in recombinant plasmids during infection. J Mol Biol (1981) 5.66
Plasmid pKC7: a vector containing ten restriction endonuclease sites suitable for cloning DNA segments. Gene (1979) 5.21
A set of synthetic oligodeoxyribonucleotide primers for DNA sequencing in the plasmid vector pBR322. Gene (1981) 5.06
Four T7 RNA polymerase promoters contain an identical 23 bp sequence. Cell (1979) 3.25
Quantitative analysis of the relationship between nucleotide sequence and functional activity. Nucleic Acids Res (1986) 3.02
Computer methods for analyzing sequence recognition of nucleic acids. Annu Rev Biophys Biophys Chem (1988) 2.72
Mutagenesis of the three bases preceding the start codon of the beta-galactosidase mRNA and its effect on translation in Escherichia coli. EMBO J (1984) 1.94
The use of random-sequence oligonucleotides for determining consensus sequences. Methods Enzymol (1987) 1.78
Promoters selected from random DNA sequences. Proc Natl Acad Sci U S A (1986) 1.41
T7 RNA polymerase: promoter structure and polymerase binding. Biochemistry (1979) 1.39
T7 ribonucleic acid polymerase-promotor interactions. Biochemistry (1981) 1.35
Construction of bacteriophage T7 late promoters with point mutations and characterization by in vitro transcription properties. Nucleic Acids Res (1987) 1.31
Mutagenesis with degenerate oligonucleotides: an efficient method for saturating a defined DNA region with base pair substitutions. Methods Enzymol (1987) 1.16
Sequence landscapes. Nucleic Acids Res (1986) 1.10
Bacteriophage T7 late promoters with point mutations: quantitative footprinting and in vivo expression. Nucleic Acids Res (1988) 1.06
Identification of a potential control region in bacteriophage T7 late promoters. Nature (1982) 0.95
Information content of binding sites on nucleotide sequences. J Mol Biol (1986) 30.48
Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. Bioinformatics (1999) 14.36
Characterization of translational initiation sites in E. coli. Nucleic Acids Res (1982) 11.91
Use of the 'Perceptron' algorithm to distinguish translational initiation sites in E. coli. Nucleic Acids Res (1982) 9.99
A design for computer nucleic-acid-sequence storage, retrieval, and manipulation. Nucleic Acids Res (1982) 7.79
Identifying constraints on the higher-order structure of RNA: continued development and application of comparative sequence analysis methods. Nucleic Acids Res (1992) 7.51
Identification of consensus patterns in unaligned DNA sequences known to be functionally related. Comput Appl Biosci (1990) 6.16
Displaying the information contents of structural RNA alignments: the structure logos. Comput Appl Biosci (1997) 5.51
Selection of optimal DNA oligos for gene expression arrays. Bioinformatics (2001) 5.19
Splicing signals in Drosophila: intron size, information content, and consensus sequences. Nucleic Acids Res (1992) 4.93
Consensus patterns in DNA. Methods Enzymol (1990) 4.89
Delila system tools. Nucleic Acids Res (1984) 4.84
Finding the most significant common sequence and structure motifs in a set of RNA sequences. Nucleic Acids Res (1997) 4.04
Information content and free energy in DNA--protein interactions. J Theor Biol (1998) 3.91
ANN-Spec: a method for discovering transcription factor binding sites with improved specificity. Pac Symp Biocomput (2000) 3.66
Sequence requirements of the hammerhead RNA self-cleavage reaction. Biochemistry (1990) 3.64
Non-independence of Mnt repressor-operator interaction determined by a new quantitative multiple fluorescence relative affinity (QuMFRA) assay. Nucleic Acids Res (2001) 3.63
Identification of coding regions in genomic DNA sequences: an application of dynamic programming and neural networks. Nucleic Acids Res (1993) 3.15
Translation initiation in Escherichia coli: sequences within the ribosome-binding site. Mol Microbiol (1992) 3.10
Quantitative analysis of the relationship between nucleotide sequence and functional activity. Nucleic Acids Res (1986) 3.02
MATRIX SEARCH 1.0: a computer program that scans DNA sequences for transcriptional elements using a database of weight matrices. Comput Appl Biosci (1995) 2.83
Modeling regulatory networks with weight matrices. Pac Symp Biocomput (1999) 2.52
lacZ translation initiation mutations. J Mol Biol (1984) 2.51
A comparative genomics approach to prediction of new members of regulons. Genome Res (2001) 2.37
Autogenous regulatory site on the bacteriophage T4 gene 32 messenger RNA. J Mol Biol (1988) 2.32
Identifying target sites for cooperatively binding factors. Bioinformatics (2001) 2.31
Expectation maximization algorithm for identifying protein-binding sites with variable lengths from unaligned DNA fragments. J Mol Biol (1992) 2.29
Discovering common stem-loop motifs in unaligned RNA sequences. Nucleic Acids Res (2001) 2.12
Quantitative specificity of the Mnt repressor. J Mol Biol (1997) 1.91
A consensus sequence for binding of Lrp to DNA. J Bacteriol (1995) 1.88
Identification of protein coding regions in genomic DNA. J Mol Biol (1995) 1.77
An RNA folding method capable of identifying pseudoknots and base triples. Bioinformatics (1998) 1.66
Quantitative analysis of ribosome binding sites in E.coli. Nucleic Acids Res (1994) 1.63
Escherichia coli promoter sequences: analysis and prediction. Methods Enzymol (1996) 1.61
Autoregulation of gene expression. Quantitative evaluation of the expression and function of the bacteriophage T4 gene 32 (single-stranded DNA binding) protein system. J Mol Biol (1982) 1.57
SAMIE: statistical algorithm for modeling interaction energies. Pac Symp Biocomput (2001) 1.17
Phylogenetically enhanced statistical tools for RNA structure prediction. Bioinformatics (2000) 1.14
Automated kinetic assay of beta-galactosidase activity. Biotechniques (1991) 1.10
Sequence landscapes. Nucleic Acids Res (1986) 1.10
High-level translation initiation. Methods Enzymol (1990) 1.04
Analysis of five presumptive protein-coding sequences clustered between the primosome genes, 41 and 61, of bacteriophages T4, T2, and T6. J Virol (1993) 0.96
PromFD 1.0: a computer program that predicts eukaryotic pol II promoters using strings and IMD matrices. Comput Appl Biosci (1997) 0.91
Detection of deletions in the mitochondrial genome of Caenorhabditis elegans. Nucleic Acids Res (1994) 0.91
Identifying muscle regulatory elements and genes in the nematode Caenorhabditis elegans. Pac Symp Biocomput (2002) 0.91
A phylogenetic approach to RNA structure prediction. Proc Int Conf Intell Syst Mol Biol (1999) 0.87
Injury in the era of genomics. Shock (2001) 0.87
Neural networks for determining protein specificity and multiple alignment of binding sites. Proc Int Conf Intell Syst Mol Biol (1994) 0.87
Automated alignment of RNA sequences to pseudoknotted structures. Proc Int Conf Intell Syst Mol Biol (1997) 0.85
Probing information content of DNA-binding sites. Methods Enzymol (1991) 0.85
Graph-theoretic approach to RNA modeling using comparative data. Proc Int Conf Intell Syst Mol Biol (1995) 0.83
Xlandscape: the graphical display of word frequencies in sequences. Bioinformatics (1998) 0.82
Quantitative DNA sequencing to determine the relative protein-DNA binding constants to multiple DNA sequences. Anal Biochem (1994) 0.82
Finding common sequence and structure motifs in a set of RNA sequences. Proc Int Conf Intell Syst Mol Biol (1997) 0.82
Multi-alphabet consensus algorithm for identification of low specificity protein-DNA interactions. Nucleic Acids Res (1995) 0.80
Improved statistical methods reveal direct interactions between 16S and 23S rRNA. Nucleic Acids Res (2000) 0.80
A mini-greedy algorithm for faster structural RNA stem-loop search. Genome Inform (2001) 0.77