Defining the sequence specificity of DNA-binding proteins by selecting binding sites from random-sequence oligonucleotides: analysis of yeast GCN4 protein

No abstract is available for this paper.

• Publication year

  1989

• Venue

  Molecular and Cellular Biology

• Publication date

  1989-07-01

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1128/mcb.9.7.2944-2949.1989PMID 2674675PMCID PMC362762
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase.

  1988cited by this paper
• The leucine zipper: a hypothetical structure common to a new class of DNA binding proteins.

  1988cited by this paper
• In situ detection of sequence-specific DNA binding activity specified by a recombinant bacteriophage.

  1988cited by this paper
• Defining the consensus sequences of E.coli promoter elements by random selection.

  1988cited by this paper
• DNA twisting and the affinity of bacteriophage 434 operator for bacteriophage 434 repressor.

  1988cited by this paper
• Molecular cloning of an enhancer binding protein: isolation by screening of an expression library with a recognition site DNA.

  1988cited by this paper
• GCN4, a eukaryotic transcriptional activator protein, binds as a dimer to target DNA.

  1987cited by this paper
• The use of random-sequence oligonucleotides for determining consensus sequences.

  1987cited by this paper
• Many random sequences functionally replace the secretion signal sequence of yeast invertase.

  1987cited by this paper
• A new class of yeast transcriptional activators.

  1987cited by this paper
• Site-specific DNA binding of nuclear factor I: effect of the spacer region.

  1987cited by this paper
• Homology between the DNA-binding domain of the GCN4 regulatory protein of yeast and the carboxyl-terminal region of a protein coded for by the oncogene jun.

  1987cited by this paper
• The DNA-binding domains of the jun oncoprotein and the yeast GCN4 transcriptional activator protein are functionally homologous.

  1987cited by this paper
• Functional dissection of a eukaryotic transcriptional activator protein, GCN4 of yeast.

  1986cited by this paper
• Saturation mutagenesis of the yeast his3 regulatory site: requirements for transcriptional induction and for binding by GCN4 activator protein.

  1986cited by this paper
• GCN4 protein, a positive transcription factor in yeast, binds general control promoters at all 5' TGACTC 3' sequences.

  1986cited by this paper
• Cloning of random-sequence oligodeoxynucleotides.

  1986cited by this paper
• Affinity purification of sequence-specific DNA binding proteins.

  1986cited by this paper
• Isolation of three proteins that bind to mammalian RNA polymerase II.

  1985cited by this paper
• GCN4 protein, synthesize in vitro, binds HIS3 regulatory sequences: Implications for general control of amino acid biosynthetic genes in yeast

  1985cited by this paper
• A repressor (MAT alpha 2 Product) and its operator control expression of a set of cell type specific genes in yeast.

  1985cited by this paper
• Construction and properties of plasmid pKC30, a pBR322 derivative containing the pL-N region of phage lambda.

  1984cited by this paper
• The use of pKc30 and its derivatives for controlled expression of genes.

  1983cited by this paper
• A gel electrophoresis method for quantifying the binding of proteins to specific DNA regions: application to components of the Escherichia coli lactose operon regulatory system

  1981cited by this paper
• Equilibria and kinetics of lac repressor-operator interactions by polyacrylamide gel electrophoresis.

  1981cited by this paper
• Cloning in single-stranded bacteriophage as an aid to rapid DNA sequencing.

  1980cited by this paper

• A dual reporter system for intracellular and extracellular amino acid sensing in budding yeast.

  2025cites this paper
• Yeast molecular genetic tricks to study gene regulation.

  2025cites this paper
• Surface Functionalization of Nanocarriers with Anti-EGFR Ligands for Cancer Active Targeting

  2025cites this paper
• Analysis of the DNA‐binding properties of TGF‐β‐activated Smad complexes unveils a possible molecular basis for cellular context‐dependent signaling

  2024cites this paper
• A new method for the reproducible development of aptamers (Neomers)

  2023cites this paper
• Using Restriction Endonuclease, Protection, Selection, and Amplification to Identify Preferred DNA-Binding Sequences of Microbial Transcription Factors

  2023cites this paper
• JEDII: Juxtaposition Enabled DNA-binding Interface Identifier

  2022cites this paper
• On-chip selection of adenosine aptamer using graphene oxide-coated magnetic nanoparticles.

  2022cites this paper
• A systematic genome-wide account of binding sites for the model transcription factor Gcn4

  2021cites this paper
• Discovering unknown human and mouse transcription factor binding sites and their characteristics from ChIP-seq data

  2021influential citation
• SELEX: Critical factors and optimization strategies for successful aptamer selection

  2021cites this paper
• Screening aptamers targeting the cell membranes of clinical cancer tissues on an integrated microfluidic system

  2021cites this paper
• RNA beacons for detecting the human testis-determining factor

  2021cites this paper
• Speeding drug discovery targeting RNAs: An iterative "RNA selection-compounds screening cycle" for exploring RNA-small molecule pairs.

  2021cites this paper
• Persistence and plasticity in bacterial gene regulation

  2021cites this paper
• Aptamers for Molecular Imaging

  2021cites this paper
• Deciphering eukaryotic gene-regulatory logic with 100 million random promoters

  2020cites this paper
• PCR incorporation of dUMPs modified with aromatic hydrocarbon substituents of different hydrophilicities: Synthesis of C5-modified dUTPs and PCR studies using Taq, Tth, Vent (exo-) and Deep Vent (exo-) polymerases.

  2020cites this paper
• Predicting Future Prospects of Aptamers in Field-Effect Transistor Biosensors

  2020cites this paper
• Occupancy maps of 208 chromatin-associated proteins in one human cell type

  2020cites this paper
• Ultra-high-throughput analysis of functional biomolecules using in vitro selection and bioinformatics

  2020cites this paper
• Combinatorial Discovery and Validation of Heptapeptides with UTP Binding Induced Structure

  2020cites this paper
• Oxidative Stress Responses and Nutrient Starvation in MCHM Treated Saccharomyces cerevisiae

  2020cites this paper
• The Optimization of a Lateral Flow Immunoassay for Detection of Aflatoxin B1 in Potable Water Samples

  2019cites this paper
• TFregulomeR reveals transcription factors’ context-specific features and functions

  2019cites this paper
• A comparative analysis of Smad-responsive motifs identifies multiple regulatory inputs for TGF-β transcriptional activation

  2019cites this paper
• Comprehensive investigation of the gene expression system regulated by an Aspergillus oryzae transcription factor XlnR using integrated mining of gSELEX-Seq and microarray data

  2019cites this paper
• Modeling and learning monomeric and dimeric transcription factor binding motifs

  2019cites this paper
• DNA aptamers for the recognition of HMGB1 from Plasmodium falciparum

  2019cites this paper
• Deciphering eukaryotic gene-regulatory logic with 100 million random promoters

  2019cites this paper
• Unbiased Discovery of Dynamic Peptide‐ATP Complexes

  2019cites this paper
• Exploration d’acides ribonucléiques catalytiques et implémentation d’une fonction essentielle dans Escherichia coli

  2019cites this paper
• Rapid and easy method for in vitro determination of transcription factor binding core motifs

  2019cites this paper
• Gel Mobility Shift Assay

  2019cites this paper
• Noise-precision tradeoff in predicting combinations of mutations and drugs

  2019cites this paper
• Occupancy patterns of 208 DNA-associated proteins in a single human cell type

  2018cites this paper
• The Human Transcription Factors.

  2018cites this paper
• Nano-Aptasensor: Strategies and Categorizing

  2018cites this paper
• A nitrocellulose membrane-based integrated microfluidic system for bacterial detection utilizing magnetic-composite membrane microdevices and bacteria-specific aptamers.

  2018cites this paper
• Integrating Rio1 activities discloses its nutrient-activated network in Saccharomyces cerevisiae

  2018cites this paper
• Aptamers Selected for Recognizing Amyloid β-Protein—A Case for Cautious Optimism

  2018cites this paper
• 1 Aptamers Selected for Recognizing Amyloid 2 β-protein — A Case for Cautious Optimism 3

  2018cites this paper
• Profiling DNA–transcription factor interactions

  2018cites this paper
• PRODORIC2: the bacterial gene regulation database in 2018

  2017cites this paper
• A Network of Networks to Reproduce the Electrical Features of an Aptamer-ligand Complex - What an Electrical Network Tells about Affinity

  2017cites this paper
• Deciphering eukaryotic cis-regulatory logic with 100 million random promoters

  2017cites this paper
• SELEX-Seq: A Method to Determine DNA Binding Specificities of Plant Transcription Factors.

  2017cites this paper
• Sequence-Function Models of Regulatory RNA in E. Coli

  2017cites this paper
• Seed-driven Learning of Position Probability Matrices from Large Sequence Sets

  2017cites this paper
• Novel Kinetic Solution-Based Separation Approaches for Small Molecule Drug Discovery

  2017cites this paper
• Synthesis of Naphthyridine Dimers with Conformational Restriction and Binding to DNA and RNA.

  2017cites this paper
• Bioanalytical Application of Peroxidase-Mimicking DNAzymes: Status and Challenges.

  2017cites this paper
• Methods to Study Transcription Factor Structure and Function

  2016cites this paper
• Integrating Gene Synthesis and MITOMI for Rapid Protein Engineering

  2016cites this paper
• Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica

  2016cites this paper
• A Robust Analytical Pipeline for Genome-Wide Identification of the Genes Regulated by a Transcription Factor: Combinatorial Analysis Performed Using gSELEX-Seq and RNA-Seq

  2016cites this paper
• Systematic Determination of Transcription Factor DNA-Binding Specificities in Yeast.

  2016cites this paper
• Constructive Approaches for Understanding the Origin of Self-Replication and Evolution

  2016cites this paper
• Super-resolution light microscopy studies of the organisation and architecture of the hepatitis C virus RNA replication complex

  2016cites this paper
• Characterization of RNA-Protein Interactions: Lessons from Two RNA-Binding Proteins, SRSF1 and SRSF2.

  2016cites this paper
• Dry and wet approaches for genome-wide functional annotation of conventional and unconventional transcriptional activators

  2016cites this paper
• A fast protocol for purification of translating mRNAs.

  2016cites this paper
• Modeling Nuclease Digestion Data to Predict the Dynamics of Genome-wide Transcription Factor Occupancy

  2016cites this paper
• Analysis of Genomic Sequence Motifs for Deciphering Transcription Factor Binding and Transcriptional Regulation in Eukaryotic Cells

  2016cites this paper
• High-quality, high-throughput measurement of protein-DNA binding using HiTS-FLIP

  2016cites this paper
• readat: An R package for reading and working with SomaLogic ADAT files

  2016cites this paper
• To Be Specific or Not: The Critical Relationship Between Hox And TALE Proteins.

  2016cites this paper
• Identification of Position-Specific Correlations between DNA-Binding Domains and Their Binding Sites. Application to the MerR Family of Transcription Factors

  2016cites this paper
• Prediction of protein-DNA complex mobility in gel-free capillary electrophoresis.

  2015cites this paper
• The rice transcription factor OsWRKY47 is a positive regulator of the response to water deficit stress

  2015cites this paper
• Carbon nanotube field effect transistor aptasensors for estrogen detection in liquids

  2015cites this paper
• Identification of Nucleic Acid High Affinity Binding Sequences of Proteins by SELEX.

  2015cites this paper
• Discriminative Learning for Probabilistic Sequence Analysis

  2015cites this paper
• Landscape-Based Biology

  2015cites this paper
• Evolution of transcription factor function as a mechanism for changing metazoan developmental gene regulatory networks

  2015cites this paper
• Learning Quantitative Sequence–Function Relationships from Massively Parallel Experiments

  2015cites this paper
• Unraveling determinants of transcription factor binding outside the core binding site

  2015influential citation
• A novel method to identify the DNA motifs recognized by a defined transcription factor

  2014cites this paper
• Tracking Transcription Factors on the Genome by their DNase-seq Footprints

  2014cites this paper
• Cancer nanotechnology: the impact of passive and active targeting in the era of modern cancer biology.

  2014cites this paper
• Structure-Based Prediction of Transcription Factor Binding Sites

  2014cites this paper
• Identification of Synchronized Role of Transcription Factors, Genes, and Enzymes in Arabidopsis thaliana under Four Abiotic Stress Responsive Pathways

  2014cites this paper
• Fluid Patterning in a Cavity Array for High-Throughput Screening and Biotechnological Applications

  2014cites this paper
• Determining the specificities of TALENs, Cas9, and other genome-editing enzymes.

  2014cites this paper
• New Technologies Provide Quantum Changes in the Scale, Speed, and Success of SELEX Methods and Aptamer Characterization

  2014cites this paper
• Deciphering regulation in eukaryotic cell: from sequence to function

  2014cites this paper
• Structural Plasticity in the Recognition of ssDNA by the Telomeric Protein Pot1

  2014cites this paper
• bZIPs and WRKYs: two large transcription factor families executing two different functional strategies

  2014cites this paper
• The Cpc1 regulator of the cross-pathway control of amino acid biosynthesis is required for pathogenicity of the vascular pathogen Verticillium longisporum.

  2013cites this paper
• An Improved SELEX-Seq Strategy for Characterizing DNA-Binding Specificity of Transcription Factor: NF-κB as an Example

  2013cites this paper
• TherMos: Estimating protein–DNA binding energies from in vivo binding profiles

  2013cites this paper
• Gene Regulatory Networks

  2013cites this paper
• Mutual Cross Talk between the Regulators Hac1 of the Unfolded Protein Response and Gcn4 of the General Amino Acid Control of Saccharomyces cerevisiae

  2013cites this paper
• Synergistic effects of TOR and proteasome pathways on the yeast transcriptome and cell growth

  2013cites this paper
• An ultra pH-sensitive and aptamer-equipped nanoscale drug-delivery system for selective killing of tumor cells.

  2013cites this paper
• Inferring transcriptional regulation on the promoter level and its applications to diseases

  2013cites this paper
• Statistical Analysis of PAR-CLIP data

  2013cites this paper
• Combination of native and denaturing PAGE for the detection of protein binding regions in long fragments of genomic DNA.

  2013cites this paper
• DNA-binding specificities of human transcription factors.

  2013influential citation
• On the Immortality of Television Sets: “Function” in the Human Genome According to the Evolution-Free Gospel of ENCODE

  2013cites this paper