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Literature DB >> 2159142

Method to identify genomic targets of DNA binding proteins.

Abstract

We have devised a cyclical immunoprecipitation protocol that can be used to identify and clone a specific DNA sequence that is recognized by a DNA binding protein, even if that sequence is present in only one copy in the genome of a mammal. As an example, we have used this procedure to purify mouse genomic sequences to which the simian virus 40 tumor (T) antigen binds.

Entities: Disease Gene Species

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Year: 1990 PMID： 2159142 PMCID： PMC53882 DOI： 10.1073/pnas.87.9.3274

Source DB: PubMed Journal: Proc Natl Acad Sci U S A ISSN： 0027-8424 Impact factor: 11.205

19 in total

1. Cellular targets for SV40 large T-antigen.

Authors: D P Lane; V Simanis; R Bartsch; J Yewdell; J Gannon; S Mole
Journal: Proc R Soc Lond B Biol Sci Date: 1985-10-22

2. A new sensitive target-bound DNA binding assay for SV40 large T antigen.

Authors: M Hinzpeter; E Fanning; W Deppert
Journal: Virology Date: 1986-01-15 Impact factor: 3.616

3. Characteristics of a human cell line transformed by DNA from human adenovirus type 5.

Authors: F L Graham; J Smiley; W C Russell; R Nairn
Journal: J Gen Virol Date: 1977-07 Impact factor: 3.891

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

Authors: A R Oliphant; C J Brandl; K Struhl
Journal: Mol Cell Biol Date: 1989-07 Impact factor: 4.272

5. Establishment and characterization of a cloned line of C3H mouse embryo cells sensitive to postconfluence inhibition of division.

Authors: C A Reznikoff; D W Brankow; C Heidelberger
Journal: Cancer Res Date: 1973-12 Impact factor: 12.701

6. Monoclonal antibodies specific for simian virus 40 tumor antigens.

Authors: E Harlow; L V Crawford; D C Pim; N M Williamson
Journal: J Virol Date: 1981-09 Impact factor: 5.103

7. Binding of a simian virus 40 T antigen-related protein to DNA.

Authors: R D McKay
Journal: J Mol Biol Date: 1981-01-25 Impact factor: 5.469

8. Sequence-specific binding of simian virus 40 A protein to nonorigin and cellular DNA.

Authors: P J Wright; A L DeLucia; P Tegtmeyer
Journal: Mol Cell Biol Date: 1984-12 Impact factor: 4.272

9. Construction and analysis of simian virus 40 origins defective in tumor antigen binding and DNA replication.

Authors: R M Myers; R Tjian
Journal: Proc Natl Acad Sci U S A Date: 1980-11 Impact factor: 11.205

10. Studies on transformation of Escherichia coli with plasmids.

Authors: D Hanahan
Journal: J Mol Biol Date: 1983-06-05 Impact factor: 5.469

15 in total

Review 1. Explant organ culture: a review.

Authors: J H Resau; K Sakamoto; J R Cottrell; E A Hudson; S J Meltzer
Journal: Cytotechnology Date: 1991-11 Impact factor: 2.058

2. A sensitive method for the determination of protein-DNA binding specificities.

Authors: R Pollock; R Treisman
Journal: Nucleic Acids Res Date: 1990-11-11 Impact factor: 16.971

3. Only two of the five zinc fingers of the eukaryotic transcriptional repressor PRDI-BF1 are required for sequence-specific DNA binding.

Authors: A D Keller; T Maniatis
Journal: Mol Cell Biol Date: 1992-05 Impact factor: 4.272

4. A transcriptionally active DNA-binding site for human p53 protein complexes.

Authors: W D Funk; D T Pak; R H Karas; W E Wright; J W Shay
Journal: Mol Cell Biol Date: 1992-06 Impact factor: 4.272

5. Cyclic amplification and selection of targets (CASTing) for the myogenin consensus binding site.

Authors: W E Wright; M Binder; W Funk
Journal: Mol Cell Biol Date: 1991-08 Impact factor: 4.272

6. Isolation of estrogen receptor-binding sites in human genomic DNA.

Authors: S Inoue; S Kondo; M Hashimoto; T Kondo; M Muramatsu
Journal: Nucleic Acids Res Date: 1991-08-11 Impact factor: 16.971

7. Selection of sequences recognized by a DNA binding protein using a preparative southwestern blot.

Authors: A D Keller; T Maniatis
Journal: Nucleic Acids Res Date: 1991-09-11 Impact factor: 16.971

8. Isolation of high affinity cellular targets of the embryonal LTR binding protein, an undifferentiated embryonal carcinoma cell-specific repressor of Moloney leukemia virus.

Authors: T Tsukiyama; O Niwa
Journal: Nucleic Acids Res Date: 1992-04-11 Impact factor: 16.971

9. Libraries for genomic SELEX.

Authors: B S Singer; T Shtatland; D Brown; L Gold
Journal: Nucleic Acids Res Date: 1997-02-15 Impact factor: 16.971

10. Identification of C. elegans DAF-12-binding sites, response elements, and target genes.

Authors: Yuriy Shostak; Marc R Van Gilst; Adam Antebi; Keith R Yamamoto
Journal: Genes Dev Date: 2004-10-15 Impact factor: 11.361