Evidence map›Paper›PMID 28132389›Full record

ArticleMolecular biotechnology2017

An Improved Method for Identifying Specific DNA-Protein-Binding Sites In Vitro.

Liangyan Wang, Huizhi Lu, Yunguang Wang, Su Yang, Hong Xu, Kaiying Cheng, Ye Zhao, Bing Tian, Yuejin Hua

Abstract read
PubMed Publisher
In one paragraph

Article in Molecular biotechnology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact, top 99% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed, 2 citations in OpenAlex.

  1. Article
  2. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors at 2 institutions in 1 country.

Liangyan WangKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China.
Huizhi LuKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China.
Yunguang WangKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China.
Su YangKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China.
Hong XuKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China.
Kaiying ChengKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China.
Ye ZhaoKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China.
Bing TianKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China. tianbing@zju.edu.cn.
Yuejin HuaKey Laboratory of Chinese Ministry of Agriculture and Zhejiang Province for Nuclear Agricultural Sciences, Institute of Nuclear Agricultural Sciences, Zhejiang University, No. 268, Kaixuan Road, Hangzhou, 310029, Zhejiang, China. yjhua@zju.edu.cn.
Zhejiang University · CNZheJiang Academy of Agricultural Sciences · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Binding of proteins to specific DNA sequences is essential for a variety of cellular processes such as DNA replication, transcription and responses to external stimuli. Chromatin immunoprecipitation is widely used for determining intracellular DNA fragments bound by a specific protein. However, the subsequent specific or accurate DNA-protein-binding sequence is usually determined by DNA footprinting. Here, we report an alternative method for identifying specific sites of DNA-protein-binding (designated SSDP) in vitro. This technique is mainly dependent on antibody-antigen immunity, simple and convenient, while radioactive isotope labeling and optimization of partial degradation by deoxyribonuclease (DNase) are avoided. As an example, the specific binding sequence of a target promoter by DdrO (a DNA damage response protein from Deinococcus radiodurans) in vitro was determined by the developed method. The central sequence of the binding site could be easily located using this technique.

Indexed as

AntibodiesBase SequenceBinding SitesDeinococcusDNADNA-Binding ProteinsFungal ProteinsIn Vitro TechniquesPromoter Regions, GeneticProtein BindingAntibodiesDNADNA-Binding ProteinsFungal ProteinsAntibody-antigen immunityChromatin immunoprecipitationDNA footprintingDNA-protein bindingSpecific DNA-binding site

Identifiers

PMID28132389
OpenAlexW2582709166

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.