Evidence map›Paper›PMID 31284644›Full record

ArticleInternational journal of molecular sciences2019

Identification and Characterization of Preferred DNA-Binding Sites for the

James Shell Cox, Kristi Moncja, Mykala Mckinnes, Michael W Van Dyke

Open access · goldAbstract read
In one paragraph

Article in International journal of molecular sciences, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.5field-weighted citation impact, top 36% 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

4 citing papers in PubMed, 7 citations in OpenAlex.

  1. Article
  2. Discovering the DNA-Binding Consensus of theInternational journal of molecular sciences · 2021
    Article
  3. Determination and Dissection of DNA-Binding Specificity for theInternational journal of molecular sciences · 2020
    Article
  4. Article
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

4 authors at 1 institution in 1 country.

James Shell CoxDepartment of Chemistry and Biochemistry, Kennesaw State University, Kennesaw, GA 30144, USA.
Kristi MoncjaDepartment of Chemistry and Biochemistry, Kennesaw State University, Kennesaw, GA 30144, USA.
Mykala MckinnesDepartment of Chemistry and Biochemistry, Kennesaw State University, Kennesaw, GA 30144, USA.
Michael W Van DykeDepartment of Chemistry and Biochemistry, Kennesaw State University, Kennesaw, GA 30144, USA. mvandyk2@kennesaw.edu.ORCID 0000-0003-0306-4002
Kennesaw State University · US

Funding

DNA-Binding Protein Discovery by the Combinatorial Method REPSAR15GM104833 · NIGMS · KENNESAW STATE UNIVERSITY · PI VAN DYKE, MICHAEL W · 2013 to 2013
$270k
Kennesaw State University Foundation Fellow in BiochemistryNational Science Foundation 1624654National Science Foundation 1714778NIGMS NIH HHS R15 GM104833NIH HHS 1R15GM104833-01
6 · The paper itself

Abstract

Advances in genomic sequencing have allowed the identification of a multitude of genes encoding putative transcriptional regulatory proteins. Lacking, often, is a fuller understanding of the biological roles played by these proteins, the genes they regulate or regulon. Conventionally this is achieved through a genetic approach involving putative transcription factor gene manipulation and observations of changes in an organism's transcriptome. However, such an approach is not always feasible or can yield misleading findings. Here, we describe a biochemistry-centric approach, involving identification of preferred DNA-binding sequences for the

Indexed as

Bacterial ProteinsBase SequenceBinding SitesConsensus SequenceDNADNA Restriction EnzymesGene Expression Regulation, BacterialGenome, BacterialInterferometryPromoter Regions, GeneticReproducibility of ResultsThermus thermophilusTranscription FactorsBacterial ProteinsDNADNA Restriction EnzymesTranscription Factorsbioinformaticsbiolayer interferometry (BLI)electrophoretic mobility shift assay (EMSA)extremophiletype IIS restriction endonuclease

Identifiers

PMID31284644
PMCPMC6651687
OpenAlexW2953865796

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.