Evidence map›Paper›PMID 24850905›Full record

ArticleJournal of the Royal Society, Interface2014

Reinitiation enhances reliable transcriptional responses in eukaryotes.

Bo Liu, Zhanjiang Yuan, Kazuyuki Aihara, Luonan Chen

Open access · bronzeAbstract read
In one paragraph

Article in Journal of the Royal Society, Interface, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.4field-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

3 citing papers in PubMed, 7 citations in OpenAlex.

  1. Article
  2. Article
  3. Big biological data: challenges and opportunities.Genomics, proteomics & bioinformatics · 2014
    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 3 institutions in 2 countries.

Bo LiuFIRST, Aihara Innovative Mathematical Modelling Project, Japan Science and Technology Agency, Tokyo, Japan Institute of Industrial Science, The University of Tokyo, Tokyo, Japan Key Laboratory of Intelligent Perception and Image Understanding of Ministry of Education of China, Xidian University, Xi'an, People's Republic of China.
Zhanjiang YuanFIRST, Aihara Innovative Mathematical Modelling Project, Japan Science and Technology Agency, Tokyo, Japan Institute of Industrial Science, The University of Tokyo, Tokyo, Japan School of Mathematics and Computational Science, Sun Yat-Sen University, Guangzhou, People's Republic of China.
Kazuyuki AiharaFIRST, Aihara Innovative Mathematical Modelling Project, Japan Science and Technology Agency, Tokyo, Japan Institute of Industrial Science, The University of Tokyo, Tokyo, Japan aihara@sat.t.u-tokyo.ac.jp.
Luonan ChenFIRST, Aihara Innovative Mathematical Modelling Project, Japan Science and Technology Agency, Tokyo, Japan Institute of Industrial Science, The University of Tokyo, Tokyo, Japan Key Laboratory of Systems Biology, Chinese Academy of Sciences, Shanghai, People's Republic of China lnchen@sibs.ac.cn.
The University of Tokyo · JPChinese Academy of Sciences · CNXidian University · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Gene transcription is a noisy process carried out by the transcription machinery recruited to the promoter. Noise reduction is a fundamental requirement for reliable transcriptional responses which in turn are crucial for signal transduction. Compared with the relatively simple transcription initiation in prokaryotes, eukaryotic transcription is more complex partially owing to its additional reinitiation mechanism. By theoretical analysis, we showed that reinitiation reduces noise in eukaryotic transcription independent of the transcription level. Besides, a higher reinitiation rate enables a stable scaffold complex an advantage in noise reduction. Finally, we showed that the coupling between scaffold formation and transcription can further reduce transcription noise independent of the transcription level. Furthermore, compared with the reinitiation mechanism, the noise reduction effect of the coupling can be of more significance in the case that the transcription level is low and the intrinsic noise dominates. Our results uncover a mechanistic route which eukaryotes may use to facilitate a more reliable response in the noisy transcription process.

Indexed as

Models, GeneticAnimalsComputer SimulationEukaryotic CellsGene Expression RegulationHumansModels, StatisticalPromoter Regions, GeneticTranscriptional ActivationTranscription FactorsTranscription Initiation, GeneticTranscription Factorseukaryotic transcriptiongene transcriptionnoise analysistranscription reinitiation

Identifiers

PMID24850905
PMCPMC4208363
OpenAlexW2063635112

What OpenQuestion holds

Textmetadata
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.