Evidence map›Paper›PMID 25627341›Full record

ArticleScientific reports2015

SynBioLGDB: a resource for experimentally validated logic gates in synthetic biology.

Liqiang Wang, Kun Qian, Yan Huang, Nana Jin, Hongyan Lai, Ting Zhang, Chunhua Li, Chunrui Zhang, Xiaoman Bi, Deng Wu and 8 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
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

5 citing papers in PubMed.

  1. Bioluminescence-Driven Optogenetics.Life (Basel, Switzerland) · 2020
    Review
  2. Article
  3. Synthetic Biology and the Gut Microbiome.Biotechnology journal · 2018
    Review
  4. Article
  5. Survey of Natural Language Processing Techniques in Bioinformatics.Computational and mathematical methods in medicine · 2015
    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

18 authors.

Liqiang WangCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Kun QianCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Yan HuangCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Nana JinCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Hongyan LaiCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Ting ZhangCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Chunhua LiCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Chunrui ZhangCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Xiaoman BiCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Deng WuCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Changliang WangCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Hao WuCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Puwen TanCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Jianping LuCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Liqun ChenCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Kongning LiCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Xia LiCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Dong WangCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Synthetic biologists have developed DNA/molecular modules that perform genetic logic operations in living cells to track key moments in a cell's life or change the fate of a cell. Increasing evidence has also revealed that diverse genetic logic gates capable of generating a Boolean function play critically important roles in synthetic biology. Basic genetic logic gates have been designed to combine biological science with digital logic. SynBioLGDB (http://bioinformatics.ac.cn/synbiolgdb/) aims to provide the synthetic biology community with a useful resource for efficient browsing and visualization of genetic logic gates. The current version of SynBioLGDB documents more than 189 genetic logic gates with experimental evidence involving 80 AND gates and 16 NOR gates, etc. in three species (Human, Escherichia coli and Bacillus clausii). SynBioLGDB provides a user-friendly interface through which conveniently to query and browse detailed information about these genetic logic gates. SynBioLGDB will enable more comprehensive understanding of the connection of genetic logic gates to execute complex cellular functions in living cells.

Indexed as

Databases, GeneticSoftwareGenomicsHumansInternetSynthetic Biology

Identifiers

PMID25627341
PMCPMC4308699

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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.