Evidence map›Paper›PMID 39076781›Full record

ArticlePeerJ2024

Gene synthesis design: a pythonic approach.

Yunzhuo Hu, Danni Pan, Fei Xu, Bifang Huang, Xuanyang Chen, Shiqiang Lin

Abstract read
In one paragraph

Article in PeerJ, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

6 authors.

Yunzhuo HuAgricultural Product Quality Institute, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.
Danni PanAgricultural Product Quality Institute, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.
Fei XuAgricultural Product Quality Institute, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.
Bifang HuangCollege of Life Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.
Xuanyang ChenAgricultural Product Quality Institute, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.
Shiqiang LinAgricultural Product Quality Institute, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.

Funding

Spark Project of the Fujian Provincial Department of Science and Technology
6 · The paper itself

Abstract

Researchers often need to synthesize genes of interest in this era of synthetic biology. Gene synthesis by PCR assembly of multiple DNA fragments is a quick and economical method that is widely applied. Up to now, there have been a few software solutions for designing fragments in gene synthesis. However, some of these software solutions use programming languages that are not popular now, other software products are commercial or require users to visit servers. In this study, we propose a Python program to design DNA fragments for gene synthesis. The algorithm is designed to meet the experimental needs. Also, the source code with detailed annotation is freely available for all users. Furthermore, the feasibility of the algorithm and the program is validated by experiments. Our program can be useful for the design of gene synthesis in the labs and help the study of gene structure and function.

Indexed as

AlgorithmsSoftwareSynthetic BiologyDNAGenes, SyntheticPolymerase Chain ReactionProgramming LanguagesDNADNA fragmentGene synthesisPCRPython

Identifiers

PMID39076781
PMCPMC11285356

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.