Evidence map›Paper›PMID 36340189›Full record

ArticlePeerJ2022

A Python script to design primers for overlap extension PCR to ligate two DNA fragments.

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

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in PeerJ, 2022. 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

5 authors.

Yunzhuo Hu *Fujian Agriculture and Forestry University, Key Laboratory of Crop Biotechnology, Fuzhou, Fujian, China.
Fei Xu *Fujian Agriculture and Forestry University, College of Life Science, Fuzhou, Fujian, China.
Bifang HuangFujian Agriculture and Forestry University, College of Life Science, Fuzhou, Fujian, China.
Xuanyang ChenFujian Agriculture and Forestry University, Key Laboratory of Crop Biotechnology, Fuzhou, Fujian, China.
Shiqiang LinFujian Agriculture and Forestry University, Key Laboratory of Crop Biotechnology, Fuzhou, Fujian, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Ligating two or more DNA fragments is a regular operation for the subcloning and the engineering of vectors. The overlap extension PCR serves as a straightforward method to solve this issue. However, it takes a relatively long time to design the appropriate overlapping primers and the primers for the full-length sequence, and there has not been a professional offline software for such kind of primer design. Here, we propose a Python script to search, calculate and sort thousands of combinations of primers for users according to the predefined parameters. The results of script running and experimental validation show that this script is capable of generating the optimal pairs of primers based on the proper melting temperatures and lengths of the primers, which facilitates gene modification in research.

Indexed as

DNASoftwareDNA PrimersPolymerase Chain ReactionSequence Analysis, DNADNADNA PrimersDNA joiningOverlap extension PCRPrimer designPython script

Identifiers

PMID36340189
PMCPMC9632469

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.