Prediction of Sphingosine protein-coding regions with a self adaptive spectral rotation method.

Zhongwei Li, Yanan Guan, Xiang Yuan, Pan Zheng, Hu Zhu

Abstract read

In one paragraph

Article in PloS one, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it

0cells of the map it votes in

0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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.

Zhongwei LiCollege of Computer and Communication Engineering, China University of Petroleum, Qingdao, Shandong, China.

Yanan GuanCollege of Computer and Communication Engineering, China University of Petroleum, Qingdao, Shandong, China.

Xiang YuanCollege of Computer and Communication Engineering, China University of Petroleum, Qingdao, Shandong, China.

Pan ZhengDepartment of Accounting and Information Systems, University of Canterbury, Christchurch, New Zealand.

Hu ZhuCollege of Chemistry and Materials, Fujian Normal University, Fuzhou, China.

Funding

CSRD VA I01 CX002152

6 · The paper itself

Abstract

Identifying protein coding regions in DNA sequences by computational methods is an active research topic. Welan gum produced by Sphingomonas sp. WG has great application potential in oil recovery and concrete construction industry. Predicting the coding regions in the Sphingomonas sp. WG genome and addressing the mechanism underlying the explanation for the synthesis of Welan gum metabolism is an important issue at present. In this study, we apply a self adaptive spectral rotation (SASR, for short) method, which is based on the investigation of the Triplet Periodicity property, to predict the coding regions of the whole-genome data of Sphingomonas sp. WG without any previous training process, and 1115 suspected gene fragments are obtained. Suspected gene fragments are subjected to a similarity search against the non-redundant protein sequences (nr) database of NCBI with blastx, and 762 suspected gene fragments have been labeled as genes in the nr database.

Indexed as

Open Reading FramesAlgorithmsConstruction MaterialsDatabases, GeneticDNA, BacterialFermentationGenome, BacterialPolysaccharides, BacterialRotationSphingomonasSphingosineDNA, BacterialPolysaccharides, BacterialSphingosinewelan

Identifiers

PMID30943219

DOI10.1371/journal.pone.0214442

PMCPMC6447165

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.