Evidence map›Paper›PMID 33995493›Full record

ArticleFrontiers in genetics2021

SIns: A Novel Insertion Detection Approach Based on Soft-Clipped Reads.

Chaokun Yan, Junyi He, Junwei Luo, Jianlin Wang, Ge Zhang, Huimin Luo

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PubMed Full text at PMC Publisher
In one paragraph

Article in Frontiers in genetics, 2021. 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

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2 · The registry

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3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

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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.

Chaokun YanSchool of Computer and Information Engineering, Henan University, Kaifeng, China.
Junyi HeSchool of Computer and Information Engineering, Henan University, Kaifeng, China.
Junwei LuoCollege of Computer Science and Technology, Henan Polytechnic University, Jiaozuo, China.
Jianlin WangSchool of Computer and Information Engineering, Henan University, Kaifeng, China.
Ge ZhangSchool of Computer and Information Engineering, Henan University, Kaifeng, China.
Huimin LuoSchool of Computer and Information Engineering, Henan University, Kaifeng, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

As a common type of structural variation, an insertion refers to the addition of a DNA sequence into an individual genome and is usually associated with some inherited diseases. In recent years, many methods have been proposed for detecting insertions. However, the accurate calling of insertions is also a challenging task. In this study, we propose a novel insertion detection approach based on soft-clipped reads, which is called SIns. First, based on the alignments between paired reads and the reference genome, SIns extracts breakpoints from soft-clipped reads and determines insertion locations. The insert size information about paired reads is then further clustered to determine the genotype, and SIns subsequently adopts Minia to assemble the insertion sequences. Experimental results show that SIns can achieve better performance than other methods in terms of the F-score value for simulated and true datasets.

Indexed as

alignmentshort readsoft-clipped readstructural variationthe next generation sequencing technology

Identifiers

PMID33995493
PMCPMC8120196

What OpenQuestion holds

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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.