Evidence map›Paper›PMID 36083383›Full record

ArticleMarine biotechnology (New York, N.Y.)2022

Single-molecule Real-time (SMRT) Sequencing Facilitates Transcriptome Research and Genome Annotation of the Fish Sillago sinica.

Yuan Zhang, Fangrui Lou, Jianwei Chen, Zhiqiang Han, Tianyan Yang, Tianxiang Gao, Na Song

Abstract read
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In one paragraph

Article in Marine biotechnology (New York, N.Y.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
0.4field-weighted citation impact, top 41% of its field
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

2 citing papers in PubMed, 5 citations in OpenAlex.

  1. Article
  2. 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

7 authors at 3 institutions in 1 country.

Yuan ZhangFishery College, Ocean University of China, Qingdao, 266003, China.
Fangrui LouSchool of Ocean, Yantai University, Yantai, 264005, China.
Jianwei ChenBGI-Qingdao, BGI-Shenzhen, Qingdao, 266555, China.
Zhiqiang HanFishery College, Zhejiang Ocean University, Zhoushan, 316022, China.
Tianyan YangFishery College, Zhejiang Ocean University, Zhoushan, 316022, China.
Tianxiang GaoFishery College, Zhejiang Ocean University, Zhoushan, 316022, China.
Na SongFishery College, Ocean University of China, Qingdao, 266003, China. songna624@163.com.
Zhejiang Ocean University · CNOcean University of China · CNYantai University · CN

Funding

National Natural Science Foundation of China 41976083National Science Foundation of China 32100405
6 · The paper itself

Abstract

As a newly described Sillaginidae species, Chinese sillago (Sillago sinica) needs a better understanding of gene annotation information. In this study, we reported the first full-length transcriptome data of S. sinica using the PacBio isoform sequencing Iso-seq and a description of transcriptome structure analysis. A total of 454,979 high-quality full-length transcripts were obtained by single-molecule real-time (SMRT) sequencing, which was corrected by Illumina sequencing data. After that, 66,948 non-redundant full-length transcripts were generated after mapping to the reference genome of S. sinica, including 49 fusion isoforms and 9,250 novel isoforms. 63,459 isoforms were successfully annotated by one of the Nr, Nt, SwissProt, Pfam, KOG, GO, and KEGG databases. Additionally, 30,987 alternative polyadenylation (APA) sites, 451,867 alternative splicing (AS) events, 21,928 long non-coding RNAs (lncRNAs) and 12,911 transcription factors (TFs) were identified. The full-length transcripts of S. sinica would provide a precious resource for characterizing the transcriptome of S. sinica and for the further study of gene function and regulatory mechanism of this species.

Indexed as

RNA, Long NoncodingTranscriptomeAlternative SplicingAnimalsFishesGene Expression ProfilingGenomeHigh-Throughput Nucleotide SequencingMolecular Sequence AnnotationProtein IsoformsTranscription FactorsProtein IsoformsRNA, Long NoncodingTranscription FactorsFull-length transcriptomeGenome annotationSand whitingSillago sinicaSMRT sequencing

Identifiers

PMID36083383
OpenAlexW4295077696

What OpenQuestion holds

Textmetadata
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.