Evidence map›Paper›PMID 32714656›Full record

ArticlePeerJ2020

pulseTD: RNA life cycle dynamics analysis based on pulse model of 4sU-seq time course sequencing data.

Xin Wang, Siyu He, Jian Li, Jun Wang, Chengyi Wang, Mingwei Wang, Danni He, Xingfeng Lv, Qiuyan Zhong, Hongjiu Wang and 1 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in PeerJ, 2020. 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

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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

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4 · The record

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5 · Who and what money

Authors and funding

11 authors.

Xin Wang *College of Bioinformatics Science and Technology, Harbin Medical University, Heilongjiang, China.
Siyu He *College of Bioinformatics Science and Technology, Harbin Medical University, Heilongjiang, China.
Jian LiCollege of Bioinformatics Science and Technology, Harbin Medical University, Heilongjiang, China.
Jun WangCollege of Bioinformatics Science and Technology, Harbin Medical University, Heilongjiang, China.
Chengyi WangCollege of Bioinformatics Science and Technology, Harbin Medical University, Heilongjiang, China.
Mingwei WangCollege of Bioinformatics Science and Technology, Harbin Medical University, Heilongjiang, China.
Danni HeCollege of Bioinformatics Science and Technology, Harbin Medical University, Heilongjiang, China.
Xingfeng LvCollege of Computer Science and Technology, Heilongjiang University, Harbin, China.
Qiuyan ZhongDalian University of Technology, Dalian, China.
Hongjiu WangKey Laboratory of Tropical Translational Medicine of Ministry of Education, Hainan Medical University, Haikou, China.
Zhenzhen WangKey Laboratory of Tropical Translational Medicine of Ministry of Education, Hainan Medical University, Haikou, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The life cycle of intracellular RNA mainly involves transcriptional production, splicing maturation and degradation processes. Their dynamic changes are termed as RNA life cycle dynamics (RLCD). It is still challenging for the accurate and robust identification of RLCD under unknow the functional form of RLCD. By using the pulse model, we developed an R package named pulseTD to identify RLCD by integrating 4sU-seq and RNA-seq data, and it provides flexible functions to capture continuous changes in RCLD rates. More importantly, it also can predict the trend of RNA transcription and expression changes in future time points. The pulseTD shows better accuracy and robustness than some other methods, and it is available on the GitHub repository (https://github.com/bioWzz/pulseTD_0.2.0).

Indexed as

4sU-seqPulse modelRNA life cycle dynamicsRNA-seq

Identifiers

PMID32714656
PMCPMC7353919

What OpenQuestion holds

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LicenceCC BY
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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.