Evidence map›Paper›PMID 34986865›Full record

ArticleCancer cell international2022

Switched alternative splicing events as attractive features in lung squamous cell carcinoma.

Boxue He, Cong Wei, Qidong Cai, Pengfei Zhang, Shuai Shi, Xiong Peng, Zhenyu Zhao, Wei Yin, Guangxu Tu, Weilin Peng and 2 more

Abstract read
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In one paragraph

Article in Cancer cell international, 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

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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

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

12 authors.

Boxue He *Department of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Cong Wei *Xiangya School of Medicine, Central South University, Changsha, 410008, China.
Qidong CaiDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Pengfei ZhangDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Shuai ShiDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Xiong PengDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Zhenyu ZhaoDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Wei YinDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Guangxu TuDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Weilin PengDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Yongguang TaoDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China.
Xiang WangDepartment of Thoracic Surgery, Second Xiangya Hospital, Central South University, Changsha, 410011, China. wangxiang@csu.edu.cn.ORCID http://orcid.org/0000-0002-5211-7206

Funding

Hunan Provincial Science and Technology Innovation Plan Project 2020SK53424Natural Science Foundation of Hunan Province 2021JJ30957the Fundamental Research Funds for the Central Universities of Central South University 2021zzts0383
6 · The paper itself

Abstract

backgroundAlternative splicing (AS) plays important roles in transcriptome and proteome diversity. Its dysregulation has a close affiliation with oncogenic processes. This study aimed to evaluate AS-based biomarkers by machine learning algorithms for lung squamous cell carcinoma (LUSC) patients.

methodThe Cancer Genome Atlas (TCGA) database and TCGA SpliceSeq database were utilized. After data composition balancing, Boruta feature selection and Spearman correlation analysis were used for differentially expressed AS events. Random forests and a nested fivefold cross-validation were applied for lymph node metastasis (LNM) classifier building. Random survival forest combined with Cox regression model was performed for a prognostic model, based on which a nomogram was developed. Functional enrichment analysis and Spearman correlation analysis were also conducted to explore underlying mechanisms. The expression of some switch-involved AS events along with parent genes was verified by qRT-PCR with 20 pairs of normal and LUSC tissues.

resultsWe found 16 pairs of splicing events from same parent genes which were strongly related to the splicing switch (intrapair correlation coefficient = - 1). Next, we built a reliable LNM classifier based on 13 AS events as well as a nice prognostic model, in which switched AS events behaved prominently. The qRT-PCR presented consistent results with previous bioinformatics analysis, and some AS events like ITIH5-10715-AT and QKI-78404-AT showed remarkable detection efficiency for LUSC.

conclusionAS events, especially switched ones from the same parent genes, could provide new insights into the molecular diagnosis and therapeutic drug design of LUSC.

Indexed as

Alternative splicingBiomarkersLung squamous cell carcinomaMachine learning algorithmsSplicing switch

Identifiers

PMID34986865
PMCPMC8734344

What Socratic holds

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Registered trials

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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 Socratic graph.