Evidence map›Paper›PMID 37542084›Full record

ArticleScientific data2023

Structure prediction of novel isoforms from uveal melanoma by AlphaFold.

Zhe Zhang, Chen Li, Qian Li, Xiaoming Su, Jiayi Li, Lili Zhu, Xinhua James Lin, Jianfeng Shen

Abstract readDataset
In one paragraph

Article in Scientific data, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Review
  3. Review
  4. Review
  5. Review
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

8 authors.

Zhe Zhang *Department of Ophthalmology, Ninth People's Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, 200025, China. zhangzistiger@gmail.com.
Chen Li *High Performance Computing Center, Shanghai Jiao Tong University, Shanghai, 200240, China.
Qian LiDepartment of Ophthalmology, Ninth People's Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, 200025, China.
Xiaoming SuHigh Performance Computing Center, Shanghai Jiao Tong University, Shanghai, 200240, China.
Jiayi LiState Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Sciences & Biotechnology, Shanghai Jiao Tong University, Shanghai, 200240, China.
Lili ZhuSongjiang Research Institute and Songjiang Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, 201600, China.
Xinhua James LinHigh Performance Computing Center, Shanghai Jiao Tong University, Shanghai, 200240, China. james@sjtu.edu.cn.
Jianfeng ShenDepartment of Ophthalmology, Ninth People's Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, 200025, China. jfshen@shsmu.edu.cn.ORCID http://orcid.org/0000-0001-9779-6225

Funding

National Natural Science Foundation of China (National Science Foundation of China) No.81972667Shanghai Municipal Education Commission No.20191817
6 · The paper itself

Abstract

Alternative splicing is an important mechanism that enhances protein functional diversity. To date, our understanding of alternative splicing variants has been based on mRNA transcript data, but due to the difficulty in predicting protein structures, protein tertiary structures have been largely unexplored. However, with the release of AlphaFold, which predicts three-dimensional models of proteins, this challenge is rapidly being overcome. Here, we present a dataset of 315 predicted structures of abnormal isoforms in 18 uveal melanoma patients based on second- and third-generation transcriptome-sequencing data. This information comprises a high-quality set of structural data on recurrent aberrant isoforms that can be used in multiple types of studies, from those aimed at revealing potential therapeutic targets to those aimed at recognizing of cancer neoantigens at the atomic level.

Indexed as

MelanomaUveal NeoplasmsAlternative SplicingHumansProtein IsoformsUveal MelanomaProtein Isoforms

Identifiers

PMID37542084
PMCPMC10403560

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.