Evidence map›Paper›PMID 39744088›Full record

ArticlemLife2024

GRAPE-WEB: An automated computational redesign web server for improving protein thermostability.

Jinyuan Sun, Wenyu Shi, Zhihui Xing, Guomei Fan, Qinglan Sun, Linhuan Wu, Juncai Ma, Yinglu Cui, Bian Wu

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in mLife, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. 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

9 authors.

Jinyuan SunAIM Center, College of Life Sciences and Technology, Beijing University of Chemical Technology, Institute of Microbiology Chinese Academy of Sciences Beijing China.ORCID https://orcid.org/0000-0003-3456-0332
Wenyu ShiState Key Laboratory of Animal Biotech Breeding, College of Biological Sciences China Agricultural University Beijing China.
Zhihui XingAIM Center, College of Life Sciences and Technology, Beijing University of Chemical Technology, Institute of Microbiology Chinese Academy of Sciences Beijing China.
Guomei FanMicrobial Resource and Big Data Center, Institute of Microbiology Chinese Academy of Sciences Beijing China.
Qinglan SunMicrobial Resource and Big Data Center, Institute of Microbiology Chinese Academy of Sciences Beijing China.
Linhuan WuMicrobial Resource and Big Data Center, Institute of Microbiology Chinese Academy of Sciences Beijing China.ORCID 0000-0002-5255-1846
Juncai MaMicrobial Resource and Big Data Center, Institute of Microbiology Chinese Academy of Sciences Beijing China.
Yinglu CuiAIM Center, College of Life Sciences and Technology, Beijing University of Chemical Technology, Institute of Microbiology Chinese Academy of Sciences Beijing China.ORCID 0000-0002-2147-5879
Bian WuAIM Center, College of Life Sciences and Technology, Beijing University of Chemical Technology, Institute of Microbiology Chinese Academy of Sciences Beijing China.ORCID 0000-0002-6524-2049

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

We have developed the GReedy Accumulated strategy for Protein Engineering (GRAPE) to improve enzyme stability across various applications, combining advanced computational methods with a unique clustering and greedy accumulation approach to efficiently explore epistatic effects with minimal experimental effort. To make this strategy accessible to nonexperts, we introduced GRAPE-WEB, an automated, user-friendly web server that allows the design, inspection, and combination of stabilizing mutations without requiring extensive bioinformatics knowledge. GRAPE-WEB's robust performance and accessibility provide a comprehensive and adaptable approach to protein thermostability design, suitable for both newcomers and experienced practitioners in the field. The web server is accessible at https://grape.wulab.xyz.

Identifiers

PMID39744088
PMCPMC11685837

What OpenQuestion holds

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LicenceCC BY
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.