Evidence map›Paper›PMID 33672700›Full record

ArticleMolecules (Basel, Switzerland)2021

PSC-db: A Structured and Searchable 3D-Database for Plant Secondary Compounds.

Alejandro Valdés-Jiménez, Carlos Peña-Varas, Paola Borrego-Muñoz, Lily Arrue, Melissa Alegría-Arcos, Hussam Nour-Eldin, Ingo Dreyer, Gabriel Nuñez-Vivanco, David Ramírez

Abstract read
In one paragraph

Article in Molecules (Basel, Switzerland), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing 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

10 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Review
  6. Review
  7. Review
  8. Article
  9. Review
  10. Translational Informatics for Natural Products as Antidepressant Agents.Frontiers in cell and developmental biology · 2021
    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

9 authors.

Alejandro Valdés-JiménezCenter for Bioinformatics, Simulations, and Modeling (CBSM), Faculty of Engineering, University of Talca, Talca 3460000, Chile.ORCID 0000-0003-2345-5510
Carlos Peña-VarasInstituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Santiago 8900000, Chile.
Paola Borrego-MuñozBioorganic Chemistry Laboratory, Facultad de Ciencias Básicas y Aplicadas, Campus Nueva Granada, Universidad Militar Nueva Granada, Cajicá 250247, Colombia.ORCID 0000-0002-0024-9629
Lily ArrueInstituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Santiago 8900000, Chile.ORCID 0000-0003-0916-6077
Melissa Alegría-ArcosInstituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Santiago 8900000, Chile.
Hussam Nour-EldinDynaMo Center, Department of Plant and Environmental Sciences, University of Copenhagen, 1017 Copenhagen, Denmark.
Ingo DreyerCenter for Bioinformatics, Simulations, and Modeling (CBSM), Faculty of Engineering, University of Talca, Talca 3460000, Chile.ORCID 0000-0002-2781-0359
Gabriel Nuñez-VivancoCenter for Bioinformatics, Simulations, and Modeling (CBSM), Faculty of Engineering, University of Talca, Talca 3460000, Chile.
David RamírezInstituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Santiago 8900000, Chile.ORCID 0000-0003-0002-1189

Funding

Comisión Nacional de Investigación Científica y Tecnológica REDES190025Fondo Nacional de Desarrollo Científico y Tecnológico 11180604Fondo Nacional de Desarrollo Científico y Tecnológico 1150054
6 · The paper itself

Abstract

Plants synthesize a large number of natural products, many of which are bioactive and have practical values as well as commercial potential. To explore this vast structural diversity, we present PSC-db, a unique plant metabolite database aimed to categorize the diverse phytochemical space by providing 3D-structural information along with physicochemical and pharmaceutical properties of the most relevant natural products. PSC-db may be utilized, for example, in qualitative estimation of biological activities (Quantitative Structure-Activity Relationship, QSAR) or massive docking campaigns to identify new bioactive compounds, as well as potential binding sites in target proteins. PSC-db has been implemented using the open-source PostgreSQL database platform where all compounds with their complementary and calculated information (classification, redundant names, unique IDs, physicochemical properties, etc.) were hierarchically organized. The source organism for each compound, as well as its biological activities against protein targets, cell lines and different organism were also included. PSC-db is freely available for public use and is hosted at the Universidad de Talca.

Indexed as

Databases, ChemicalMolecular Docking SimulationPhytochemicalsPlantsQuantitative Structure-Activity RelationshipPhytochemicals3D-structureschemical and structural propertiesdatabasenatural productsphysicochemical and pharmaceutical descriptorsplant secondary metabolites

Identifiers

PMID33672700
PMCPMC7924326

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.