Evidence map›Paper›PMID 36950221›Full record

ReviewComputational and structural biotechnology journal2023

Computational tools for exploring peptide-membrane interactions in gram-positive bacteria.

Shreya Kumar, Rex Devasahayam Arokia Balaya, Saptami Kanekar, Rajesh Raju, Thottethodi Subrahmanya Keshava Prasad, Richard K Kandasamy

Open access · goldAbstract readReview
In one paragraph

Review in Computational and structural biotechnology journal, 2023. 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
1.8field-weighted citation impact, top 15% of its field
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, 12 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Machine learning for predictingBioinformation · 2025
    Article
  6. Graphene-Oxide Peptide-Containing Materials for Biomedical Applications.International journal of molecular sciences · 2024
    Review
  7. Article
  8. Review
  9. Article
  10. 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

6 authors at 2 institutions in 3 countries.

Shreya KumarCentre for Integrative Omics Data Science, Yenepoya (Deemed to be University), Mangalore 575018, India.
Rex Devasahayam Arokia BalayaCentre for Integrative Omics Data Science, Yenepoya (Deemed to be University), Mangalore 575018, India.
Saptami KanekarCentre for Integrative Omics Data Science, Yenepoya (Deemed to be University), Mangalore 575018, India.
Rajesh RajuCentre for Integrative Omics Data Science, Yenepoya (Deemed to be University), Mangalore 575018, India.
Thottethodi Subrahmanya Keshava PrasadCentre for Systems Biology and Molecular Medicine, Yenepoya Research Centre, Yenepoya (Deemed to be University), Mangalore 575018, India.
Richard K KandasamyCentre of Molecular Inflammation Research (CEMIR), and Department of Clinical and Molecular Medicine (IKOM), Norwegian University of Science and Technology, 7491 Trondheim, Norway.
Yenepoya University · INMayo Clinic · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The vital cellular functions in Gram-positive bacteria are controlled by signaling molecules known as quorum sensing peptides (QSPs), considered promising therapeutic interventions for bacterial infections. In the bacterial system QSPs bind to membrane-coupled receptors, which then auto-phosphorylate and activate intracellular response regulators. These response regulators induce target gene expression in bacteria. One of the most reliable trends in drug discovery research for virulence-associated molecular targets is the use of peptide drugs or new functionalities. In this perspective, computational methods act as auxiliary aids for biologists, where methodologies based on machine learning and

Indexed as

3-HBA, 3–Hydroxybenzoic AcidAAC, Amino Acid CompositionABC, ATP-binding cassetteACD, Available Chemicals DatabaseAgr, Accessory gene regulatorAIP, Autoinducing PeptideAMP, Anti-Microbial PeptideATP, Adenosine TriphosphateBFE, Binding Free EnergyBIP, Biofilm Inhibitory PeptidesBIP InhibitorsBLAST, Basic Local Alignment Search ToolBNB, Bernoulli Naïve-BayesCADD, Computer-Aided Drug DesignCSP, Competence Stimulating PeptideCTD, Composition-Transition-DistributionD, AspartateDCH, 3,3′-(3,4-dichlorobenzylidene)-bis-(4-hydroxycoumarin)DT, Decision TreeFDA, Food and Drug AdministrationGBM, Gradient Boosting MachineGDC, g-gap DipeptideGNB, Gaussian NBGram-positive bacteriaHAM, HamamelitanninHGM, Human Gut MicrobiotaH, HistidineH-Kinase, Histidine KinaseHNP, Human Neutrophil PeptideH-phosphotransferase, Histidine PhosphotransferaseIn silico approachesIT, Information Theory FeaturesKNN, K-Nearest NeighborsMCC, Mathew Co-relation CoefficientMD, Molecular DynamicsMDR, Multiple Drug ResistanceML, Machine LearningmRMR, minimum Redundancy and Maximum RelevanceMRSA, Methicillin Resistant S. aureusMSL, Multiple Sequence AlignmentOMR, OmargliptinOVP, Overlapping Property FeaturesPCP, Physicochemical PropertiesPDB, Protein Data BankPPIs, Protein-Protein InteractionsPSM, Phenol-Soluble ModulinPTM, Post Translational ModificationQSCN, QS communication networkQSHGM, Quorum Sensing of Human Gut MicrobesQSIM, QS Interference MoleculesQSI, QS InhibitorsQSP inhibitorsQSP predictorsQSP, QS PeptidesQSPR, Quantitative Structure Property RelationshipQS, Quorum SensingQuorum sensing peptidesRAP, RNAIII-activating proteinRF, Random ForestRIP, RNAIII-inhibiting peptideROC, Receiver Operating CharacteristicSAR, Structure-Activity RelationshipSFS, Sequential Forward SearchSIT, SitagliptinSVM, Support Vector MachineTCS, Two-Component SensoryTRAP, Target of RAPTRG, TrelagliptinWHO, World Health Organization

Identifiers

PMID36950221
PMCPMC10025024
OpenAlexW4322721402

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.