Evidence map›Paper›PMID 39596415›Full record

ArticleInternational journal of molecular sciences2024

vScreenML v2.0: Improved Machine Learning Classification for Reducing False Positives in Structure-Based Virtual Screening.

Grigorii V Andrianov, Emeline Haroldsen, John Karanicolas

Abstract read
In one paragraph

Article in International journal of molecular sciences, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Review
  2. 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

3 authors.

Grigorii V AndrianovCancer Signaling & Microenvironment Program, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.ORCID 0000-0001-5328-4738
Emeline HaroldsenCancer Signaling & Microenvironment Program, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.ORCID 0009-0008-6785-4859
John KaranicolasCancer Signaling & Microenvironment Program, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.

Funding

WORD PROCESSING CENTER--COREP30CA006927 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI Dietmar J Kappes · 1985 to 2026
$138.8M
Designing selective kinase inhibitors via deep learningR01GM141513 · NIGMS · RESEARCH INST OF FOX CHASE CAN CTR · PI RINK, LORI · 2022 to 2025
$2.4M
NCI NIH HHS P30 CA006927NCI NIH HHS P30CA006927NIGMS NIH HHS R01 GM141513NIGMS NIH HHS R01GM141513W. M. Keck Foundation N/A
6 · The paper itself

Abstract

The enthusiastic adoption of make-on-demand chemical libraries for virtual screening has highlighted the need for methods that deliver improved hit-finding discovery rates. Traditional virtual screening methods are often inaccurate, with most compounds nominated in a virtual screen not engaging the intended target protein to any detectable extent. Emerging machine learning approaches have made significant progress in this regard, including our previously described tool vScreenML. The broad adoption of vScreenML was hindered by its challenging usability and dependencies on certain obsolete or proprietary software packages. Here, we introduce vScreenML 2.0 to address each of these limitations with a streamlined Python implementation. Through careful benchmarks, we show that vScreenML 2.0 outperforms other widely used tools for virtual screening hit discovery.

Indexed as

Machine LearningSoftwareDrug DiscoveryDrug Evaluation, PreclinicalHumansSmall Molecule LibrariesUser-Computer InterfaceSmall Molecule Librariesdrug discoverymachine learningvirtual screening

Identifiers

PMID39596415
PMCPMC11595162

What OpenQuestion holds

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LicenceCC BY
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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.