Evidence map›Paper›PMID 34504230›Full record

ArticleScientific reports2021

Boosting and lassoing new prostate cancer SNP risk factors and their connection to selenium.

David E Booth, Venugopal Gopalakrishna-Remani, Matthew L Cooper, Fiona R Green, Margaret P Rayman

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PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

5 authors.

David E BoothM&IS Department, Kent State University, 595 Martinique Circle, Kent, OH, 44242, USA. dvdbooth8@gmail.com.
Venugopal Gopalakrishna-RemaniDepartment of Management, University of Texas-Tyler, Tyler, TX, 75799, USA.
Matthew L CooperDepartment of Internal Medicine, Washington University School of Medicine, St. Louis, MO, 63110, USA.
Fiona R GreenDivision of Cardiovascular Sciences, School of Medical Sciences, Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK.
Margaret P RaymanDepartment of Nutritional Sciences, University of Surrey, Guildford, GU27XH, UK.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

We begin by arguing that the often used algorithm for the discovery and use of disease risk factors, stepwise logistic regression, is unstable. We then argue that there are other algorithms available that are much more stable and reliable (e.g. the lasso and gradient boosting). We then propose a protocol for the discovery and use of risk factors using lasso or boosting variable selection. We then illustrate the use of the protocol with a set of prostate cancer data and show that it recovers known risk factors. Finally, we use the protocol to identify new and important SNP based risk factors for prostate cancer and further seek evidence for or against the hypothesis of an anticancer function for Selenium in prostate cancer. We find that the anticancer effect may depend on the SNP-SNP interaction and, in particular, which alleles are present.

Indexed as

AllelesAlgorithmsAntineoplastic AgentsHumansLogistic ModelsMaleProstatic NeoplasmsRisk FactorsSeleniumAntineoplastic AgentsSelenium

Identifiers

PMID34504230
PMCPMC8429712

What OpenQuestion holds

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Registered trials

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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.