Pair Matcher (PaM) : fast model-based optimization of treatment/case-control matches
Elhaik, Eran LU
and Ryan, Desmond M
(2019)
In Bioinformatics
35(13).
p.2243-2250
- Abstract
MOTIVATION: In clinical trials, individuals are matched using demographic criteria, paired and then randomly assigned to treatment and control groups to determine a drug's efficacy. A chief cause for the irreproducibility of results across pilot to Phase-III trials is population stratification bias caused by the uneven distribution of ancestries in the treatment and control groups.
RESULTS: Pair Matcher (PaM) addresses stratification bias by optimizing pairing assignments a priori and/or a posteriori to the trial using both genetic and demographic criteria. Using simulated and real datasets, we show that PaM identifies ideal and near-ideal pairs that are more genetically homogeneous than those identified based on competing... (More)
MOTIVATION: In clinical trials, individuals are matched using demographic criteria, paired and then randomly assigned to treatment and control groups to determine a drug's efficacy. A chief cause for the irreproducibility of results across pilot to Phase-III trials is population stratification bias caused by the uneven distribution of ancestries in the treatment and control groups.
RESULTS: Pair Matcher (PaM) addresses stratification bias by optimizing pairing assignments a priori and/or a posteriori to the trial using both genetic and demographic criteria. Using simulated and real datasets, we show that PaM identifies ideal and near-ideal pairs that are more genetically homogeneous than those identified based on competing methods, including the commonly used principal component analysis (PCA). Homogenizing the treatment (or case) and control groups can be expected to improve the accuracy and reproducibility of the trial or genetic study. PaM's ancestral inferences also allow characterizing responders and developing a precision medicine approach to treatment.
AVAILABILITY AND IMPLEMENTATION: PaM is freely available via Rhttps://github.com/eelhaik/PAM and a web-interface at http://elhaik-matcher.sheffield.ac.uk/ElhaikLab/.
SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
(Less)
- author
- Elhaik, Eran
LU
and Ryan, Desmond M
- publishing date
- 2019-07-01
- type
- Contribution to journal
- publication status
- published
- in
- Bioinformatics
- volume
- 35
- issue
- 13
- pages
- 2243 - 2250
- publisher
- Oxford University Press
- external identifiers
-
- pmid:30445488
- scopus:85058572305
- ISSN
- 1367-4803
- DOI
- 10.1093/bioinformatics/bty946
- language
- English
- LU publication?
- no
- additional info
- © The Author(s) 2018. Published by Oxford University Press.
- id
- cb378cb0-9d24-45ab-9f80-0609cf8dbd72
- date added to LUP
- 2019-11-10 16:35:03
- date last changed
- 2024-04-16 23:11:41
@article{cb378cb0-9d24-45ab-9f80-0609cf8dbd72,
abstract = {{<p>MOTIVATION: In clinical trials, individuals are matched using demographic criteria, paired and then randomly assigned to treatment and control groups to determine a drug's efficacy. A chief cause for the irreproducibility of results across pilot to Phase-III trials is population stratification bias caused by the uneven distribution of ancestries in the treatment and control groups.</p><p>RESULTS: Pair Matcher (PaM) addresses stratification bias by optimizing pairing assignments a priori and/or a posteriori to the trial using both genetic and demographic criteria. Using simulated and real datasets, we show that PaM identifies ideal and near-ideal pairs that are more genetically homogeneous than those identified based on competing methods, including the commonly used principal component analysis (PCA). Homogenizing the treatment (or case) and control groups can be expected to improve the accuracy and reproducibility of the trial or genetic study. PaM's ancestral inferences also allow characterizing responders and developing a precision medicine approach to treatment.</p><p>AVAILABILITY AND IMPLEMENTATION: PaM is freely available via Rhttps://github.com/eelhaik/PAM and a web-interface at http://elhaik-matcher.sheffield.ac.uk/ElhaikLab/.</p><p>SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.</p>}},
author = {{Elhaik, Eran and Ryan, Desmond M}},
issn = {{1367-4803}},
language = {{eng}},
month = {{07}},
number = {{13}},
pages = {{2243--2250}},
publisher = {{Oxford University Press}},
series = {{Bioinformatics}},
title = {{Pair Matcher (PaM) : fast model-based optimization of treatment/case-control matches}},
url = {{http://dx.doi.org/10.1093/bioinformatics/bty946}},
doi = {{10.1093/bioinformatics/bty946}},
volume = {{35}},
year = {{2019}},
}