Evidence map›Paper›PMID 16774684›Full record

ArticleBMC genetics2006

A graphical assessment of p-values from sliding window haplotype tests of association to identify asthma susceptibility loci on chromosome 11q.

Rasika A Mathias, Peisong Gao, Janet L Goldstein, Alexander F Wilson, Elizabeth W Pugh, Paulette Furbert-Harris, Georgia M Dunston, Floyd J Malveaux, Alkis Togias, Kathleen C Barnes and 2 more

Open access · diamondAbstract readEvaluation Study
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genetics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.

0numbers the graph read from it
0cells of the map it votes in
32citing papers in PubMed
3.7field-weighted citation impact, top 7% 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

32 citing papers in PubMed, 61 citations in OpenAlex.

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  19. Genetic polymorphisms in adaptive immunity genes and childhood acute lymphoblastic leukemia.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2010
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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

12 authors at 4 institutions in 1 country.

Rasika A MathiasGenometrics Section, Inherited Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Balitmore, USA. rmathias1@mail.nih.gov
Peisong Gao
Janet L Goldstein
Alexander F Wilson
Elizabeth W Pugh
Paulette Furbert-Harris
Georgia M Dunston
Floyd J Malveaux
Alkis Togias
Kathleen C Barnes
Terri H Beaty
Shau-Ku Huang
Johns Hopkins University · USHoward University · USJohns Hopkins Medicine · USNational Institutes of Health · US

Funding

Genometric analysis of quantitative traitsZ01HG000200 · NHGRI · NATIONAL HUMAN GENOME RESEARCH INSTITUTE · PI WILSON, ALEXANDER F · 2002 to 2008
$4.3M
Immunogenetic Analysis of Immune Response to AllergensR01AI052468 · NIAID · JOHNS HOPKINS UNIVERSITY · PI HUANG, SHAU-KU · 2003 to 2012
$3.5M
Intramural NIH HHSNIAID NIH HHS R01 AI-052468NIAID NIH HHS R01 AI052468
6 · The paper itself

Abstract

backgroundPast work on asthmatic African American families revealed a strong linkage peak with modest evidence of association on chromosome 11q. Here, we perform tests of association for asthma and a panel of 609 SNPs in African American subjects using a sliding window approach. While efficient in screening a region of dense genotyping, this approach does create some problems: high numbers of tests, assimilating thousands of results, and questions about setting priorities on regions with association signals.

resultsWe present a newly developed tool, Graphical Assessment of Sliding P-values or GrASP, which uses color display to indicate the width of the sliding windows, significance of individual tests, density of SNP coverage and location of known genes that simplifies some of these issues, and use it to identify regions of interest in these data.

conclusionWe demonstrate that GrASP makes it easier to visualize, summarize and prioritize regions of interest from sliding window haplotype analysis, based jointly on the p-value from all the tests from these windows and the building of haplotypes of significance in the region. Using this approach, five regions yielded strong evidence for linkage and association with asthma, including the prior peak linkage region.

Indexed as

Chromosomes, Human, Pair 11Computer GraphicsGenetic Predisposition to DiseasePolymorphism, Single NucleotideSoftwareAsthmaBlack or African AmericanChromosome MappingGenetic LinkageHaplotypesHumans

Identifiers

PMID16774684
PMCPMC1526454
OpenAlexW1564387111

What OpenQuestion holds

Textmetadata
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.