comb-p statistics

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Citations per year

Number of citations per year for the bioinformatics software tool comb-p
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Tool usage distribution map

This map represents all the scientific publications referring to comb-p per scientific context
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Associated diseases

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Popular tool citations

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Protocols

comb-p specifications

Information


Unique identifier OMICS_11806
Name comb-p
Alternative name combined-pvalues
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Documentation


Maintainer


  • person_outline Brent Pedersen

Publication for combined-pvalues

comb-p citations

 (16)
library_books

GLI2 promoter hypermethylation in saliva of children with a respiratory allergy

2018
Clin Epigenetics
PMCID: 5896137
PMID: 29682088
DOI: 10.1186/s13148-018-0484-1

[…] DMRs were identified with comb-p analysis [], using the list of uncorrected p values for all CpG sites as calculated from the differential methylation analysis together with their chromosomal location. This statistical procedu […]

library_books

“DNA Methylation signatures in panic disorder”

2017
PMCID: 5802688
PMID: 29249830
DOI: 10.1038/s41398-017-0026-1

[…] morbid with PD, and psychosis, .Interestingly, the disease association analysis shows an enrichment for psychiatric disorders in the whole sample and in females, but not in males.In our analysis with Comb-P, no evidence for clusters of differential methylation per gene could be detected, indicating that associated CpGs do not have adjacent signals. The genome-wide findings are thus not supported b […]

library_books

Maternal alcohol consumption and offspring DNA methylation: findings from six general population based birth cohorts

2017
Epigenomics
PMCID: 5753623
PMID: 29172695
DOI: 10.2217/epi-2017-0095

[…] d the currently available methods test slightly different (but not necessarily competing) hypotheses. Therefore, to provide confidence that any findings are robust to DMR method, we used two methods, Comb-P [] and DMRcate [], to identify DMRs in our meta-analyzed single-CpG EWAS results. Comb-P identifies genomic regions enriched for low p-values, corrects for auto-correlation with neighboring CpG […]

library_books

Newborn genome wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

2017
Clin Epigenetics
PMCID: 5627482
PMID: 29026448
DOI: 10.1186/s13148-017-0408-5

[…] ludes the full PELS cohort (n = 80). For this purpose, we wanted to strengthen the DMR identification analysis by applying to our genome-wide data a second statistical method to identify DMRs, namely comb-p. The latter, in contrast to DMRcate, identifies DMRs based on the output of a probe-by-probe analysis, using the location and p values of DMPs. To this end, we first tested each CpG probe for d […]

library_books

Phenotypic diversity, major genes and production potential of local chickens and guinea fowl in Tamale, northern Ghana

2017
Asian-Australas J Anim Sci
PMCID: 5582320
PMID: 28728378
DOI: 10.5713/ajas.17.0145

[…] equencies. Observed allele frequencies (p of dominant alleles, q of recessive alleles) were calculated for major genes in local chickens (naked neck, Na/na; frizzled feather, F/f; rose comb, R/r; pea comb, P/p; silky feather, H/h; crested head, Cr/cr; ptilopody, Pti/pti; polydactyly, Po/po) using the Hardy-Weinberg equilibrium: q=mt and p = 1−q, where m is the observed number of birds with the rec […]

library_books

Distinct DNA methylation profiles in subtypes of orofacial cleft

2017
Clin Epigenetics
PMCID: 5465456
PMID: 28603561
DOI: 10.1186/s13148-017-0362-2

[…] e interpreted as the difference in mean methylation beta value in children with one subtype compared to children with another subtype.In addition to the EWAS analyses at individual CpGs, we also used Comb-P [] to detect differential methylation across larger regions of the genome. This approach is statistically more powerful and has been associated with a lower rate of false positive findings comp […]


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comb-p institution(s)
Department of Medicine, University of Colorado, Denver, Anschutz Medical Campus, Aurora, CO, USA; Department of Biostatistics and Informatics, University of Colorado, Denver, Anschutz Medical Campus, Aurora, CO, USA
comb-p funding source(s)
The National Institutes of Health (AA016922, HL101251, AI90052 and HL101715)

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