SIXPAC statistics

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Citations per year

Number of citations per year for the bioinformatics software tool SIXPAC

Tool usage distribution map

This map represents all the scientific publications referring to SIXPAC per scientific context
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Associated diseases

This word cloud represents SIXPAC usage per disease context

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SIXPAC specifications


Unique identifier OMICS_10108
Alternative name Search for Interactions is Probably Approximately Complete
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 1.0.2
Stability Stable
Maintained Yes


No version available


  • person_outline Snehit Prabhu

Publication for Search for Interactions is Probably Approximately Complete

SIXPAC citations


Discovering Genetic Interactions in Large Scale Association Studies by Stage wise Likelihood Ratio Tests

PLoS Genet
PMCID: 4581725
PMID: 26402789
DOI: 10.1371/journal.pgen.1005502
call_split See protocol

[…] he screening: χ 2 ≥ 3 (corresponding to p ≤ 0.39) and p ≤ 10−4, respectively. Thirdly, we test two methods based on the LD-contrast test with different filtering strategies: LD-contrast—no screening. Sixpac—the method of [], which recodes variant genotypes into two binary variables (according to dominant and recessive coding) and then combines LD cases screening with a LD-contrast main test. The s […]


Chi8: a GPU program for detecting significant interacting SNPs with the Chi square 8 df test

BMC Res Notes
PMCID: 4568583
PMID: 26369336
DOI: 10.1186/s13104-015-1392-5
call_split See protocol

[…] NP interactions in type 1 diabetes were also used for prediction and did not yield a higher accuracy [].We also notice that our method is a more stringent test than the LD-contrast implemented in the SIXPAC [] program. For example SIXPAC reports the SNPs rs10925490 and rs2041140 as significant in the WTCCC bipolar disorder dataset with a p-value of 4.61×10-14. On the other hand the Chi-square 8-df […]


Analysis pipeline for the epistasis search – statistical versus biological filtering

Front Genet
PMCID: 4012196
PMID: 24817878
DOI: 10.3389/fgene.2014.00106
call_split See protocol

[…] ics. Some interaction studies use optimal searching and computational technology to search the whole space for potential interactions. An ultrafast genome-wide scan approach for SNP–SNP interactions, SIXPAC, employs a randomization searching algorithm – probability approximate complete (PAC) testing – to drastically trim the universe of SNP combinations. The approach samples small groups of cases […]

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SIXPAC institution(s)
Department of Computer Science, Columbia University, New York, NY, USA
SIXPAC funding source(s)
The Microsoft Research PhD Fellowship award; NSF awards 0829882 and 0845677; NIH grant U54 CA121852-06

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