HapBlock statistics

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Associated diseases

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HapBlock specifications

Information


Unique identifier OMICS_24372
Name HapBlock
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Sun F. <>

Publication for HapBlock

HapBlock in publications

 (17)
PMCID: 5732499
PMID: 29246216
DOI: 10.1186/s12890-017-0556-6

[…] was also significantly associated with the percent decline in fev1 in oac tests after correction for multiple comparisons in the codominant model (corrected p = 0.033), but the other four snps in hapblock2 were not., to the best of our knowledge, this is the first report of an association between snps on ilvbl and aerd. snps on ilvbl could be promising genetic markers of this condition., […]

PMCID: 5601996
PMID: 28869038
DOI: 10.7554/eLife.24994.028

[…] among snps identified at relaxed confidence levels up to p>10−4 is very low, and then increases at p<10−5 or p<10−6, plotted either for all significant snps (), or as single tag-snps per hapblock (). the same data is represented as a density distribution in . here, it can be seen that whereas most alleles have a differential frequency of 0 between larks and owls, this rises […]

PMCID: 4211684
PMID: 25350658
DOI: 10.1371/journal.pone.0109186

[…] since ascertainment bias skews these compendia towards snps: 1) discovered previously from selective exonic or other sequencing programs (dbsnp and hapmap), or 2) desirable from the standpoint of hapblock structure; i.e. specifically being sought as ‘informative’ vis-à-vis genome wide or other surveys (hapmap). on the other hand, data from 1000 genomes provides unbiased and valuable […]

PMCID: 3930001
PMID: 24495673
DOI: 10.1186/1297-9686-46-9

[…] or groups of markers to select ldp snps in a so-called block-free approach, e.g. tagger [] or ldselect []. another common approach is to use haplotype information in a block-based approach, e.g. hapblock [], while other more novel algorithms have been developed such as the neighbourhood graph approach of halldórsson et al. [] or the multiple linear regression approach of he and zelikovsky […]

PMCID: 3844216
PMID: 24319694
DOI: 10.1155/2013/984014

[…] blocks, the total number of blocks and tag snps identified by the algorithm is 293 and 1,047. the haplotype sample also being applied to zhang's method with minimum number of tag snps implemented on hapblock [], using the same criteria, 344 blocks and 1,184 tag snps are obtained by zhang's algorithm., shows a comparison of properties of haplotype blocks identified by zhang's and our algorithms […]


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HapBlock institution(s)
Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL, USA; Center for Statistical Genetics, Department of Biostatistics, University of Michigan, Ann Arbor, MI, USA; Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, CA, USA; Department of Statistics, Harvard University, Cambridge, MA, USA
HapBlock funding source(s)
Supported by NSF DMS-0104129, NIH R01-HG02518 and NIH P50 HG 002790, RR16522, NSF EIA-0112934, the University of Southern California, NIH R01ES09912 and NIH U54CA100949.

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