Haplotype Structure

2009 ◽  
pp. 25-79 ◽  
Author(s):  
Yu Zhang ◽  
Tianhua Niu
Keyword(s):  
Haplotype Structure

scholarly journals Evidence for Selection at the fused1 Locus of Drosophila americana

Genetics ◽  
2001 ◽  
Vol 158 (1) ◽  
pp. 279-290 ◽  
Author(s):  
Jorge Vieira ◽  
Bryant F McAllister ◽  
Brian Charlesworth
Keyword(s):  
Amino Acid ◽  
Sequence Variation ◽  
Amino Acid Replacement ◽  
Population Subdivision ◽  
Amino Acid Substitutions ◽  
Clinal Variation ◽  
Haplotype Structure ◽  
Common Amino Acid ◽  
Chromosome Arrangement ◽  
Dna Sequence Variation

Abstract We analyze genetic variation at fused1, a locus that is close to the centromere of the X chromosome-autosome (X/4) fusion in Drosophila americana. In contrast to other X-linked and autosomal genes, for which a lack of population subdivision in D. americana has been observed at the DNA level, we find strong haplotype structure associated with the alternative chromosomal arrangements. There are several derived fixed differences at fused1 (including one amino acid replacement) between two haplotype classes of this locus. From these results, we obtain an estimate of an age of ∼0.61 million years for the origin of the two haplotypes of the fused1 gene. Haplotypes associated with the X/4 fusion have less DNA sequence variation at fused1 than haplotypes associated with the ancestral chromosome arrangement. The X/4 haplotypes also exhibit clinal variation for the allele frequencies of the three most common amino acid replacement polymorphisms, but not for adjacent silent polymorphisms. These patterns of variation are best explained as a result of selection acting on amino acid substitutions, with geographic variation in selection pressures.

Interleukin-8 genetic diversity, haplotype structure and production differ in two ethnically distinct South African populations

Cytokine ◽  
2021 ◽  
pp. 155489
Author(s):  
Maria Paximadis ◽  
Anabela C.P. Picton ◽  
Dhriti Sengupta ◽  
Michele Ramsay ◽  
Adrian Puren ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
South African ◽  
Interleukin 8 ◽  
Haplotype Structure ◽  
African Populations ◽  
South African Populations

P265 HLA haplotype structure in a Chinese population

2017 ◽  
Vol 78 ◽  
pp. 249
Author(s):  
Pedro Cano ◽  
Ming Li
Keyword(s):  
Chinese Population ◽  
Haplotype Structure

scholarly journals Haplotype Structure and Divergence at Human and Chimpanzee Serotonin Transporter and Receptor Genes: Implications for Behavioral Disorder Association Analyses

2010 ◽  
Vol 27 (7) ◽  
pp. 1518-1529 ◽  
Author(s):  
K. G. Claw ◽  
R. Y. Tito ◽  
A. C. Stone ◽  
B. C. Verrelli
Keyword(s):  
Serotonin Transporter ◽  
Behavioral Disorder ◽  
Haplotype Structure ◽  
Association Analyses

scholarly journals Somatic variant analysis of linked-reads sequencing data with Lancet

2020 ◽  
Author(s):  
Rajeeva Musunuri ◽  
Kanika Arora ◽  
André Corvelo ◽  
Minita Shah ◽  
Jennifer Shelton ◽  
...  
Keyword(s):  
Supplementary Information ◽  
De Bruijn Graph ◽  
Haplotype Structure ◽  
Sequencing Data ◽  
Somatic Variant ◽  
Local Assembly ◽  
De Bruijn ◽  
Variant Analysis ◽  
Colored De Bruijn Graph ◽  
Commercial Research

Abstract Summary We present a new version of the popular somatic variant caller, Lancet, that supports the analysis of linked-reads sequencing data. By seamlessly integrating barcodes and haplotype read assignments within the colored De Bruijn graph local-assembly framework, Lancet computes a barcode-aware coverage and identifies variants that disagree with the local haplotype structure. Availability and implementation Lancet is implemented in C++ and available for academic and non-commercial research purposes as an open-source package at https://github.com/nygenome/lancet. Supplementary information Supplementary data are available at Bioinformatics online.

Genetic diversity and haplotype structure of 27 Y-STR loci in a Han population from Jining, Shandong province, eastern China

2019 ◽  
Vol 42 ◽  
pp. e25-e26 ◽  
Author(s):  
Yequan Wang ◽  
Zhen Dang ◽  
Guoan Zhang ◽  
Shuyue Li ◽  
Qi Liu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Eastern China ◽  
Shandong Province ◽  
Haplotype Structure ◽  
Han Population ◽  
Str Loci

High-resolution haplotype structure in the human genome

2001 ◽  
Vol 29 (2) ◽  
pp. 229-232 ◽  
Author(s):  
Mark J. Daly ◽  
John D. Rioux ◽  
Stephen F. Schaffner ◽  
Thomas J. Hudson ◽  
Eric S. Lander
Keyword(s):  
High Resolution ◽  
Human Genome ◽  
Haplotype Structure
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