*  Haplotype - SNPedia
Haplotype: A specific combination of SNPs all occuring together on the same chromosome (i.e. all occuring on the chromosome ... Haplotypes are important for example because many of the SNP's found by genome-wide association studies aren't the true cause ... Because haplotypes are highly likely to be preserved in populations, there are several algorithms for attempting to conduct ... Next Gen Sequencing can thus provide not only perfectly phased genome, but also a haplotype map which can be used to impute ...
  https://snpedia.com/index.php/Haplotype
*  MtDNA diversity and species phylogeny of western Palaearctic members of the Gerris lacustris group (Hemiptera-Heteroptera:...
... six haplotypes represented G. maculatus, four haplotypes represented G. brasili, and a single haplotype was shared between G. ... G. lacustris showed little genetic substructure except for some isolated haplotypes in Italy, Turkey and Armenia, but these are ... geographically overlapping with more widespread haplotypes, and probably represent more ancient diversities in these regions. ... Nine haplotypes represented G. lacustris, nine haplotypes represented G. gibbifer, ...
  http://booksandjournals.brillonline.com/content/journals/10.1163/187631208788784156
*  PIPELINES - Edico Genome
The result is a haplotype variant calling pipeline that is able to analyze a 30x coverage whole human genome in 18 minutes. ... The GATK Pipeline is an implementation of GATK Haplotype Variant Caller from the Broad Institute on the DRAGEN Platform. The ...
  http://edicogenome.com/pipelines/?s=
*  KurdishDNA
2. Because this time I used more SNPs most of the haplotypes split into several haplotypes:. ht1=, ht17-30 (blue). ht2=, ht31 ( ... Find below the phylogenetic tree of MCM6 haplotypes.. Coehlo et al., 2005 predicted that 22018A mutation occured prior to the ... Find below the frequency of the six MCM6 haplotypes in the Kurdish gene pool:. ht1. ht2. ht3. ht4. ht5. ht6. ... In contrast, the compound Arab allele shows a different, highly divergent ancestral haplotype, suggesting that these two major ...
  http://kurdishdna.blogspot.de
*  CRAN Task View: Statistical Genetics
Linkage Disequilibrium and haplotype mapping : A number of packages provide haplotype estimation for unrelated individuals with ... estimates haplotype frequencies from genotype data, and gcontrol(). implements a Bayesian genomic control statistics for ... Population Genetics : genetics implements classes and methods for representing genotype and haplotype data, and has several ... haplo.stats also contains tests for haplotype associations under a GLM framework, but also provides score tests of association ...
  https://cran.stat.unipd.it/web/views/Genetics.html
*  HaploPOP : a software that improves population assignment by combining markers into haplotypes
HaploPOP: a software that improves population assignment by combining markers into haplotypes. Duforet-Frebourg, Nicolas ... Conclusions: Our results show that constructing haplotypes with HaploPOP can substantially reduce assignment error. The ... Because complete exploration of all possible solutions for constructing haplotypes is computationally prohibitive, our approach ... that combines markers into haplotypes, without requiring independence. The algorithm is based on the Gain of Informativeness ...
  http://www.diva-portal.org/smash/record.jsf?pid=diva2:848853
*  KurdishDNA: May 2017
2. Because this time I used more SNPs most of the haplotypes split into several haplotypes:. ht1=, ht17-30 (blue). ht2=, ht31 ( ... 3. I wanted to sort the haplotypes based on the phylogenetic tree.. I also checked the data of Denisova and Neanderthals for ... SNPs of 76 haplotypes including the Denisova and Neanderthal SNPs (predicted ones in grey) and frequencies of all 76 ... Please note that there are many more haplotypes (especially in Africa); I just focused on most common ones as stated above. ...
  http://kurdishdna.blogspot.be/2017/05/
*  How do we interpret a rooted haplotype network?
2000; van Oven and Kayser 2009). Groups and subgroups of this tree have been labelled as haplotypes, such as haplotype group M ... and it is their use as haplotype networks that I wish to discuss here.. Haplotype networks represent the relationships among ... How, then, do we interpret the rooted haplotype network?. An example. Let's look at a specific example, taken from the recent ... These two methods are popular in population genetics, especially as related to Homo sapiens, where they are used as haplotype ...
  http://phylonetworks.blogspot.pt/2013/09/how-do-we-interpret-rooted-haplotype.html
*  rs1050152 - SNPedia
Referring to the TC risk haplotype, the population risk attributable to heterozygotes was 19%, and for homozygous haplotype ... A nearby SNP (rs2631367) in the promoter region of the SLC22A5 gene defines a haplotype along with rs3792876, with odds ratio ... PMID 21695374] Haplotype in the IBD5 region is associated with refractory Crohn's disease in Slovenian patients and modulates ... reported as similar for either SNP or the haplotype. ...
  https://www.snpedia.com/index.php/rs1050152
*  MDR1/ABCB1 gene polymorphisms in patients with chronic myeloid leukemia
Wt-haplotype (CC-GG-CC) was observed in 6 CML-patients (25%). In this wt-group, two were treated with nilotinib and reached a ... 1 and 2). In this regard, our study demonstrated that the full wt-haplotype CC-GG-CC (6/24 cases) was only present in patients ... Seventeen different haplotypes were identified: 7 only in controls, 6 only in CML-patients, and the remaining 4 in both groups ... Wt-haplotypes are indicated in each case. The remaining patients were T-variants. In three cases, therapeutic responses were ...
  http://www.bloodresearch.or.kr/journal/view.html?uid=1794&vmd=Full
*  Haplotype - Wikipedia
... haplotype estimation and haplotype tagging (Homepage). HelixTree - Haplotype analysis software - Haplotype Trend Regression ( ... Haplotype diversity is a measure of the uniqueness of a particular haplotype in a given population. The haplotype diversity (H ... Given the genotypes for a number of individuals, the haplotypes can be inferred by haplotype resolution or haplotype phasing ... haplotype frequency of each haplotype in the sample and N {\displaystyle N} is the sample size. Haplotype diversity is given ...
  https://en.wikipedia.org/wiki/Haplotype
*  Haplotype convergence - Wikipedia
Haplotype convergence is the unrelated appearance of identical haplotypes in separate populations, through either convergent ... Haplotype convergence is rare, due to the sheer odds involved of two unrelated individuals independently evolving the exact ... Thus, haplotypes are shared mainly between very closely related individuals, as the genetic information in two related ... "Common haplotypes". ancestry.com. 14 December 2006. Retrieved 28 March 2012. [better source needed] Blair, C.; Murphy, R. W. ( ...
  https://en.wikipedia.org/wiki/Haplotype_convergence
*  Haplotype estimation - Wikipedia
In genetics, haplotype estimation (also known as "phasing") refers to the process of statistical estimation of haplotypes from ... List of haplotype estimation and genotype imputation software imputation: predict missing genotypes using known haplotypes ... Approximations to the distribution of a haplotype conditional upon a set of other haplotypes were used for the conditional ... These methods iteratively update the haplotype estimates of each sample conditional upon a subset of K haplotype estimates of ...
  https://en.wikipedia.org/wiki/Haplotype_estimation
*  Haplotype 35 - Wikipedia
In human genetics, Haplotype 35, also called ht35 or the Armenian Modal Haplotype, is a Y chromosome haplotype of Y-STR ... Modal haplotype Haplotype Haplogroup Haplogroup R1b List of Y-STR markers Haplogroup R1b (Haplotype 35). ... It is characterized by DYS393=12 (as opposed to the Atlantic Modal Haplotype, another R1b haplotype, which is characterized by ... DYS393=13). The members of this haplotype are found in high numbers in Anatolia and Armenia, with smaller numbers throughout ...
  https://en.wikipedia.org/wiki/Haplotype_35
*  Modal haplotype - Wikipedia
The two most commonly discussed modal haplotypes are the Atlantic Modal Haplotype (the most common haplotype in parts of Europe ... A modal haplotype is an ancestral haplotype derived from the DNA test results of a specific group of people, using genetic ... the haplotype associated with the Jewish Cohanim tradition). However, a specific modal haplotype may be determined for any ... associated with Haplogroup R1b) and the Cohen Modal Haplotype ( ...
  https://en.wikipedia.org/wiki/Modal_haplotype
*  Atlantic modal haplotype - Wikipedia
Modal haplotype Haplotype Haplogroup Haplogroup R1b List of Y-STR markers Some Haplotype Definitions Some Variations of DYS390 ... In human genetics, the Atlantic modal haplotype (AMH) or haplotype 15 is a Y chromosome haplotype of Y-STR microsatellite ... One mutation in either direction, would be AMH 1.15+. The AMH 1.15 set of haplotypes is also referred to as the Atlantic modal ... It corresponds most closely with subclade R1b1a2a1a(1) [L11]. The AMH is the most frequently occurring haplotype amongst human ...
  https://en.wikipedia.org/wiki/Atlantic_modal_haplotype
*  Preimplantation genetic haplotyping - Wikipedia
A haplotype map is thus created, not only exhibiting genes the offspring will contain, but also the parental origin of the ... "Developing a Haplotype Map of the Human Genome to Find Genes Related to Health and Disease: Meeting Summary". www.genome.gov. ... Preimplantation genetic haplotyping (PGH) is a clinical method of preimplantation genetic diagnosis (PGD) used to determine the ... Altarescu G, Zeevi DA, Zeligson S, Perlberg S, Eldar-Geva T, Margalioth EJ, Levy-Lahad E, Renbaum P. Familial haplotyping and ...
  https://en.wikipedia.org/wiki/Preimplantation_genetic_haplotyping
*  MHC Haplotype Project
... The MHC Haplotype Project was conducted between 2000 and 2006 at the Sanger ... MHC Haplotype Project Data. The data from the MHC Haplotype Project are available in .txt file format file for viewing in the ... Haplotype HLA-A HLA-B HLA-C HLA-DRB1 HLA-DQB1 HLA-DPB1 Links:. Vega UCSC. GRC ... The data are colour-coded by haplotype and will initially be displayed showing 1Mb in the centre of the MHC. You are then free ...
  http://www.ucl.ac.uk/cancer/research/department-cancer-biology/medical-genomics-group/past-projects/mhc-haplotype-project
*  Microfluidic whole genome haplotyping - Wikipedia
Whole genome haplotyping is the process of resolving personal haplotypes on a whole genome basis. Current methods of next ... Whole genome direct haplotyping involves the resolution of haplotype at the whole genome level, usually through the isolation ... Most molecular biology techniques for haplotyping can accurately determine haplotypes of only a limited region of the genome. ... Haplotypes have no defined size and can refer to anything from a few closely linked loci up to an entire chromosome. The term ...
  https://en.wikipedia.org/wiki/Microfluidic_whole_genome_haplotyping
*  HLA A1-B8 haplotype - Wikipedia
In Europe A1-B8 is found, generally as part of the HLA A1-B8-DR3-DQ2 haplotype. This haplotype is 4.7 million nucleotides in ... Underlying this move was the HLA A1-B8-DR3-DQ2 haplotype, a haplotype that is in acute linkage disequilibrium in the European ... A multigene haplotype is set of inherited alleles covering several genes, or gene-alleles; common multigene haplotypes are ... Two-point haplotype analysis between TNFB(B*01 allele) and HLA show that the allele is in linkage disequilibrium with HLA-A1, ...
  https://en.wikipedia.org/wiki/HLA_A1-B8_haplotype
*  Y Chromosome Haplotype Reference Database - Wikipedia
By October 2017 more than 197,000 9-locus haplotypes, among them 145,816 17-locus haplotypes, 39,414 23-locus haplotypes, ... The analysis of ~12,000 European Haplotypes by AMOVA demonstrates that three largely homogeneous pools of European Haplotypes ... the generation of reliable frequency estimates for Y-STR Haplotypes and Y-SNP Haplotypes to be used in the quantitative ... Haplotypes within a haplogroup could be highly similar or even "identical by descent" (IBD). In thus, the haplogroup could be ...
  https://en.wikipedia.org/wiki/Y_Chromosome_Haplotype_Reference_Database
*  A30-Cw5-B18-DR3-DQ2 (HLA Haplotype) - Wikipedia
The CwB haplotype peaks in Sardinia along with the rest of the haplotype and can be found in high resolution studies of the S. ... There are other haplotypes that have similar origins (e.g. A2-Cw7-B58-DR16-DQ5.2) and combined these haplotypes represent ... Long haplotypes, like A30::DQ2, are generally the result of descent by common ancestry. As haplotypes increase in size, ... Excepting A*3002:Cw*0501:B*1801 haplotype, A*3002, the A30 allele found in the A30-Cw5-B18 haplotype, is rare in Europe. ...
  https://en.wikipedia.org/wiki/A30-Cw5-B18-DR3-DQ2_(HLA_Haplotype)
*  List of haplotype estimation and genotype imputation software - Wikipedia
This is a list of notable software for haplotype estimation and genotype imputation. Alphabetical order: AlphaImpute Beagle ...
  https://en.wikipedia.org/wiki/List_of_haplotype_estimation_and_genotype_imputation_software