Association between human African trypanosomiasis and the IL6
... Ninety-nine SNPs were identified after re-sequencing the candidate genes in individuals from the Congolese population: 32 in IL1a, 5 in IL4, 17 in IL6, 10 in IL8, 9 in IL10, 16 in TNFa and 10 in IFNg (Fig. 1). Among these 99 SNPs, 22 were selected for larger-scale genotyping based on location (SNPs ...
... Ninety-nine SNPs were identified after re-sequencing the candidate genes in individuals from the Congolese population: 32 in IL1a, 5 in IL4, 17 in IL6, 10 in IL8, 9 in IL10, 16 in TNFa and 10 in IFNg (Fig. 1). Among these 99 SNPs, 22 were selected for larger-scale genotyping based on location (SNPs ...
A Novel Mouse Chromosome 17 Hybrid Sterility Locus
... within a M. spretus background causes sterility, however, the same combination of chromosome 17 homologs does not cause sterility within the M.domesticus background. This is a case of asymmetrical hybrid sterility. Through an analysis of recombinant chromosomes, it was possible to map the M. domesti ...
... within a M. spretus background causes sterility, however, the same combination of chromosome 17 homologs does not cause sterility within the M.domesticus background. This is a case of asymmetrical hybrid sterility. Through an analysis of recombinant chromosomes, it was possible to map the M. domesti ...
DP reactive antibody in a zero mismatch renal transplant pair
... and positive B-cell crossmatch. He has undergone a number of rejection crises and has experienced many other complications, because he could not be treated aggressively with appropriate immunosuppressive therapy given his HIV positive status. As of this writing, his serum creatinine continues to inc ...
... and positive B-cell crossmatch. He has undergone a number of rejection crises and has experienced many other complications, because he could not be treated aggressively with appropriate immunosuppressive therapy given his HIV positive status. As of this writing, his serum creatinine continues to inc ...
Genetic diversity and epidemiology of infectious hematopoietic
... for each of the 42 virus isolates (Fig. 2).The midG gene region was selected for sequencing since it contains a for each probe were reproducible for repeated RPA reactions of the same isolate. The sizes of the haploputative antigenic determinant and is a region of high type groups, defined as the nu ...
... for each of the 42 virus isolates (Fig. 2).The midG gene region was selected for sequencing since it contains a for each probe were reproducible for repeated RPA reactions of the same isolate. The sizes of the haploputative antigenic determinant and is a region of high type groups, defined as the nu ...
MHC Polymorphism
... 1. Extract data from SYFPEITHI and MHCpep databases 2. Construct amino acid frequency vectors for each HLA molecule 3. Calculate distance between HLA molecules • The distance dij between two HLA molecules (i, j) is calculated as the sum over each position in the two motifs of one minus the normalize ...
... 1. Extract data from SYFPEITHI and MHCpep databases 2. Construct amino acid frequency vectors for each HLA molecule 3. Calculate distance between HLA molecules • The distance dij between two HLA molecules (i, j) is calculated as the sum over each position in the two motifs of one minus the normalize ...
Introductory genetics for veterinary students
... Is it reasonable to assume that the Q and q alleles will be alternatively “fixed” in the alternate F0 lines? Hence, that the QTL genotype of all F1 animals is the same? Especially when this is not the case for the SNP or microsatellite markers. This has lead to many erroneous conclusions of impr ...
... Is it reasonable to assume that the Q and q alleles will be alternatively “fixed” in the alternate F0 lines? Hence, that the QTL genotype of all F1 animals is the same? Especially when this is not the case for the SNP or microsatellite markers. This has lead to many erroneous conclusions of impr ...
Gene conversion rapidly generates major histocompatibility complex
... endemic to 13 island populations in three North Atlantic archipelagos (Fig. S1, Supporting information). A previous study revealed that this species has extremely low levels of genetic variation, with just one and four haplotypes at the mitochondrial control region and cytochrome b genes respectivel ...
... endemic to 13 island populations in three North Atlantic archipelagos (Fig. S1, Supporting information). A previous study revealed that this species has extremely low levels of genetic variation, with just one and four haplotypes at the mitochondrial control region and cytochrome b genes respectivel ...
SNP Discovery and Genotyping Workshop (PowerPoint)
... SNP Selection: Using Linkage Disequilibrium • SNP discovery data (i.e. population of samples with genotypes) • Find all correlated SNPs to minimize the total number of SNPs • Maintains genetic information (correlations) for that locus ...
... SNP Selection: Using Linkage Disequilibrium • SNP discovery data (i.e. population of samples with genotypes) • Find all correlated SNPs to minimize the total number of SNPs • Maintains genetic information (correlations) for that locus ...
Heba Rasmy Mohamed Abdel-Baset_chapter 3 HLA 28-09
... HLA antigens are the major determinants used by the body's immune system for recognition and differentiation of self from non-self. There are many different major histocompatibility (HLA) proteins, and each person possesses only a small, relatively unique set that is inherited from their parents (Sh ...
... HLA antigens are the major determinants used by the body's immune system for recognition and differentiation of self from non-self. There are many different major histocompatibility (HLA) proteins, and each person possesses only a small, relatively unique set that is inherited from their parents (Sh ...
An extreme cytoplasmic bottleneck in the modern European
... Burbank, possessed cpSSR haplotype A and comparisons with previous cpRFLP studies which included this cultivar (Hosaka & Hanneman 1988b; Waugh et al. 1990; Powell et al. 1993) con¢rm that the predominant A haplotype corresponds to the T-type cytoplasm. Between four and nine alleles were detected at ...
... Burbank, possessed cpSSR haplotype A and comparisons with previous cpRFLP studies which included this cultivar (Hosaka & Hanneman 1988b; Waugh et al. 1990; Powell et al. 1993) con¢rm that the predominant A haplotype corresponds to the T-type cytoplasm. Between four and nine alleles were detected at ...
HapTree-X: An integrative Bayesian framework for haplotype
... which contain the sequence of variant alleles inherited from each parent of the individual. As homozygous SNPs are irrelevant for phasing, we restrict ourselves to heterozygous SNPs (from now on referred to simply as a ‘SNP’) and we denote the set of these SNPs as S. We assume these SNPs to be biall ...
... which contain the sequence of variant alleles inherited from each parent of the individual. As homozygous SNPs are irrelevant for phasing, we restrict ourselves to heterozygous SNPs (from now on referred to simply as a ‘SNP’) and we denote the set of these SNPs as S. We assume these SNPs to be biall ...
does frequency-dependent selection with complex - GEPV
... resulting from nonequilibrium effects (Kato and Mukai 2004), or from selection at linked loci (Lane and Lawrence 1995). These analyses are flawed for several reasons, notably the fact that data from natural finite populations were used to test predictions derived assuming an infinite population, thu ...
... resulting from nonequilibrium effects (Kato and Mukai 2004), or from selection at linked loci (Lane and Lawrence 1995). These analyses are flawed for several reasons, notably the fact that data from natural finite populations were used to test predictions derived assuming an infinite population, thu ...
GWAS Identifies Classical HLA Alleles Associated with Susceptibility
... primarily European ancestry, and no pair was more closely related than at the level of first cousins. To explore the relationship between individual HLA alleles and susceptibility to infectious diseases we used HIBAG1, a statistical method combining a large database of individuals with known HLA all ...
... primarily European ancestry, and no pair was more closely related than at the level of first cousins. To explore the relationship between individual HLA alleles and susceptibility to infectious diseases we used HIBAG1, a statistical method combining a large database of individuals with known HLA all ...
Frequency of Cytokine polymorphisms in populations from
... in IL-2 (GG) and IL-6 (CC) in the African group has been previously noted [21], albeit in an African-American study. In terms of the Caucasian population, a low occurrence of the high producer IL-6 -174 genotype (GG) has been previously reported [21–23]. When comparing the Northern Ireland IL-2 data ...
... in IL-2 (GG) and IL-6 (CC) in the African group has been previously noted [21], albeit in an African-American study. In terms of the Caucasian population, a low occurrence of the high producer IL-6 -174 genotype (GG) has been previously reported [21–23]. When comparing the Northern Ireland IL-2 data ...
PowerPoint Presentation - No Slide Title
... SNP Discovery and Genotyping Strategies Debbie Nickerson - [email protected] • Overview of Variation in the Human Genome • SNP Discovery Strategies and Status • SNP Data in the PGAs ...
... SNP Discovery and Genotyping Strategies Debbie Nickerson - [email protected] • Overview of Variation in the Human Genome • SNP Discovery Strategies and Status • SNP Data in the PGAs ...
Association of KCNQ1, KCNE1, KCNH2 and SCN5A Polymorphisms
... large series are needed to elucidate whether or not this polymorphism is associated with QTc length. The alleles KCNE1 IVS2-128 A and KCNE2 rs2234916 G were very rare and the allele frequency was not significantly different between the two groups for any of them. Nevertheless, haplotype analysis of ...
... large series are needed to elucidate whether or not this polymorphism is associated with QTc length. The alleles KCNE1 IVS2-128 A and KCNE2 rs2234916 G were very rare and the allele frequency was not significantly different between the two groups for any of them. Nevertheless, haplotype analysis of ...
Glucose-6-Phosphate Dehydrogenase (GGPD) Mutations
... population of Taiwan. The finding that several polymorphic sites are located near or within the G6PD gene may provide a haplotype pattern that would enable us to analyze the linkage disequilibrium between mutations and polymorphisms. The F8C/G6PD (coagulation factor VIIIc/G6PD) haplotype” spanning t ...
... population of Taiwan. The finding that several polymorphic sites are located near or within the G6PD gene may provide a haplotype pattern that would enable us to analyze the linkage disequilibrium between mutations and polymorphisms. The F8C/G6PD (coagulation factor VIIIc/G6PD) haplotype” spanning t ...
Evolution of Functionally Diverse Alleles
... of the PAV taster and AVI nontaster haplotypes, and a low level of genetic differentiation among global populations (Wooding et al. 2004). The authors further suggest that patterns of diversity at this locus may be selectively advantageous as a means to detect and avoid bitter toxins in food (Woodin ...
... of the PAV taster and AVI nontaster haplotypes, and a low level of genetic differentiation among global populations (Wooding et al. 2004). The authors further suggest that patterns of diversity at this locus may be selectively advantageous as a means to detect and avoid bitter toxins in food (Woodin ...
Human Molecular Evolution Lecture 2
... Y chromosome haplotypes The tree indicates that Bonobo and Central chimps have similar levels of diversity, but that Western chimps have less diversity. ...
... Y chromosome haplotypes The tree indicates that Bonobo and Central chimps have similar levels of diversity, but that Western chimps have less diversity. ...
Haplotype - Biomedical Informatics
... These measures are defined for pairs of sites, but for some applications we might instead want to measure how strong LD is across an entire region that contains many polymorphic sites — for example, for testing whether the strength of LD differs significantly among loci or across populations, or wh ...
... These measures are defined for pairs of sites, but for some applications we might instead want to measure how strong LD is across an entire region that contains many polymorphic sites — for example, for testing whether the strength of LD differs significantly among loci or across populations, or wh ...
Multiple Less Common Genetic Variants Explain the Association of
... of precision due to addition of terms to the model. Interestingly, despite the biologic plausibility of a confounding effect, adjustment for hyperlipidemia and for TC, LDL-C, HDL-C, or TG did not confound tSNP associations nor did adjustment or stratification by ethnicity (data not shown). In haplot ...
... of precision due to addition of terms to the model. Interestingly, despite the biologic plausibility of a confounding effect, adjustment for hyperlipidemia and for TC, LDL-C, HDL-C, or TG did not confound tSNP associations nor did adjustment or stratification by ethnicity (data not shown). In haplot ...
Linear Dominance Relationship among Four Class
... enzyme, resulting in a wrinkled-seed character (Bhattacharyya et al. 1990). To date, dominant/recessive alleles have been isolated and characterized for many genes related to several phenomena in various plant species (Glazebrook 1999, Szymanski et al. 2000, Theisen 2001). The biological phenomena r ...
... enzyme, resulting in a wrinkled-seed character (Bhattacharyya et al. 1990). To date, dominant/recessive alleles have been isolated and characterized for many genes related to several phenomena in various plant species (Glazebrook 1999, Szymanski et al. 2000, Theisen 2001). The biological phenomena r ...
Diversity of Lactase Persistence Alleles in Ethiopia
... further genetic variants are likely to be functional, whether the different Ethiopian groups in our cohort carry private mutations, and whether the pattern of increased diversity of the enhancer region in lactose digesters that we detected previously is widespread in Ethiopia. We examine this divers ...
... further genetic variants are likely to be functional, whether the different Ethiopian groups in our cohort carry private mutations, and whether the pattern of increased diversity of the enhancer region in lactose digesters that we detected previously is widespread in Ethiopia. We examine this divers ...
comparative analysis of atp6 mitochondrial gene diversity in arabian
... hypothesis that the horses with variation in mtDNA genes may influence performance characteristics (Harrison and Turrion-Gomez 2006). Further studies have shown that the role of mitochondrial genes (mt genes) in the depletion of muscle ATP (adenosine triphosphate) content is far greater with long di ...
... hypothesis that the horses with variation in mtDNA genes may influence performance characteristics (Harrison and Turrion-Gomez 2006). Further studies have shown that the role of mitochondrial genes (mt genes) in the depletion of muscle ATP (adenosine triphosphate) content is far greater with long di ...
asSeq: A set of tools for the study of allele-specific RNA
... 8 and 10 of gene cluster chr10 100, and these two exons are part of gene ENSG00000107651. A gene cluster includes one or more genes that share at least one exon. This output file provides enough information for the study of gene expression at isoform level. However, we will not study RNA isoform exp ...
... 8 and 10 of gene cluster chr10 100, and these two exons are part of gene ENSG00000107651. A gene cluster includes one or more genes that share at least one exon. This output file provides enough information for the study of gene expression at isoform level. However, we will not study RNA isoform exp ...
A30-Cw5-B18-DR3-DQ2 (HLA Haplotype)
HLA A30-Cw5-B18-DR3-DQ2 (A30::DQ2) is a multigene haplotype that extends across a majority of the major histocompatibility complex on human chromosome 6. A multigene haplotype is a set of inherited alleles covering several genes, or gene-alleles. Long haplotypes, like A30::DQ2, are generally the result of descent by common ancestry. As haplotypes increase in size, Chromosomal recombination fragments them in a generation dependent process.A30::DQ2 can be written in an extended form covering the major histocompatibility loci as follows: HLA A*3002 : Cw*0501 : B*1801 : DRB1*0301 : DQA1*0501 : DQB1*0201. There are several composite haplotypes, A30-Cw5-B18 and a variant A30-CBL-B18 comprise A30::B18, there is also the B18-DR3 component and the HLA DR3-DQ2.5. Other haplotypes such as Cw5-B16-DR3 or B8-DR3-DQ2.5 have been presented in the literature.A dozen inflammatory diseases of the immune system can attribute some risk to the haplotype. Some disease like coeliac disease primarily associate with certain genes. While other diseases, like type 1 diabetes may have several, highly different, genes that attribute risk. Still other diseases, like myasthenia gravis have undetermined linkage to the haplotype.Haplotypes of A30-B18 or Cw5-B18 have been studied (see allelefrequencies.net and IHWC 1991). Despite that large areas of Northern Africa have not been studies by HLA, A30::DQ2 appears to have originate southwest of is current mode in Sardinia. Gómez-Casado et al. (2000) observed that the haplotype is of likely paleo North African origin, and later studies of North Africa support that finding. Northern Iberians share with Sardinians a high frequency of the haplotype. However, there are some differences, linkage disequilibrium in Sardinians is highest whereas the Basque haplotype frequently has a different Cw allele indicating different origin for the haplotype.