Genetic, psychosocial, and demographic factors associated with
... indicators of behavioral disinhibition: nicotine, alcohol consumption, alcohol dependence, illicit drugs, and nonsubstance-related behavioral disinhibition. This study found only one SNP (rs1868152) that attained genomewide significance (P = 5 9 10 8), for the indicator of illicit drug use, but auth ...
... indicators of behavioral disinhibition: nicotine, alcohol consumption, alcohol dependence, illicit drugs, and nonsubstance-related behavioral disinhibition. This study found only one SNP (rs1868152) that attained genomewide significance (P = 5 9 10 8), for the indicator of illicit drug use, but auth ...
Lecture 2
... observations (gross errors/non-responding probes, etc) Possibly a further round of normalization (probe set level) as lab/cohort/batch effects are frequently still visible ...
... observations (gross errors/non-responding probes, etc) Possibly a further round of normalization (probe set level) as lab/cohort/batch effects are frequently still visible ...
interPopula: a Python API to access the HapMap Project dataset
... The HapMap project [1] (http://hapmap.ncbi.nlm.nih. gov/) is an effort to identify and catalogue genetic similarities and differences in humans. The project makes information available on single nucleotide polymorphisms (SNPs), and it more recently added information on copy number variation (CNV). H ...
... The HapMap project [1] (http://hapmap.ncbi.nlm.nih. gov/) is an effort to identify and catalogue genetic similarities and differences in humans. The project makes information available on single nucleotide polymorphisms (SNPs), and it more recently added information on copy number variation (CNV). H ...
False Discovery or Missed Discovery
... into the analysis. • Consider formal procedure for using prior information: • Genes targeted due to linkage • Genes in biological pathways ...
... into the analysis. • Consider formal procedure for using prior information: • Genes targeted due to linkage • Genes in biological pathways ...
CTLA4 gene polymorphisms are associated with chronic bronchitis
... whether CTLA4 SNPs were associated with COPD and COPDrelated phenotypes in a subset of the International COPD Genetics Network (ICGN) population, a large cohort of COPD probands (n5606) and siblings (n51,285), whose methodological details have been described elsewhere [23–25]. Secondly, we attempted ...
... whether CTLA4 SNPs were associated with COPD and COPDrelated phenotypes in a subset of the International COPD Genetics Network (ICGN) population, a large cohort of COPD probands (n5606) and siblings (n51,285), whose methodological details have been described elsewhere [23–25]. Secondly, we attempted ...
Quantitative Genetics and Multifactorial Traits
... o We can also use individuals with different degrees of relatedness o Can compare results for monozygotic (MZ) twins vs. dizygotic (DZ) o H2 = 2(rMZ - rDZ) o Chromosomal regions that contain genes influencing quantitative traits are called quantitative trait loci (QTLs) o Mapping QTLs o This is a c ...
... o We can also use individuals with different degrees of relatedness o Can compare results for monozygotic (MZ) twins vs. dizygotic (DZ) o H2 = 2(rMZ - rDZ) o Chromosomal regions that contain genes influencing quantitative traits are called quantitative trait loci (QTLs) o Mapping QTLs o This is a c ...
No Slide Title
... Assuming HWE, the maximum possible % of heterozygous parents for biallelic system is 0.50. For an n allele system, it is H=(n-1)/n. More alleles more information. ...
... Assuming HWE, the maximum possible % of heterozygous parents for biallelic system is 0.50. For an n allele system, it is H=(n-1)/n. More alleles more information. ...
Evolution at multiple loci
... • Then offspring will strongly resemble parents • Suppose that differences are mostly due to environment • If offspring environment not similar to parental environment, then offspring do not closely resemble parents ...
... • Then offspring will strongly resemble parents • Suppose that differences are mostly due to environment • If offspring environment not similar to parental environment, then offspring do not closely resemble parents ...
Computational approaches to understanding the genetic
... Advances in DNA sequencing technology have resulted in the ability to generate genetic data at costs unimaginable even ten years ago. This has resulted in a tremendous amount of data, with large studies providing genotypes of hundreds of thousands of individuals at millions of genetic locations. Thi ...
... Advances in DNA sequencing technology have resulted in the ability to generate genetic data at costs unimaginable even ten years ago. This has resulted in a tremendous amount of data, with large studies providing genotypes of hundreds of thousands of individuals at millions of genetic locations. Thi ...
The plots show the decay of LD (y-axis) with physical
... (A) Screeplot of the amount of genetic variation explained by the first 76 K clusters (see Methods). (B) PCA analysis of both transects (green- north mito-A-bearing population, red- north mito-B-bearing population, purple- south mito-A-bearing population, blue- south mito-B-bearing population). (C) ...
... (A) Screeplot of the amount of genetic variation explained by the first 76 K clusters (see Methods). (B) PCA analysis of both transects (green- north mito-A-bearing population, red- north mito-B-bearing population, purple- south mito-A-bearing population, blue- south mito-B-bearing population). (C) ...
BSC 219
... One standard deviation from mean covers 66% of area Two standard deviations from mean covers 95% of area Three standard deviations from mean covers 99% of area Correlation Correlation: when two characteristics are correlated, a change in one characteristic is likely to be associated with a change in ...
... One standard deviation from mean covers 66% of area Two standard deviations from mean covers 95% of area Three standard deviations from mean covers 99% of area Correlation Correlation: when two characteristics are correlated, a change in one characteristic is likely to be associated with a change in ...
Quantitative_1
... Genotypic Values • At a single locus, it is t he average phenotype of those carrying the specified genotype ...
... Genotypic Values • At a single locus, it is t he average phenotype of those carrying the specified genotype ...
Genetic basis of flowering time variation in Arabidopsis thaliana
... activity was known and for which both transposon and SNPs had been characterized. After scoring all individuals for these mutations, I analyzed the data to determine whether there was a correlation between them and latitude. I also carried out a population genetics analyses to characterise the obser ...
... activity was known and for which both transposon and SNPs had been characterized. After scoring all individuals for these mutations, I analyzed the data to determine whether there was a correlation between them and latitude. I also carried out a population genetics analyses to characterise the obser ...
Final Report - Rufford Small Grants
... Abrolhos (0.26), and Ceará coast (0.25). Although other studied hawksbill feeding grounds commonly present higher haplotype diversities (around 0.6), our lower haplotype diversities could be a reflexion of small sample sizes at individual areas, hindering the detection of rarer haplotypes. Another p ...
... Abrolhos (0.26), and Ceará coast (0.25). Although other studied hawksbill feeding grounds commonly present higher haplotype diversities (around 0.6), our lower haplotype diversities could be a reflexion of small sample sizes at individual areas, hindering the detection of rarer haplotypes. Another p ...
Document
... • Meiosis is the basis of sexual reproduction • After meiotic division 2 gametes appear in the process • In reproduction two gametes conjugate to a zygote wich will become the new individual • Hence genetic information is shared between the parents in order to create new offspring ...
... • Meiosis is the basis of sexual reproduction • After meiotic division 2 gametes appear in the process • In reproduction two gametes conjugate to a zygote wich will become the new individual • Hence genetic information is shared between the parents in order to create new offspring ...
Genetic Algorithms (GAs)
... • (GA)s are a particular class of evolutionary algorithms that use techniques inspired by evolutionary biology such as inheritance, mutation, selection, and crossover (also called recombination). ...
... • (GA)s are a particular class of evolutionary algorithms that use techniques inspired by evolutionary biology such as inheritance, mutation, selection, and crossover (also called recombination). ...
Embryo Genome Profiling by Single-Cell
... Traditionally, multiplex PCR has been used to detect the pathogenic variants of an embryo with short tandem repeat markers in close proximity to the causative gene as a diagnosis backup. With the introduction of whole-genome amplification (WGA) to amplify the biopsied embryonic single cell, the comp ...
... Traditionally, multiplex PCR has been used to detect the pathogenic variants of an embryo with short tandem repeat markers in close proximity to the causative gene as a diagnosis backup. With the introduction of whole-genome amplification (WGA) to amplify the biopsied embryonic single cell, the comp ...
EDV- the Definition
... The relative distances (and similarities) between these varieties will, however, not change. Choice of marker technology is not crucial In several cases analysis of the same dataset with different technologies let to identical conclusions Any DNA marker technology can do the job as long as t ...
... The relative distances (and similarities) between these varieties will, however, not change. Choice of marker technology is not crucial In several cases analysis of the same dataset with different technologies let to identical conclusions Any DNA marker technology can do the job as long as t ...
ParSNP Hash
... frequencies for each population and combined population • Implement TajimasD module to calculate Tajima’s D • Implement GO module to annotate identified SNPs ...
... frequencies for each population and combined population • Implement TajimasD module to calculate Tajima’s D • Implement GO module to annotate identified SNPs ...
Class notes on epistasis and GWAI analysis
... genetic background, ethnicity, etc.) Special case of confounding factors: Population stratification is a systematic difference in allele frequencies between subpopulations in a population. The basic cause of population stratification is different genetic ancestry as a result of nonrandom mating betw ...
... genetic background, ethnicity, etc.) Special case of confounding factors: Population stratification is a systematic difference in allele frequencies between subpopulations in a population. The basic cause of population stratification is different genetic ancestry as a result of nonrandom mating betw ...
here. - Yongtao Guan
... at each core marker. Although the test was done at each marker, it is still a haplotype association method because the genetic relatedness at the core marker is quantified through (unspecified) local haplotypes. Comparing to existing haplotype association methods, hapQTL has the following advantages ...
... at each core marker. Although the test was done at each marker, it is still a haplotype association method because the genetic relatedness at the core marker is quantified through (unspecified) local haplotypes. Comparing to existing haplotype association methods, hapQTL has the following advantages ...
fitness function.
... the gene pool does not become too restricted. • In GAs it is carried out by randomly changing one or more of the alleles (bits) in an individual’s chromosome. • The probability of mutating a particular bit is typically very small (~ 0.001). ...
... the gene pool does not become too restricted. • In GAs it is carried out by randomly changing one or more of the alleles (bits) in an individual’s chromosome. • The probability of mutating a particular bit is typically very small (~ 0.001). ...
gabi - beet: the german sugar beet genome - assbt
... A SNP is a single base pair difference between two sequences derived of the same genetic locus, e g a gene, from two different plants. Fig. 3 shows part of a sequence from the same locus of 9 different plants differing by only one base in certain plants, a G/C SNP. GABI-BEET has adopted a panel of 1 ...
... A SNP is a single base pair difference between two sequences derived of the same genetic locus, e g a gene, from two different plants. Fig. 3 shows part of a sequence from the same locus of 9 different plants differing by only one base in certain plants, a G/C SNP. GABI-BEET has adopted a panel of 1 ...
Association Studies of Vascular Phenotypes
... the distance between the new mutation and the other marker. So markers that are closer to the new mutation are likely to be in stronger disequilibrium with it. Generations pass, more recombinations occur, and disequilibrium between the mutation and surrounding markers continually decreases. Eventual ...
... the distance between the new mutation and the other marker. So markers that are closer to the new mutation are likely to be in stronger disequilibrium with it. Generations pass, more recombinations occur, and disequilibrium between the mutation and surrounding markers continually decreases. Eventual ...
Tag SNP
A tag SNP is a representative single nucleotide polymorphism (SNP) in a region of the genome with high linkage disequilibrium that represents a group of SNPs called a haplotype. It is possible to identify genetic variation and association to phenotypes without genotyping every SNP in a chromosomal region. This reduces the expense and time of mapping genome areas associated with disease, since it eliminates the need to study every individual SNP. Tag SNPs are useful in whole-genome SNP association studies in which hundreds of thousands of SNPs across the entire genome are genotyped.