Dian Yang - A Critical Review of Gene Set Enrichment Analysis: Development and Improvement
... Taking the drawbacks into account, people think about improving the GSEA method. The Buhlmann group came up with an improved GSEA model in which they adapt the G ...
... Taking the drawbacks into account, people think about improving the GSEA method. The Buhlmann group came up with an improved GSEA model in which they adapt the G ...
Copy number variations involving the microtubule
... CNVs have been shown to be largely responsible for human evolution and genetic diversity between individuals, to a greater extent than SNPs (single nucleotide polymorphisms) [4,5]. However, when the deleted or duplicated regions encompass dosage-sensitive genes, rearrangements can lead to an abnorma ...
... CNVs have been shown to be largely responsible for human evolution and genetic diversity between individuals, to a greater extent than SNPs (single nucleotide polymorphisms) [4,5]. However, when the deleted or duplicated regions encompass dosage-sensitive genes, rearrangements can lead to an abnorma ...
- Wiley Online Library
... the chromosomal background of -thalassemia mutations in several human populations. The eastern region of India is not well characterized in this regard. The Bengali population from the state of West Bengal has been the subject of our study. It is an admixture of native people with later migrants wh ...
... the chromosomal background of -thalassemia mutations in several human populations. The eastern region of India is not well characterized in this regard. The Bengali population from the state of West Bengal has been the subject of our study. It is an admixture of native people with later migrants wh ...
CancerBrowser_COAT2012
... The Cancer Genome Browser • OUTLINE – Slide show to introduce the Cancer Genomics Browser • What’s there? • How to visualize the data? • Tools – Live Demo • Basic setup • Breast cancer data – Using signatures – Microarray vs RNA-Seq – Comparing across datasets • GBM data – Genesets – What genes cor ...
... The Cancer Genome Browser • OUTLINE – Slide show to introduce the Cancer Genomics Browser • What’s there? • How to visualize the data? • Tools – Live Demo • Basic setup • Breast cancer data – Using signatures – Microarray vs RNA-Seq – Comparing across datasets • GBM data – Genesets – What genes cor ...
The use of marker-assisted selection in animal breeding and
... used probes for repeated sequences that occur within the genome. Mini-satellite repeated sequences are typically 20 bp to 50 bp in length, are often repeated many times at a particular locus, and may occur at 10 to 100 different sites in the genome. Variations in the number of repeats present at a p ...
... used probes for repeated sequences that occur within the genome. Mini-satellite repeated sequences are typically 20 bp to 50 bp in length, are often repeated many times at a particular locus, and may occur at 10 to 100 different sites in the genome. Variations in the number of repeats present at a p ...
The Evolutionary Consequences of Polyploidy
... yielding disomic inheritance. for a homologous chromoIncreased pairing fidelity may some pair to be lost or duplialso stem from genetic changes, cated among all members of such as at the Ph1 locus in wheat a population. In mammals (Griffiths et al., 2006). Thus, one and birds, ploidy changes cannot ...
... yielding disomic inheritance. for a homologous chromoIncreased pairing fidelity may some pair to be lost or duplialso stem from genetic changes, cated among all members of such as at the Ph1 locus in wheat a population. In mammals (Griffiths et al., 2006). Thus, one and birds, ploidy changes cannot ...
Missing Value Estimation for Gene Expression Profile Data
... MVs include removing the genes with MVs directly (case deletion), or replacing the MVs of a gene with zero or the average ...
... MVs include removing the genes with MVs directly (case deletion), or replacing the MVs of a gene with zero or the average ...
Individual eukaryotic genomes
... Individual eukaryotic genomes: the mouse Mus musculus M. musculus is the second mammal to have its genome sequenced. Mouse diverged from human 75 MYA. Distinguishing features: only 300 of 30,000 annotated genes have no human orthologs Genome size: 2.5 Gb (euchromatic portion)(cf. 2.9 Gb human) Chro ...
... Individual eukaryotic genomes: the mouse Mus musculus M. musculus is the second mammal to have its genome sequenced. Mouse diverged from human 75 MYA. Distinguishing features: only 300 of 30,000 annotated genes have no human orthologs Genome size: 2.5 Gb (euchromatic portion)(cf. 2.9 Gb human) Chro ...
Eigen-R2 for dissecting variation in high
... sometimes it is also desirable to calculate an average R2 , so that statements can be made about the overall proportion of variation in the response variables explained by variables of interest. One obvious choice is to simply take the mean of the R2 values, which we refer to as mean-R2 . However, t ...
... sometimes it is also desirable to calculate an average R2 , so that statements can be made about the overall proportion of variation in the response variables explained by variables of interest. One obvious choice is to simply take the mean of the R2 values, which we refer to as mean-R2 . However, t ...
Genetic and epigenetic dissection of cis regulatory
... eQTL and mQTL mapping Understanding the genetic architecture of variation in gene expression is now a popular method for attempts to dissect complex traits into component gene expression pathways [43]. The hypothesis that these intermediate traits are themselves more simply inherited is only beginni ...
... eQTL and mQTL mapping Understanding the genetic architecture of variation in gene expression is now a popular method for attempts to dissect complex traits into component gene expression pathways [43]. The hypothesis that these intermediate traits are themselves more simply inherited is only beginni ...
Chapter 8: Variations in Chromosome Number and
... 8.8 A duplication is a repeated segment of the genetic material When any part of the genetic material is present more than once in a genome, it is considered a duplication. They can arise due to unequal crossing over during meiosis or through a replication error before meiosis. Three aspects can b ...
... 8.8 A duplication is a repeated segment of the genetic material When any part of the genetic material is present more than once in a genome, it is considered a duplication. They can arise due to unequal crossing over during meiosis or through a replication error before meiosis. Three aspects can b ...
29 August 2002
... tackle some thorny problems concerning evolutionary change. A recent study comparing humans, rats and mice3, for example, suggested that the rate of sequence divergence in mammals has been different for different chromosomes. Preliminary comparisons between the human genome and a sample of chimp DNA ...
... tackle some thorny problems concerning evolutionary change. A recent study comparing humans, rats and mice3, for example, suggested that the rate of sequence divergence in mammals has been different for different chromosomes. Preliminary comparisons between the human genome and a sample of chimp DNA ...
The Geographic Distribution of Monoamine Oxidase Haplotypes
... pair for the MAOA gene and 0.007 substitution per intronic base pair for the MAOB gene. The diversity in exonic sequences was similar for the two genes with 0.003 substitution per exonic base pair and 0.004 substitution per exonic base pair for the MAOA and MAOB genes, respectively. To assess the po ...
... pair for the MAOA gene and 0.007 substitution per intronic base pair for the MAOB gene. The diversity in exonic sequences was similar for the two genes with 0.003 substitution per exonic base pair and 0.004 substitution per exonic base pair for the MAOA and MAOB genes, respectively. To assess the po ...
Gene Section NUP98 (nucleoporin 98 kDa) Atlas of Genetics and Cytogenetics
... Abnormal protein Fuses the GLFG repeat domains of NUP98 to the entire coding region of RAP1GDS1. The product, rap1gds, has guanine nucleotide exchange factor activity. ...
... Abnormal protein Fuses the GLFG repeat domains of NUP98 to the entire coding region of RAP1GDS1. The product, rap1gds, has guanine nucleotide exchange factor activity. ...
Powerpoint template for scientific poster
... Foundation of China (NSFC; no. 31170010) and by the Specialized Research Fund for the State Key Laboratories of China. ...
... Foundation of China (NSFC; no. 31170010) and by the Specialized Research Fund for the State Key Laboratories of China. ...
Formalizing the gene centered view of evolution
... of the genes during sexual reproduction results in a complete mixing of the possible alleles not just in each pair of mating organisms but rather throughout the species—the group of organisms that is mating and reproducing. Offspring are assumed to be selected from the ensemble which represents all p ...
... of the genes during sexual reproduction results in a complete mixing of the possible alleles not just in each pair of mating organisms but rather throughout the species—the group of organisms that is mating and reproducing. Offspring are assumed to be selected from the ensemble which represents all p ...
Presentation - Cloudfront.net
... Clusters of Orthologous Groups of proteins (COGs) were delineated by comparing protein sequences encoded in complete genomes, representing major phylogenetic lineages. Each COG consists of individual proteins or groups of paralogs from at least 3 lineages and thus corresponds to an ancient conserve ...
... Clusters of Orthologous Groups of proteins (COGs) were delineated by comparing protein sequences encoded in complete genomes, representing major phylogenetic lineages. Each COG consists of individual proteins or groups of paralogs from at least 3 lineages and thus corresponds to an ancient conserve ...
reviews - Docentes
... that are frequently found to be in phylogenetic agreement with one another and those that are frequently found to be phylogenetically discordant. They found that the phylogenetically discordant genes group T. maritima among the Archaea as a sister group to the Pyrococci. By contrast, the concordant ...
... that are frequently found to be in phylogenetic agreement with one another and those that are frequently found to be phylogenetically discordant. They found that the phylogenetically discordant genes group T. maritima among the Archaea as a sister group to the Pyrococci. By contrast, the concordant ...
Automatic detection of conserved gene clusters in
... considerable amount of juxtaposition of genes, but at the same time there is a tendency for short-range conservation of gene clusters (1–3). The conserved clusters are likely to represent functionally coupled genes, such as those forming operon structures for co-expression and/or those encoding phys ...
... considerable amount of juxtaposition of genes, but at the same time there is a tendency for short-range conservation of gene clusters (1–3). The conserved clusters are likely to represent functionally coupled genes, such as those forming operon structures for co-expression and/or those encoding phys ...
Table 7. Summary statistics for the consensus gene set of Haliotis
... of 1.86Gb with 35,450 scaffolds (>2kb). GC content level was 40.51%, and the N50 length of assembled scaffolds was 211kb. We identified 29,449 genes using Evidence Modeler based on the gene information from ab initio prediction, protein homology with known genes and transcriptome evidence of RNA-seq ...
... of 1.86Gb with 35,450 scaffolds (>2kb). GC content level was 40.51%, and the N50 length of assembled scaffolds was 211kb. We identified 29,449 genes using Evidence Modeler based on the gene information from ab initio prediction, protein homology with known genes and transcriptome evidence of RNA-seq ...
An Introduction to Genetic Analysis Chapter 14 Genomics Chapter
... nature of whole genomes; and functional genomics, characterizing the transcriptome (the entire range of transcripts produced by a given organism) and the proteome (the entire array of encoded proteins). The prime directive of structural genomic analysis is the complete and accurate elucidation of th ...
... nature of whole genomes; and functional genomics, characterizing the transcriptome (the entire range of transcripts produced by a given organism) and the proteome (the entire array of encoded proteins). The prime directive of structural genomic analysis is the complete and accurate elucidation of th ...
Find expression data for a tagged gene
... Fit this window into the upper left quadrant of your computer screen. Fit Stanford's FTFLP site into the upper right quadrant of your screen. On the FTFLP web site click Target Selection. Scroll down to Table 2. Find Category 2 and open the tab-delimited list to access a listing of 4000 short-listed ...
... Fit this window into the upper left quadrant of your computer screen. Fit Stanford's FTFLP site into the upper right quadrant of your screen. On the FTFLP web site click Target Selection. Scroll down to Table 2. Find Category 2 and open the tab-delimited list to access a listing of 4000 short-listed ...
Whole-Genome Sequence and Variant Analysis of W303, a Widely
... WRZESINSKA et al. 2001). Additionally, certain alleles of the SWI-SNF global transcription activator complex contribute to slow growth in the W303 background, but are lethal in S288C (CAIRNS et al. 1998). Given these differences, an understanding of the precise variations at the nucleotide level be ...
... WRZESINSKA et al. 2001). Additionally, certain alleles of the SWI-SNF global transcription activator complex contribute to slow growth in the W303 background, but are lethal in S288C (CAIRNS et al. 1998). Given these differences, an understanding of the precise variations at the nucleotide level be ...
Copy-number variation
Copy-number variations (CNVs)—a form of structural variation—are alterations of the DNA of a genome that results in the cell having an abnormal or, for certain genes, a normal variation in the number of copies of one or more sections of the DNA. CNVs correspond to relatively large regions of the genome that have been deleted (fewer than the normal number) or duplicated (more than the normal number) on certain chromosomes. For example, the chromosome that normally has sections in order as A-B-C-D might instead have sections A-B-C-C-D (a duplication of ""C"") or A-B-D (a deletion of ""C"").This variation accounts for roughly 13% of human genomic DNA and each variation may range from about one kilobase (1,000 nucleotide bases) to several megabases in size. CNVs contrast with single-nucleotide polymorphisms (SNPs), which affect only one single nucleotide base.