Genetic Testing, Including Chromosomal Microarray
... detect balanced CNVs (equal exchange of material between chromosomes) or sequence inversions (same sequence is present in reverse base pair order) because the fluorescence intensity would not change. SNPs are the most common genetic variation among people and occur normally throughout the DNA. Each ...
... detect balanced CNVs (equal exchange of material between chromosomes) or sequence inversions (same sequence is present in reverse base pair order) because the fluorescence intensity would not change. SNPs are the most common genetic variation among people and occur normally throughout the DNA. Each ...
Chapter 10: DIPLOIDY
... In 1992, R.E. Smith & D.E. Goldberg extended their research and examined the effects of diploid representations and dominance operators in genetic algorithms applied to nonstationary search problems. Analytical and experimental evidence showed that a diploid GA maintained extra diversity at loci whe ...
... In 1992, R.E. Smith & D.E. Goldberg extended their research and examined the effects of diploid representations and dominance operators in genetic algorithms applied to nonstationary search problems. Analytical and experimental evidence showed that a diploid GA maintained extra diversity at loci whe ...
Transposable elements activity reveals punctuated
... coefficients and significant P-values. Therefore, these results suggest a general association between TEs activity and speciation events. It is tempting to speculate that the repertoire of TEs present in a given genome might directly influence its capability to diversify. On the other hand, adaptive ...
... coefficients and significant P-values. Therefore, these results suggest a general association between TEs activity and speciation events. It is tempting to speculate that the repertoire of TEs present in a given genome might directly influence its capability to diversify. On the other hand, adaptive ...
The importance of alternative splicing in the drug discovery process
... The possible consequences of designing probes for an alternatively spliced gene without considering alternative splicing can be inferred from Figure 2. Taking the probe from the region common to both variants (Fig. 2b, probe C) will produce a combined signal for both transcripts, which will be espec ...
... The possible consequences of designing probes for an alternatively spliced gene without considering alternative splicing can be inferred from Figure 2. Taking the probe from the region common to both variants (Fig. 2b, probe C) will produce a combined signal for both transcripts, which will be espec ...
- Department of Molecular Biology and Genetics, Faculty
... • They are usually used in ‘two colour competitive hybridisations’ involving differently labled ‘experimental’ and ‘reference’ samples • They can be relatively easily made ‘in house’ and as time has progressed they have become cheaper ...
... • They are usually used in ‘two colour competitive hybridisations’ involving differently labled ‘experimental’ and ‘reference’ samples • They can be relatively easily made ‘in house’ and as time has progressed they have become cheaper ...
VCS: Tool for Visualizing Copy Number Variation and Single Nucleotide Polymorphism
... sequences such as SINE, LINE, LTR, and simple repeat around the CNV. Log2 ratio distribution visualization The VCS plots log2 ratio of CNV with insertions and deletions that are more conspicuous. The log2 values are plotted at the middle position of CNV regions across the chromosome. Several web dat ...
... sequences such as SINE, LINE, LTR, and simple repeat around the CNV. Log2 ratio distribution visualization The VCS plots log2 ratio of CNV with insertions and deletions that are more conspicuous. The log2 values are plotted at the middle position of CNV regions across the chromosome. Several web dat ...
Documentation - Broad Institute
... RC454 is a tool to clean 454 reads based on their alignment to a reference consensus assembly. The correction process is aggressive, and as such requires an assembly that is highly representative of the population represented by the read data. It is highly recommended that the user use a de novo ass ...
... RC454 is a tool to clean 454 reads based on their alignment to a reference consensus assembly. The correction process is aggressive, and as such requires an assembly that is highly representative of the population represented by the read data. It is highly recommended that the user use a de novo ass ...
hered master 4..hered 285 .. Page78
... characters governed by gene combinations, including recessive alleles, that are otherwise only rarely or never observed. This enables us to identify and select for such hidden traits. We describe here how androgenesis of a very amenable ÅFestulolium pentaploid hybrid genotype which gave rise to a po ...
... characters governed by gene combinations, including recessive alleles, that are otherwise only rarely or never observed. This enables us to identify and select for such hidden traits. We describe here how androgenesis of a very amenable ÅFestulolium pentaploid hybrid genotype which gave rise to a po ...
Contig annotation tool CAT robustly classifies assembled
... questions in metagenomics (Handelsman, 2004) i.e. "Who is there?" and "What are they doing?". Read mapping considers each read as an independent observation, whose taxonomic origin and functional class can be estimated by identifying the closest match in a reference database, and tallying these ann ...
... questions in metagenomics (Handelsman, 2004) i.e. "Who is there?" and "What are they doing?". Read mapping considers each read as an independent observation, whose taxonomic origin and functional class can be estimated by identifying the closest match in a reference database, and tallying these ann ...
Gepard: a rapid and sensitive tool for creating dotplots on genome
... A novel functionality of the Gepard project is a client–server dotplot mode. The server provides all publicly available genomes including functional annotations of the genes. This feature allows the user to rapidly compare different genomes interactively without need to download any data manually. ...
... A novel functionality of the Gepard project is a client–server dotplot mode. The server provides all publicly available genomes including functional annotations of the genes. This feature allows the user to rapidly compare different genomes interactively without need to download any data manually. ...
Physical Mapping of a 670-kb Region of Chromosomes XVI and XVII
... To test whether the YAC clones harboring genes h49 and jl8 are mitotically stable in long term cultures, they were grown for 75 generations and examined by Southern blot analysis. No rearrangements were observed suggesting the YAC clones are propagated faithfully during mitosis. This observation was ...
... To test whether the YAC clones harboring genes h49 and jl8 are mitotically stable in long term cultures, they were grown for 75 generations and examined by Southern blot analysis. No rearrangements were observed suggesting the YAC clones are propagated faithfully during mitosis. This observation was ...
HapTree-X: An integrative Bayesian framework for haplotype
... As more sequencing data becomes available [5], we seek to design efficient algorithms to obtain accurate and comprehensive phase information directly from transcriptomic, as well as the commonly-used genomic, NGS read data. Transcriptome sequencing data differs from genomic read data in that genes o ...
... As more sequencing data becomes available [5], we seek to design efficient algorithms to obtain accurate and comprehensive phase information directly from transcriptomic, as well as the commonly-used genomic, NGS read data. Transcriptome sequencing data differs from genomic read data in that genes o ...
A program for annotating and predicting the effects of single
... genome sequences. Once a genome is sequenced, the SnpEff program can be used to annotate and classify genetic polymorphisms based on their effects on annotated genes, such as synonymous or non-synonymous SNPs, start codon gains or losses, stop codon gains or losses; or based on their genomic locatio ...
... genome sequences. Once a genome is sequenced, the SnpEff program can be used to annotate and classify genetic polymorphisms based on their effects on annotated genes, such as synonymous or non-synonymous SNPs, start codon gains or losses, stop codon gains or losses; or based on their genomic locatio ...
Compressed q-gram Indexing for Highly Repetitive Biological
... sequence accounting for the common parts of the genomes of all humans. Less than one decade later, DNA sequencing technologies have become so fast and cost-effective that sequencing individual genomes will soon become a common task [1], [2], [3]. Huge DNA collections are at the next corner. The comp ...
... sequence accounting for the common parts of the genomes of all humans. Less than one decade later, DNA sequencing technologies have become so fast and cost-effective that sequencing individual genomes will soon become a common task [1], [2], [3]. Huge DNA collections are at the next corner. The comp ...
Array-based sequencing of filaggrin gene for
... determine risk predictions is essential, whether for research studies or clinical trials. Therefore a fast, robust, comprehensive and affordable method for FLG coding DNA sequence (CDS) analysis is required. To date, most FLG studies have taken the approach of targeted screening for the predominant ...
... determine risk predictions is essential, whether for research studies or clinical trials. Therefore a fast, robust, comprehensive and affordable method for FLG coding DNA sequence (CDS) analysis is required. To date, most FLG studies have taken the approach of targeted screening for the predominant ...
software development and application in bioinformatics: single
... over another? It is also an important step toward implementing more accurate and more efficient algorithms for SNPs detection. This work can also be used toward improving an already existing application. I present some of the most commonly used applications for SNP discovery as well as how and when ...
... over another? It is also an important step toward implementing more accurate and more efficient algorithms for SNPs detection. This work can also be used toward improving an already existing application. I present some of the most commonly used applications for SNP discovery as well as how and when ...
Work1
... Representation length – is a number of bits for each X in the phenotype (so the length of the genome is 3 times this number). Pm and Pc is the probabilities as defined in the genetic algorithms. Average fitness is the average fitness of the last generation. The phenotype presented as vector of 3 nu ...
... Representation length – is a number of bits for each X in the phenotype (so the length of the genome is 3 times this number). Pm and Pc is the probabilities as defined in the genetic algorithms. Average fitness is the average fitness of the last generation. The phenotype presented as vector of 3 nu ...
Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)
... biologically generated methane to the atmosphere. Despite their importance, and in contrast to organisms that play roles in other major parts of the carbon cycle such as photosynthesis, no genome-level studies have been published on the biology of methanotrophs. We report the first complete genome s ...
... biologically generated methane to the atmosphere. Despite their importance, and in contrast to organisms that play roles in other major parts of the carbon cycle such as photosynthesis, no genome-level studies have been published on the biology of methanotrophs. We report the first complete genome s ...
Fifteen years of genomewide scans for selection: trends, lessons
... Taking a broad view of biodiversity and ecological circumstance, two extreme possibilities might be found among this catalogue of recent GWSS: (i) GWSS identify a disparate array of selective targets with little overlap © 2015 John Wiley & Sons Ltd ...
... Taking a broad view of biodiversity and ecological circumstance, two extreme possibilities might be found among this catalogue of recent GWSS: (i) GWSS identify a disparate array of selective targets with little overlap © 2015 John Wiley & Sons Ltd ...
A natural chimeric yeast containing genetic material from three species
... sequences of Saccharomyces sp. CID1 and Saccharomyces sp. IFO 1802 were identical. Also, the ATP9 sequences from S. pastorianus and S. bayanus were identical, while the sequences of other Saccharomyces species were different (Fig. 2). The data on the coding regions of the ATP8 and ATP9 genes suggest ...
... sequences of Saccharomyces sp. CID1 and Saccharomyces sp. IFO 1802 were identical. Also, the ATP9 sequences from S. pastorianus and S. bayanus were identical, while the sequences of other Saccharomyces species were different (Fig. 2). The data on the coding regions of the ATP8 and ATP9 genes suggest ...
Bioinformatik - Chair of Computational Biology
... evidence for every metabolic reaction included in the in silico representation, and in most cases, there exists both. ...
... evidence for every metabolic reaction included in the in silico representation, and in most cases, there exists both. ...
"Frontmatter". In: Plant Genomics and Proteomics
... comparable processes of pattern formation and the underlying genes appear to be similar, the actual mechanisms of getting to the end points of development are different. Once again, this reinforces the need to look specifically at the plant processes in order to understand how plants function. One o ...
... comparable processes of pattern formation and the underlying genes appear to be similar, the actual mechanisms of getting to the end points of development are different. Once again, this reinforces the need to look specifically at the plant processes in order to understand how plants function. One o ...
Obtaining genetic testing in pediatric epilepsy
... sequence a list of genes known to be associated with a specific phenotype (e.g., X-linked intellectual disability, infantile onset epilepsy, etc.). As research increases our understanding, new genes are often added to the list. WES offers a broad evaluation for genetic variation by sequencing most o ...
... sequence a list of genes known to be associated with a specific phenotype (e.g., X-linked intellectual disability, infantile onset epilepsy, etc.). As research increases our understanding, new genes are often added to the list. WES offers a broad evaluation for genetic variation by sequencing most o ...
Horizontal transfer of non-LTR retrotransposons: artifact or rare event
... orthologs along with varying rates of their sequence evolution are the main sources for incongruence in phylogenetic analysis, which could be misidentified as HT. The second criterion, which seems to offer the strongest evidence, is a higher degree of observed sequence similarity for TEs than for fu ...
... orthologs along with varying rates of their sequence evolution are the main sources for incongruence in phylogenetic analysis, which could be misidentified as HT. The second criterion, which seems to offer the strongest evidence, is a higher degree of observed sequence similarity for TEs than for fu ...
Multifractal characterisation of length sequences of coding and
... results, as they all look into only a certain aspect of the entire DNA sequence [12]. The avoided and under-represented strings in some bacterial complete genomes have been discussed [13–15]. A time series model of CDS in complete genome has been proposed [16]. Vieira [17] performed a low-frequency ...
... results, as they all look into only a certain aspect of the entire DNA sequence [12]. The avoided and under-represented strings in some bacterial complete genomes have been discussed [13–15]. A time series model of CDS in complete genome has been proposed [16]. Vieira [17] performed a low-frequency ...
Whole genome sequencing
Whole genome sequencing (also known as full genome sequencing, complete genome sequencing, or entire genome sequencing) is a laboratory process that determines the complete DNA sequence of an organism's genome at a single time. This entails sequencing all of an organism's chromosomal DNA as well as DNA contained in the mitochondria and, for plants, in the chloroplast.Whole genome sequencing should not be confused with DNA profiling, which only determines the likelihood that genetic material came from a particular individual or group, and does not contain additional information on genetic relationships, origin or susceptibility to specific diseases. Also unlike full genome sequencing, SNP genotyping covers less than 0.1% of the genome. Almost all truly complete genomes are of microbes; the term ""full genome"" is thus sometimes used loosely to mean ""greater than 95%"". The remainder of this article focuses on nearly complete human genomes.High-throughput genome sequencing technologies have largely been used as a research tool and are currently being introduced in the clinics. In the future of personalized medicine, whole genome sequence data will be an important tool to guide therapeutic intervention. The tool of gene sequencing at SNP level is also used to pinpoint functional variants from association studies and improve the knowledge available to researchers interested in evolutionary biology, and hence may lay the foundation for predicting disease susceptibility and drug response.