Last update: 06/22/2015 Page 1 of 7 Introduction to BLAST using
... Introduction to BLAST using human leptin Developed by Justin R. DiAngelo (Penn State Berks) and Alexis Nagengast (Widener University) What is BLAST?1 BLAST stands for Basic Local Alignment Search Tool and is a program that reports regions of similarity (at the nucleotide or protein level) between a ...
... Introduction to BLAST using human leptin Developed by Justin R. DiAngelo (Penn State Berks) and Alexis Nagengast (Widener University) What is BLAST?1 BLAST stands for Basic Local Alignment Search Tool and is a program that reports regions of similarity (at the nucleotide or protein level) between a ...
Microdeletions on the long arm of the Y chromosome
... than the DAZ and RBMY1A1 gene families. Initially, only three infertile men were identified with USP9Y deletions; however, all had the entire AZFa region deleted, and it is possible that other, unidentified genes may have also been involved in their infertility.43 The USP9Y gene shows homology to an ...
... than the DAZ and RBMY1A1 gene families. Initially, only three infertile men were identified with USP9Y deletions; however, all had the entire AZFa region deleted, and it is possible that other, unidentified genes may have also been involved in their infertility.43 The USP9Y gene shows homology to an ...
Manual
... Create an empty directory called 'psd_'. Where
is replaced by a descriptive label.
Copy the file 'chrom_l.mat' to this directory. This file contains a column
vector of chromosome lengths, and an example is included.
Copy the file 'annotation.mat' to this directory. Thi ...
... Create an empty directory called 'psd_
Continuous Representations of Time Series Gene Expression Data
... sampled data. These models, known as mixed-effect models [3] use spline estimation methods to construct a common class profile for their input data. Recently, James and Hastie [11] presented a reduced rank mixed effects model that was used for classifying medical time-series data. In this paper we e ...
... sampled data. These models, known as mixed-effect models [3] use spline estimation methods to construct a common class profile for their input data. Recently, James and Hastie [11] presented a reduced rank mixed effects model that was used for classifying medical time-series data. In this paper we e ...
S. latifolia sex-linked genes, p. 1 Evolutionary strata on
... electrophoresis, which can discriminate PCR products differing by as little as a single base pair (STREGE and LAGU 1991; SWERDLOW and GESTELAND 1990). To reduce the cost of primer synthesis, we used the approach originally designed for microsatellite genotyping (SCHUELKE 2000), with a universal forw ...
... electrophoresis, which can discriminate PCR products differing by as little as a single base pair (STREGE and LAGU 1991; SWERDLOW and GESTELAND 1990). To reduce the cost of primer synthesis, we used the approach originally designed for microsatellite genotyping (SCHUELKE 2000), with a universal forw ...
Characterization of PIR1, a GATA family transcription factor involved
... Notably, iron is particularly important for wood-degrading fungi. This metal not only plays a key role in the central metabolism, but also serves as critical cofactor of several of the enzymes that are involved in biomass conversion. Accordingly, iron plays a pivotal function in the heme-containing ...
... Notably, iron is particularly important for wood-degrading fungi. This metal not only plays a key role in the central metabolism, but also serves as critical cofactor of several of the enzymes that are involved in biomass conversion. Accordingly, iron plays a pivotal function in the heme-containing ...
Phylogenetic analysis of phytoplasmas based on sequences
... upon the 16S rDNA gene which is highly conserved throughout phytoplasma groups. In 2004, the IRPCM Phytoplasma/Spiroplasma Working Team – Phytoplasma taxonomy group proposed to accommodate phytoplasmas within the genus ‘Candidatus Phytoplasma’ gen. nov. in which the formal descriptions and species c ...
... upon the 16S rDNA gene which is highly conserved throughout phytoplasma groups. In 2004, the IRPCM Phytoplasma/Spiroplasma Working Team – Phytoplasma taxonomy group proposed to accommodate phytoplasmas within the genus ‘Candidatus Phytoplasma’ gen. nov. in which the formal descriptions and species c ...
A single-nucleotide polymorphism tagging set for human drug
... Carlson, C.S. et al. Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am. J. Hum. Genet. 74, 106−120 (2004). ...
... Carlson, C.S. et al. Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am. J. Hum. Genet. 74, 106−120 (2004). ...
The Rate and Tract Length of Gene Conversion between
... of gene conversion c to the point mutation rate typically ranges from 10 to 100, which is in agreement with estimates for several duplicates in Drosophila melaogaster [49,50]. There are many locus-specific estimates of c for a wide range of species including malaria parasite [51], plant [52], avian ...
... of gene conversion c to the point mutation rate typically ranges from 10 to 100, which is in agreement with estimates for several duplicates in Drosophila melaogaster [49,50]. There are many locus-specific estimates of c for a wide range of species including malaria parasite [51], plant [52], avian ...
Molecular Microbial Ecology of the Rhizosphere
... like sequences, and direct repeats, are indicative of horizontal gene transfer (Chen et al., 2007). The approximately 150 genes only occurring in the plant-associated subspecies “plantarum” were found mainly clustered in the GIs. Generally, such genes are termed singletons, meaning that no orthologo ...
... like sequences, and direct repeats, are indicative of horizontal gene transfer (Chen et al., 2007). The approximately 150 genes only occurring in the plant-associated subspecies “plantarum” were found mainly clustered in the GIs. Generally, such genes are termed singletons, meaning that no orthologo ...
A newly discovered human -globin gene
... The divergence of ancestral ␣- and -globin genes is estimated to have occurred 500 million years ago. Those genes subsequently evolved and were modified by a variety of genetic processes, including duplication events.1 In humans, the ␣-globin gene family resides on chromosome 16p13.3 and is compose ...
... The divergence of ancestral ␣- and -globin genes is estimated to have occurred 500 million years ago. Those genes subsequently evolved and were modified by a variety of genetic processes, including duplication events.1 In humans, the ␣-globin gene family resides on chromosome 16p13.3 and is compose ...
Regulation of Heat-Shock Response in Bacteria
... is characterized by the induction of many proteins in response to change in temperature. The same proteins are also induced by a variety of environmental stress conditions, such as the addition of ethanol or heavy metals. Therefore, it can be concluded that this response is a stress response and not ...
... is characterized by the induction of many proteins in response to change in temperature. The same proteins are also induced by a variety of environmental stress conditions, such as the addition of ethanol or heavy metals. Therefore, it can be concluded that this response is a stress response and not ...
Ontogenomic study of the relationship between number of gene
... Motivation: Splice variation plays important roles in evolution and cancer. Different splice variants of a gene may be characteristic of particular cellular processes, subcellular locations or organs. Although several genomic projects have identified splice variants, there have been no large-scale co ...
... Motivation: Splice variation plays important roles in evolution and cancer. Different splice variants of a gene may be characteristic of particular cellular processes, subcellular locations or organs. Although several genomic projects have identified splice variants, there have been no large-scale co ...
Epigenetic Regulation of Ig and Variability and Exclusion in Host and
... the VH gene segments remain hypoacetylated (20). This apparently accounts for DH to JH recombination occurring first during B cell development. To activate VH genes for rearrangement, the region requires the removal of repressive methylation marks such as methylation of histone H3 on lysine 9. Evide ...
... the VH gene segments remain hypoacetylated (20). This apparently accounts for DH to JH recombination occurring first during B cell development. To activate VH genes for rearrangement, the region requires the removal of repressive methylation marks such as methylation of histone H3 on lysine 9. Evide ...
mart
... result when repeating analyses • more information • one needs to know about the structure of the database, the API of the webservice etc. ...
... result when repeating analyses • more information • one needs to know about the structure of the database, the API of the webservice etc. ...
Guidelines for Gene Expression Patterns papers
... (1) Is this manuscript appropriate for MOD or for Gene Expression Patterns (GEP)? Does the ms. contain cloning and/or gene expression data? ...
... (1) Is this manuscript appropriate for MOD or for Gene Expression Patterns (GEP)? Does the ms. contain cloning and/or gene expression data? ...
RNA-Mediated Programming of Developmental
... of ⬍15 cphg. No significant difference was observed among the three forms of the injected molecule. In this experiment, two highly injected clones showed only a moderate reduction in A gene copy numbers (Fig. 1A). Interestingly, these were the only clones to express the A gene at the time of autogam ...
... of ⬍15 cphg. No significant difference was observed among the three forms of the injected molecule. In this experiment, two highly injected clones showed only a moderate reduction in A gene copy numbers (Fig. 1A). Interestingly, these were the only clones to express the A gene at the time of autogam ...
Backcross Breeding
... genes that may be linked • Recombination fraction has a profound impact: with c=0.5, P(undesirable gene will be eliminated) with 5 BC is 0.98 • with c=0.02, P(undesirable gene will be eliminated) with 5 BC is 0.11 ...
... genes that may be linked • Recombination fraction has a profound impact: with c=0.5, P(undesirable gene will be eliminated) with 5 BC is 0.98 • with c=0.02, P(undesirable gene will be eliminated) with 5 BC is 0.11 ...
Evolution of Gene Order and Chromosome Number in
... The extent to which the order of genes along chromosomes is conserved between Saccharomyces cerevisiae and related species was studied by analysing data from DNA sequence databases. As expected, the extent of gene order conservation decreases with increasing evolutionary distance. About 59% of adjac ...
... The extent to which the order of genes along chromosomes is conserved between Saccharomyces cerevisiae and related species was studied by analysing data from DNA sequence databases. As expected, the extent of gene order conservation decreases with increasing evolutionary distance. About 59% of adjac ...
The enduracidin biosynthetic gene cluster from
... The biosynthetic gene cluster for the 17 aa peptide antibiotic enduracidin has been cloned and sequenced from Streptomyces fungicidicus ATCC 21013. The 84 kb gene cluster contains 25 ORFs and is located within a 116 kb genetic locus that was fully sequenced. Targeted disruption of non-ribosomal pept ...
... The biosynthetic gene cluster for the 17 aa peptide antibiotic enduracidin has been cloned and sequenced from Streptomyces fungicidicus ATCC 21013. The 84 kb gene cluster contains 25 ORFs and is located within a 116 kb genetic locus that was fully sequenced. Targeted disruption of non-ribosomal pept ...
FocalScan: Scanning for altered genes in cancer based on
... Positive selection acting on a specific cancer driver gene may lead to copy number alterations that recur in many independent tumor samples. For these changes to be functional, they should also be associated with a consistent effect on the expression of this gene. In addition, focally altered region ...
... Positive selection acting on a specific cancer driver gene may lead to copy number alterations that recur in many independent tumor samples. For these changes to be functional, they should also be associated with a consistent effect on the expression of this gene. In addition, focally altered region ...
SERIES ‘‘GENETICS OF ASTHMA AND COPD IN THE POSTGENOME ERA’’
... polymorphisms determine risk for the disease in a context-dependent manner, i.e. they interact with environmental factors, with polymorphisms in other genes and with the specific developmental phase of the disease in which the association is tested. Elucidating these complex interactions will allow ...
... polymorphisms determine risk for the disease in a context-dependent manner, i.e. they interact with environmental factors, with polymorphisms in other genes and with the specific developmental phase of the disease in which the association is tested. Elucidating these complex interactions will allow ...
Monooxygenases in the Butane and Cyclohexane Degradation
... until now. Studies indicated that this enzyme could be related to the soluble butane monooxygenase. The cyclohexane pathway contains a second monooxygenase, type: Baeyer-Villiger monooxygenase (BVO). The sequences of many of these enzymes are published, their sequences are diverse. The enrichment of ...
... until now. Studies indicated that this enzyme could be related to the soluble butane monooxygenase. The cyclohexane pathway contains a second monooxygenase, type: Baeyer-Villiger monooxygenase (BVO). The sequences of many of these enzymes are published, their sequences are diverse. The enrichment of ...
Genetic Techniques for Biological Research Chapter8
... Information suppressors aremutations ingenesinvolvedin the transmission of information from DNA to protein.As such, they act by improving the expression of the mutant gene. Moreover, an information suppressorwill suppress any other gene, even those that are functionally unrelated to the original mut ...
... Information suppressors aremutations ingenesinvolvedin the transmission of information from DNA to protein.As such, they act by improving the expression of the mutant gene. Moreover, an information suppressorwill suppress any other gene, even those that are functionally unrelated to the original mut ...
Phylogenetic relationship of phototrophic purple sulfur bacteria
... (medium for marine isolates contained 2% NaCl). After inoculation, the bottles were stored in the dark for several hours. They were then exposed to light from a tungsten lamp (500–700 lux) and incubated at 25°C until turbidity was visible. To keep the concentration of toxic sulfide in the cultures l ...
... (medium for marine isolates contained 2% NaCl). After inoculation, the bottles were stored in the dark for several hours. They were then exposed to light from a tungsten lamp (500–700 lux) and incubated at 25°C until turbidity was visible. To keep the concentration of toxic sulfide in the cultures l ...