iTagPlot: an accurate computation and interactive drawing tool for
... iTagPlot uses an annotated list of genomic features in the BED format coupled with BED or BAM files of mapped reads to generate a tag density plot of the given feature with flanking upstream and downstream regions, the length of which is predetermined by the user (Fig. 1). Because the length of upst ...
... iTagPlot uses an annotated list of genomic features in the BED format coupled with BED or BAM files of mapped reads to generate a tag density plot of the given feature with flanking upstream and downstream regions, the length of which is predetermined by the user (Fig. 1). Because the length of upst ...
Welcome to the Broad Institute
... gene sets including 113 pathways from internal curation and GenMAPP, and 36 tightly coexpressed clusters from a compendium of mouse gene expression data. These GSEA results appeared in Mootha et al. Nature Genetics 15 June 2003, vol. 34 no. 3 pp ...
... gene sets including 113 pathways from internal curation and GenMAPP, and 36 tightly coexpressed clusters from a compendium of mouse gene expression data. These GSEA results appeared in Mootha et al. Nature Genetics 15 June 2003, vol. 34 no. 3 pp ...
Slide 1 - Montville.net
... If the plasmid were digested with SaII, how many fragments would you get? ...
... If the plasmid were digested with SaII, how many fragments would you get? ...
Exploring a fatal outbreak of Escherichia coli using
... 12. Check each of the boxes next to the genome name from the organisms that were collected in 2011. ...
... 12. Check each of the boxes next to the genome name from the organisms that were collected in 2011. ...
The MUR1 gene of Arabidopsis thaliana encodes an isoform of GDP
... Putative Bacterial GDP-D-Mannose-4,6-Dehydratases. An EST (clone 90A12T7) that showed high sequence similarity to putative bacterial GDP-D-mannose-4,6-dehydratases was identified in the database of ESTs (dbEST; ref. 20). This clone was provided by the Arabidopsis Biological Resource Center, and its ...
... Putative Bacterial GDP-D-Mannose-4,6-Dehydratases. An EST (clone 90A12T7) that showed high sequence similarity to putative bacterial GDP-D-mannose-4,6-dehydratases was identified in the database of ESTs (dbEST; ref. 20). This clone was provided by the Arabidopsis Biological Resource Center, and its ...
幻灯片 1 - University of Texas at Austin
... •Although the structure of DNA is the same throughout all species of plants, animals and microorganisms, each individual organism looks different. •This is due to the order in which DNA base pairs are sequenced. •Not only does this order make you a human rather than a dog or a daffodil, it also make ...
... •Although the structure of DNA is the same throughout all species of plants, animals and microorganisms, each individual organism looks different. •This is due to the order in which DNA base pairs are sequenced. •Not only does this order make you a human rather than a dog or a daffodil, it also make ...
TOHEuroVA - Computer Science
... SNP is one of the most common genetic variants Each SNP represents one DNA nucleotide difference at a specific locus of two alleles. ◦ For example, a SNP may replace the nucleotide cytosine (C) with the nucleotide thymine (T) in a certain stretch of DNA ◦ An SNP is present every 300 nucleotides on a ...
... SNP is one of the most common genetic variants Each SNP represents one DNA nucleotide difference at a specific locus of two alleles. ◦ For example, a SNP may replace the nucleotide cytosine (C) with the nucleotide thymine (T) in a certain stretch of DNA ◦ An SNP is present every 300 nucleotides on a ...
here
... the future will be based primarily upon the sequences, structure, and relationships of molecules, the classical gross properties of cells and organisms being used largely to confirm and embellish these. It is only on the molecular level that we see the living world divide into three distinct primary ...
... the future will be based primarily upon the sequences, structure, and relationships of molecules, the classical gross properties of cells and organisms being used largely to confirm and embellish these. It is only on the molecular level that we see the living world divide into three distinct primary ...
Forensics of DNA
... individual cannot be __________________ as the ______________ of the DNA by any of the tests, a point is reached at which the tests have excluded virtually the world's _____________________ and the unique identification of that individual as the source of the DNA has been ________________. 4. Possib ...
... individual cannot be __________________ as the ______________ of the DNA by any of the tests, a point is reached at which the tests have excluded virtually the world's _____________________ and the unique identification of that individual as the source of the DNA has been ________________. 4. Possib ...
Agrobacterium-mediated DNA transfer, and then some
... appears to be a fundamental strategy of microbial adaptation, and phage may hold the key to DNA transmission. As with all microbial metagenomes11, Chistoserdova and colleagues1 identified high coverage of bacteriophage; other studies have shown that viromes encode extensive metabolic capabilities7. ...
... appears to be a fundamental strategy of microbial adaptation, and phage may hold the key to DNA transmission. As with all microbial metagenomes11, Chistoserdova and colleagues1 identified high coverage of bacteriophage; other studies have shown that viromes encode extensive metabolic capabilities7. ...
What is an Ontology?
... We can see how terms used in different datasets relate to each other. We can integrate datasets that are described using this common vocabulary. We can link data and make inferences between species – based on formalised rules and conditions. Automatic classification and reasoning about data is ...
... We can see how terms used in different datasets relate to each other. We can integrate datasets that are described using this common vocabulary. We can link data and make inferences between species – based on formalised rules and conditions. Automatic classification and reasoning about data is ...
CHARGE Region Probe - FISH Probes from Cytocell
... Analyte Specific Reagent: Analytical and performance characteristics are not established. ...
... Analyte Specific Reagent: Analytical and performance characteristics are not established. ...
human endogenous retroviral LTR
... One of the evolutionary mechanisms for acquisition of novel functional sequences can be domestication of exogenous retroviruses that have been integrated into the germ line. The whole genome mapping of such elements in various species could reveal differences in positions of the retroviral integrati ...
... One of the evolutionary mechanisms for acquisition of novel functional sequences can be domestication of exogenous retroviruses that have been integrated into the germ line. The whole genome mapping of such elements in various species could reveal differences in positions of the retroviral integrati ...
Package `AnnotationBustR`
... The AnnotationBust function takes a vector of accession numbers and a data frame of search terms and extracts subsequences from genomes or concatenated sequences. This function requires a steady internet connection. It writes files in the FASTA format to the working directory and returns an accessio ...
... The AnnotationBust function takes a vector of accession numbers and a data frame of search terms and extracts subsequences from genomes or concatenated sequences. This function requires a steady internet connection. It writes files in the FASTA format to the working directory and returns an accessio ...
Genomics of complex traits
... rare or nonexistent, due to a number of causes including incomplete penetrance, genetic heterogeneity, and most often, a genetic background consisting of multiple genes modifying the phenotype with minor effects. Generally, however, we reserve the term complex for phenotypes that are influenced by m ...
... rare or nonexistent, due to a number of causes including incomplete penetrance, genetic heterogeneity, and most often, a genetic background consisting of multiple genes modifying the phenotype with minor effects. Generally, however, we reserve the term complex for phenotypes that are influenced by m ...
adrian2004_1acbPosterDataAnalysis34by51
... Analysis Directions: • Ensure that the global p-value of a classifier is small. The p-value gives the number of times when a classifier built on randomized data is more accurate than the classifier built on the original data. A small p-value shows that the sensitivity and specificity of the classifi ...
... Analysis Directions: • Ensure that the global p-value of a classifier is small. The p-value gives the number of times when a classifier built on randomized data is more accurate than the classifier built on the original data. A small p-value shows that the sensitivity and specificity of the classifi ...
Page 1 Name KEY_______________________ Genetics C3032
... will get at least partial credit. The value of each question is indicated. 1. (20 Points) A series of DNA replication mutants were identified in E. coli. Given the described phenotypes, determine which enzyme is probably defective. Explain you answer. a. Strain A: Single Stranded Binding protein bin ...
... will get at least partial credit. The value of each question is indicated. 1. (20 Points) A series of DNA replication mutants were identified in E. coli. Given the described phenotypes, determine which enzyme is probably defective. Explain you answer. a. Strain A: Single Stranded Binding protein bin ...
visgenex_userguide2 - The Francis Crick Institute
... o Best Result – Intel 2.0ghz Dual core or higher, 10gb of RAM or higher, with Linux 64bit as the Operating System. These scripts can be quite resource intensive, due to the magnitude of microarray data most datasets will have at least 30,000 probes worth of data to begin with. The scripts should run ...
... o Best Result – Intel 2.0ghz Dual core or higher, 10gb of RAM or higher, with Linux 64bit as the Operating System. These scripts can be quite resource intensive, due to the magnitude of microarray data most datasets will have at least 30,000 probes worth of data to begin with. The scripts should run ...
Comparative genomics exercises - Genome curation on emerging
... homologous regions were identified using TBLASTX (NCBI BLAST). Files used: Sequence files (downloaded from GenBank): ref4.fasta (reference) qry4.fasta (query) Annotation files (downloaded from GenBank; provided): * ref4.txt * qry4.txt # The download option for the annotation files is ‘GenBank(Full)’ ...
... homologous regions were identified using TBLASTX (NCBI BLAST). Files used: Sequence files (downloaded from GenBank): ref4.fasta (reference) qry4.fasta (query) Annotation files (downloaded from GenBank; provided): * ref4.txt * qry4.txt # The download option for the annotation files is ‘GenBank(Full)’ ...
Convergent_Evolution_instructor_edited
... cladograms built on other derived traits. However, when BLAST searches are done on the prestin amino acid sequence, and a cladogram is constructed, students may deduce the prestin gene of bats and cetaceans shared a “common ancestor” more recently than other mammals, a result that contradicts their ...
... cladograms built on other derived traits. However, when BLAST searches are done on the prestin amino acid sequence, and a cladogram is constructed, students may deduce the prestin gene of bats and cetaceans shared a “common ancestor” more recently than other mammals, a result that contradicts their ...
Plasmodium malariae and P. ovale genomes provide insights into
... P. reichenowi8. In both cases, the lack of diversity in human-infective species suggests recent population expansions. However, we found that a species that infects New World primates termed P. brasilianum was indistinguishable from P. malariae (Extended Data Fig. 2b), as previously suggested9. Thu ...
... P. reichenowi8. In both cases, the lack of diversity in human-infective species suggests recent population expansions. However, we found that a species that infects New World primates termed P. brasilianum was indistinguishable from P. malariae (Extended Data Fig. 2b), as previously suggested9. Thu ...
Analysis of a piwi-related Gene Implicates Small RNAs in
... 1.The next slide describes the enzymatic machineries that are likely to be involved in IES elimination by the scnRNA mechanism. 2. Evidence demonstrating the nature of the RNA polymerase and the RNAse III (dicer) were presented at the meeting. However, these data are unpublished and making this pre ...
... 1.The next slide describes the enzymatic machineries that are likely to be involved in IES elimination by the scnRNA mechanism. 2. Evidence demonstrating the nature of the RNA polymerase and the RNAse III (dicer) were presented at the meeting. However, these data are unpublished and making this pre ...
StranDisplace™ II Thermostable DNA Polymerase, 8
... Refer to the public articles for recommendations and protocols. Recommended use is 8 units per reaction. Recommended temperature for isothermal amplification is 60-65⁰C. The enzyme is heat inactivated by incubation at 80°C for 10 minutes. Use of this enzyme in certain applications may be covered by ...
... Refer to the public articles for recommendations and protocols. Recommended use is 8 units per reaction. Recommended temperature for isothermal amplification is 60-65⁰C. The enzyme is heat inactivated by incubation at 80°C for 10 minutes. Use of this enzyme in certain applications may be covered by ...
PDF - BioDiscovery
... The estimated heritability of ASD is more than 90%, and the genetic basis of ASD are heterogeneous and complex, involving multiple genes, gene-gene interactions, and gene-environmental interactions [3]. Identification of genetic basis can shed a light on etiology and pathogenesis of this disorder wh ...
... The estimated heritability of ASD is more than 90%, and the genetic basis of ASD are heterogeneous and complex, involving multiple genes, gene-gene interactions, and gene-environmental interactions [3]. Identification of genetic basis can shed a light on etiology and pathogenesis of this disorder wh ...
Interactive Visual Analysis of Gene Expression Data
... • Accommodated different approaches, including, e.g., metabolism, growth habit, and physiology ...
... • Accommodated different approaches, including, e.g., metabolism, growth habit, and physiology ...
Metagenomics
Metagenomics is the study of genetic material recovered directly from environmental samples. The broad field may also be referred to as environmental genomics, ecogenomics or community genomics. While traditional microbiology and microbial genome sequencing and genomics rely upon cultivated clonal cultures, early environmental gene sequencing cloned specific genes (often the 16S rRNA gene) to produce a profile of diversity in a natural sample. Such work revealed that the vast majority of microbial biodiversity had been missed by cultivation-based methods. Recent studies use either ""shotgun"" or PCR directed sequencing to get largely unbiased samples of all genes from all the members of the sampled communities. Because of its ability to reveal the previously hidden diversity of microscopic life, metagenomics offers a powerful lens for viewing the microbial world that has the potential to revolutionize understanding of the entire living world. As the price of DNA sequencing continues to fall, metagenomics now allows microbial ecology to be investigated at a much greater scale and detail than before.