Comparison between Human and Mouse genomes
... the discovery of new human genes, mapping of the human genome, and identification of coding regions in genomic sequences. Of the sequences generated, 337 represent new genes, including 48 with significant similarity to genes from other organisms, such as a yeast RNA polymerase II subunit; Drosophila ...
... the discovery of new human genes, mapping of the human genome, and identification of coding regions in genomic sequences. Of the sequences generated, 337 represent new genes, including 48 with significant similarity to genes from other organisms, such as a yeast RNA polymerase II subunit; Drosophila ...
Exercise 11 - Understanding the Output for a blastn Search
... relative of the model fruit fly Drosophila melanogaster) contains region(s) with sequence similarity to any known genes. The unknown sequence is an 11,000 base pair (bp) fragment of genomic DNA, and the objective of gene annotation is to find and precisely map the coding regions of any genes in this ...
... relative of the model fruit fly Drosophila melanogaster) contains region(s) with sequence similarity to any known genes. The unknown sequence is an 11,000 base pair (bp) fragment of genomic DNA, and the objective of gene annotation is to find and precisely map the coding regions of any genes in this ...
Answer Key - Iowa State University
... that organism, we can assign probabilities to each codon occurring. We can then look at these probabilities for the entire protein to assess whether it is likely to be a gene in this organism. We can also expand our search to scan for transcription factor binding sites upstream of the ORF. By combin ...
... that organism, we can assign probabilities to each codon occurring. We can then look at these probabilities for the entire protein to assess whether it is likely to be a gene in this organism. We can also expand our search to scan for transcription factor binding sites upstream of the ORF. By combin ...
Lecture 12 - School of Science and Technology
... Splicing and gene prediction in eukaryotes • Any type of gene prediction and particularly ab initio is tremendously complicated in eukaryotes by the splicing phenomenon. • The task is difficult, to predict positions of exon-intron boundaries for those eukaryotic genes, which have multiple introns, ...
... Splicing and gene prediction in eukaryotes • Any type of gene prediction and particularly ab initio is tremendously complicated in eukaryotes by the splicing phenomenon. • The task is difficult, to predict positions of exon-intron boundaries for those eukaryotic genes, which have multiple introns, ...
Genetic analysis of acidocin B, a novel bacteriocin
... (Scheirlinck e t al., 1989) and L.fermentzlm NCK127 (Barefoot & Klaenhammer, 1983) were maintained as frozen glycerol stocks at - 20 OC. Lactobacilli were cultivated in MRS broth (Difco) at 37 OC. For plating, MRS was solidified with 1.5% (w/v) agar (Daishin). Erythromycin was used at a final concen ...
... (Scheirlinck e t al., 1989) and L.fermentzlm NCK127 (Barefoot & Klaenhammer, 1983) were maintained as frozen glycerol stocks at - 20 OC. Lactobacilli were cultivated in MRS broth (Difco) at 37 OC. For plating, MRS was solidified with 1.5% (w/v) agar (Daishin). Erythromycin was used at a final concen ...
MINI REVIEW The causes of Pseudomonas diversity
... the planet. Members of the genus are found in large numbers in all of the major natural environments (terrestrial, freshwater and marine) and also form intimate associations with plants and animals. This universal distribution suggests a remarkable degree of physiological and genetic adaptability. E ...
... the planet. Members of the genus are found in large numbers in all of the major natural environments (terrestrial, freshwater and marine) and also form intimate associations with plants and animals. This universal distribution suggests a remarkable degree of physiological and genetic adaptability. E ...
Chromatin signature reveals over a thousand highly conserved
... is similar to that seen for protein-coding genes (,80%). Together, the results show that most of the K4–K36 domains encode multi-exonic, non-protein-coding transcripts and the loci show clear conservation of nucleotide sequence and chromatin structure. Moreover, transcription and processing of these ...
... is similar to that seen for protein-coding genes (,80%). Together, the results show that most of the K4–K36 domains encode multi-exonic, non-protein-coding transcripts and the loci show clear conservation of nucleotide sequence and chromatin structure. Moreover, transcription and processing of these ...
FEBS Lett. 586, 2043-2048 - iSSB
... genome-scale design, translational bias at the gene and at the codon levels will not be discussed further. These biases alter strand composition and codon choice [46,47]. In turn, both codon and mutational biases shape the ability of the organism to exchange genetic material with other species by ho ...
... genome-scale design, translational bias at the gene and at the codon levels will not be discussed further. These biases alter strand composition and codon choice [46,47]. In turn, both codon and mutational biases shape the ability of the organism to exchange genetic material with other species by ho ...
Supplementary Methods
... Yeast strains were grown using standard conditions 1. Media containing 5fluoroorotic acid (5-FOA, Toronto Research Chemicals Inc.) were prepared according to the recipe described by Boeke et al 2. For colony color assay, cells were spotted on a synthetic complete medium containing 7 mg l –1 of adeni ...
... Yeast strains were grown using standard conditions 1. Media containing 5fluoroorotic acid (5-FOA, Toronto Research Chemicals Inc.) were prepared according to the recipe described by Boeke et al 2. For colony color assay, cells were spotted on a synthetic complete medium containing 7 mg l –1 of adeni ...
Trevor Paterson and Andy Law
... Automatic integration and inference is possible over data represented as individuals of the ontology) ...
... Automatic integration and inference is possible over data represented as individuals of the ontology) ...
Germs, genomes and genealogies
... acting on pathogen genomes, and the role of RECOMBINATION (see Glossary) in generating genetic novelty. Our second aim is to discuss the different methodologies that can be applied to molecular sequence data. In particular, we contrast the use of PHYLOGENETIC METHODS with that of POPULATION GENETIC ...
... acting on pathogen genomes, and the role of RECOMBINATION (see Glossary) in generating genetic novelty. Our second aim is to discuss the different methodologies that can be applied to molecular sequence data. In particular, we contrast the use of PHYLOGENETIC METHODS with that of POPULATION GENETIC ...
NIHMS27833-supplement-1 - TARA
... 100 individuals). For each SNP, we have aimed to perform a similar analysis to that conducted in the original study, e.g. choice of genetic model, outcome variable, etc. Where there is an overlap in individuals between a study and our own (see Supplementary Table 1), we have excluded those individu ...
... 100 individuals). For each SNP, we have aimed to perform a similar analysis to that conducted in the original study, e.g. choice of genetic model, outcome variable, etc. Where there is an overlap in individuals between a study and our own (see Supplementary Table 1), we have excluded those individu ...
Smith, GF and Warren, ST: The biology of Down syndrome. Annals of the New York Academy of Science 450: 1-9 (1985).
... Therefore, it is not unlikely that for many genes, the presence of an extra copy would likewise be of little consequence. Thus the remaining genes must code for proteins (or RNA) that either have a major role in development by themselves or else are involved in gene regulation, thereby influencing o ...
... Therefore, it is not unlikely that for many genes, the presence of an extra copy would likewise be of little consequence. Thus the remaining genes must code for proteins (or RNA) that either have a major role in development by themselves or else are involved in gene regulation, thereby influencing o ...
Lab 2 - Illustrating Evolutionary Relationships Between Organisms
... 24. By default, the Sequence Title of each of the 100 hits is indicated on the above tree. This view is interesting, since it shows which gene sequences were used to build the tree, and you should spend a few minutes looking at the tree in this format. 25. For the rest of this exercise, you can sim ...
... 24. By default, the Sequence Title of each of the 100 hits is indicated on the above tree. This view is interesting, since it shows which gene sequences were used to build the tree, and you should spend a few minutes looking at the tree in this format. 25. For the rest of this exercise, you can sim ...
polymerase chain reaction (pcr)
... PRIMERS: DNA strands--not more than fifty (usually 18-25 bp) ...
... PRIMERS: DNA strands--not more than fifty (usually 18-25 bp) ...
gen-305-presentation-14-16
... – This presents a problem, because chromosomal DNA contains thousands of different genes – The term gene detection refers to methods that distinguish one particular gene from a mixture of thousands of genes • Scientists have also developed techniques to identify gene ...
... – This presents a problem, because chromosomal DNA contains thousands of different genes – The term gene detection refers to methods that distinguish one particular gene from a mixture of thousands of genes • Scientists have also developed techniques to identify gene ...
Lec4 - kdevlin.com
... Microbial Control Exercise 5 - Effectiveness of Disinfectants We will use paper disks soaked in various disinfectants to determine the effectiveness of those products ...
... Microbial Control Exercise 5 - Effectiveness of Disinfectants We will use paper disks soaked in various disinfectants to determine the effectiveness of those products ...
Jianfeng Xu, MD, DrPH: GWA - UCLA School of Public Health
... Prostate cancer, breast cancer, and other ongoing studies Heart diseases, lung diseases, psychiatric diseases, inflammatory diseases, cancers, and many other studies that are in planning stages ...
... Prostate cancer, breast cancer, and other ongoing studies Heart diseases, lung diseases, psychiatric diseases, inflammatory diseases, cancers, and many other studies that are in planning stages ...
Segmented Arrangement of Borrelia duttonii DNA
... The spirochaete Borrelia duttonii is the agent of tick-borne human relapsing fever in East Africa (Burgdorfer, 1976). The vertebrate host is inoculated with the organism by the bite of the infected vector. Within a few days the organism multiplies causing bacteraemia, which is then cleared by the ho ...
... The spirochaete Borrelia duttonii is the agent of tick-borne human relapsing fever in East Africa (Burgdorfer, 1976). The vertebrate host is inoculated with the organism by the bite of the infected vector. Within a few days the organism multiplies causing bacteraemia, which is then cleared by the ho ...
AUGUSTUS: a web server for gene prediction in eukaryotes that
... The most reliable non-experimental method of annotation is considered to be the manual correction by experienced annotators of ab initio predictions in the presence of expressed sequence tag (EST) and protein alignments for the region under study. Recently, an automatic procedure has been developed ...
... The most reliable non-experimental method of annotation is considered to be the manual correction by experienced annotators of ab initio predictions in the presence of expressed sequence tag (EST) and protein alignments for the region under study. Recently, an automatic procedure has been developed ...
Supplementary Table Legends
... with the widest range of expression used for unsupervised clustering of TCGA and CRPC samples. The average RPKM difference between CRPC and TCGA primary prostate cancers is ...
... with the widest range of expression used for unsupervised clustering of TCGA and CRPC samples. The average RPKM difference between CRPC and TCGA primary prostate cancers is ...
A comparative genomic study among various gene families related
... losses in gene families related to wood degradation in comparison to the genome sequence of the white rot species Phanerochaete chrysosporium (3). Recently the genome sequence of Serpula lacrymans, which belongs in an independently evolved brown rot lineage in the Boletales, was produced by JGI and ...
... losses in gene families related to wood degradation in comparison to the genome sequence of the white rot species Phanerochaete chrysosporium (3). Recently the genome sequence of Serpula lacrymans, which belongs in an independently evolved brown rot lineage in the Boletales, was produced by JGI and ...
Lesson B: What Can Pseudogenes Tell Us About Common Ancestry
... The human GULO gene is an example of a pseudogene, a DNA sequence that is similar to that of a known gene, but that does not yield the expected gene product. Pseudogenes can occur by a gene becoming permanently inactivated, as in the GULO example, or by gene duplication followed by inactivation. (St ...
... The human GULO gene is an example of a pseudogene, a DNA sequence that is similar to that of a known gene, but that does not yield the expected gene product. Pseudogenes can occur by a gene becoming permanently inactivated, as in the GULO example, or by gene duplication followed by inactivation. (St ...
Supplemental Figure and Methods
... annotation sources. The trait relevant input text used here was four concatenated T2D review articles (2-5). Given a trait relevant input text, CAESAR uses text- and datamining to extract information from the input text in two ways. First, terms in four biomedical ontologies (gene ontology biologica ...
... annotation sources. The trait relevant input text used here was four concatenated T2D review articles (2-5). Given a trait relevant input text, CAESAR uses text- and datamining to extract information from the input text in two ways. First, terms in four biomedical ontologies (gene ontology biologica ...
Curriculum and Training Specialist Bio
... appreciation of the kit if they have some understanding of DNA structure and function ...
... appreciation of the kit if they have some understanding of DNA structure and function ...
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.