The application of molecular genetics to detection of
... this family are approached, the techniques of cosmid walking and jumping and pulsed-field gel electrophoresis (Schwartz & Cantor, 1984; Poustka & Lehrach, 1986) will allow the gap between the genetic and physical map to be bridged. The isolation of the gene and studies of its spatial and temporal ex ...
... this family are approached, the techniques of cosmid walking and jumping and pulsed-field gel electrophoresis (Schwartz & Cantor, 1984; Poustka & Lehrach, 1986) will allow the gap between the genetic and physical map to be bridged. The isolation of the gene and studies of its spatial and temporal ex ...
Using metaMA for differential gene expression analysis from
... number of replicates is small due either to the cost of the experiment or the lack of biological replicates available. Meta-analyses have increased sensitivity by combining different studies but it is expected that even more sensitivity can be obtained using shrinkage approaches when the number of ...
... number of replicates is small due either to the cost of the experiment or the lack of biological replicates available. Meta-analyses have increased sensitivity by combining different studies but it is expected that even more sensitivity can be obtained using shrinkage approaches when the number of ...
Microbial Control of Root-Pathogenic Fungi and Oomycetes
... the nature of peptide cyclization. Given their structural diversity, it is not surprising that these antibiotics also differ in their modes of action and their contributions to the biocontrol activity of the cells that produce them. For example, surfactins are powerful biosurfactants that can interf ...
... the nature of peptide cyclization. Given their structural diversity, it is not surprising that these antibiotics also differ in their modes of action and their contributions to the biocontrol activity of the cells that produce them. For example, surfactins are powerful biosurfactants that can interf ...
Discovery and classification of ecological diversity in the
... Survey of sequence divergence within and between bacterial taxa. We tested the hypothesis that sequence similarity clusters based on housekeeping protein genes should correspond to ecologically distinct groups of bacteria. Since species and subspecies are generally considered to be ecologically dist ...
... Survey of sequence divergence within and between bacterial taxa. We tested the hypothesis that sequence similarity clusters based on housekeeping protein genes should correspond to ecologically distinct groups of bacteria. Since species and subspecies are generally considered to be ecologically dist ...
Chromosome Structure
... Introns - May contain genes expressed independently of the exons they fall between. Many introns code for small nuclear RNAs (snoRNAs). These accumulate in the nucleolus, and may play a role in ribosome assembly. Thus the introns cut out of premRNA, may play a role in producing, or regulating produc ...
... Introns - May contain genes expressed independently of the exons they fall between. Many introns code for small nuclear RNAs (snoRNAs). These accumulate in the nucleolus, and may play a role in ribosome assembly. Thus the introns cut out of premRNA, may play a role in producing, or regulating produc ...
chesler_reviewer_res..
... introduction to his book on power analysis, the law of large numbers does not apply to small numbers, too. We are aware of this. To guard against false positive transcript variation we used a very conservative normalization approach developed expressly for small sample replicated microarray studies, ...
... introduction to his book on power analysis, the law of large numbers does not apply to small numbers, too. We are aware of this. To guard against false positive transcript variation we used a very conservative normalization approach developed expressly for small sample replicated microarray studies, ...
RECOMBINANT DNA TECHNOLOGY: APPLICATIONS IN THE
... sequences either side of a repeat. After the PCR, the products are examined by agarose gel electrophoresis with the size of the band or bands indicating the allele or alleles present in the DNA sample that has been tested (fig4). Two alleles of an STR can be present in a single DNA sample because th ...
... sequences either side of a repeat. After the PCR, the products are examined by agarose gel electrophoresis with the size of the band or bands indicating the allele or alleles present in the DNA sample that has been tested (fig4). Two alleles of an STR can be present in a single DNA sample because th ...
Woods Hole – Zebrafish Genetics and Development Bioinformatics
... in the genome, locate the translational start site (ATG), and identify the exonintron boundaries. Design two 25-mer morpholino sequences that target (1) the ATG and (2) an exon-intron boundary. Identify an orthologous gene in another fish species for use in rescue experiments to control for morpholi ...
... in the genome, locate the translational start site (ATG), and identify the exonintron boundaries. Design two 25-mer morpholino sequences that target (1) the ATG and (2) an exon-intron boundary. Identify an orthologous gene in another fish species for use in rescue experiments to control for morpholi ...
38891
... Figure 2. Four data sets clustered using k-means, hierarchical, and selforganized map algorithms. The horizontal axis shows the number of clusters desired, and the vertical axis shows z-scores. Data sets are (a) Cho, (b) CJRR, (c) Gasch, and (d) Spellman. ...
... Figure 2. Four data sets clustered using k-means, hierarchical, and selforganized map algorithms. The horizontal axis shows the number of clusters desired, and the vertical axis shows z-scores. Data sets are (a) Cho, (b) CJRR, (c) Gasch, and (d) Spellman. ...
Dol1 Dol3
... Deficiency (hGKD) • hGKD is an X-linked inborn error of metabolism. • Symptoms include metabolic and central nervous system deterioration. ...
... Deficiency (hGKD) • hGKD is an X-linked inborn error of metabolism. • Symptoms include metabolic and central nervous system deterioration. ...
Davies, Kelli: Eukaryotic Gene Prediction
... Several methods can be employed to identify genes within a genome. These approaches can be broadly grouped into sequence alignment and ab initio prediction. In sequence alignment, genetic sequences are compared to known genes in other organisms (via BLAST) or to EST/cDNA data. The use of BLAST searc ...
... Several methods can be employed to identify genes within a genome. These approaches can be broadly grouped into sequence alignment and ab initio prediction. In sequence alignment, genetic sequences are compared to known genes in other organisms (via BLAST) or to EST/cDNA data. The use of BLAST searc ...
Significant enhancement of fatty acid composition in seeds of the
... was confirmed by DNA sequencing. Sequence analyses of DNA from leaf and seed samples (Data Set S2) confirmed multiple mutations over multiple generations at each of the three target sites in each of the three different FAD2 gene types present, respectively, in the A, B and C subgenomes of the allohe ...
... was confirmed by DNA sequencing. Sequence analyses of DNA from leaf and seed samples (Data Set S2) confirmed multiple mutations over multiple generations at each of the three target sites in each of the three different FAD2 gene types present, respectively, in the A, B and C subgenomes of the allohe ...
Mitochondrial genes in the colourless alga Prototheca wickerhamii
... Prototheca wickerhamii contains two mosaic genes as was revealed from complete sequencing of the circular extranuclear genome. The genes for the large subunlt of the ribosomal RNA (LSUrRNA) as well as for subunlt I of the cytochrome oxidase (coxl) carry two and three Intronic sequences respectively. ...
... Prototheca wickerhamii contains two mosaic genes as was revealed from complete sequencing of the circular extranuclear genome. The genes for the large subunlt of the ribosomal RNA (LSUrRNA) as well as for subunlt I of the cytochrome oxidase (coxl) carry two and three Intronic sequences respectively. ...
Correlation between sequence divergence and polymorphism
... (“Newbler”) using default settings. Initial assembly produced hundred of contigs, however many of these were identified as bacterial or nuclear contamination. By visualizing the remaining contigs in Consed v21 [21] and using information regarding reads that span multiple contigs, 63 of the initial c ...
... (“Newbler”) using default settings. Initial assembly produced hundred of contigs, however many of these were identified as bacterial or nuclear contamination. By visualizing the remaining contigs in Consed v21 [21] and using information regarding reads that span multiple contigs, 63 of the initial c ...
Chapter 24: Promoters and Enhancers
... Chapter 24: Promoters and Enhancers • A typical gene transcribed by RNA polymerase II has a promoter that usually extends upstream from the site where transcription is initiated – the (#1) of transcription ...
... Chapter 24: Promoters and Enhancers • A typical gene transcribed by RNA polymerase II has a promoter that usually extends upstream from the site where transcription is initiated – the (#1) of transcription ...
Lecture 7 - Pitt CPATH Project
... • Assumption: there are recognizable signals in the DNA sequence that the cell uses; it should be possible to detect these algorithmically • Many programs designed to detect these signals • These programs do work to a certain extent, the information they provide is better than nothing; high error ra ...
... • Assumption: there are recognizable signals in the DNA sequence that the cell uses; it should be possible to detect these algorithmically • Many programs designed to detect these signals • These programs do work to a certain extent, the information they provide is better than nothing; high error ra ...
Concepts of Biology - Amazon Simple Storage Service (S3)
... to construct an internationally shared classification system. The taxonomic classification system (also called the Linnaean system after its inventor, Carl Linnaeus, a Swedish naturalist) uses a hierarchical model. A hierarchical system has levels and each group at one of the levels includes groups ...
... to construct an internationally shared classification system. The taxonomic classification system (also called the Linnaean system after its inventor, Carl Linnaeus, a Swedish naturalist) uses a hierarchical model. A hierarchical system has levels and each group at one of the levels includes groups ...
Methods for pattern discovery in unaligned biological sequences
... represent conserved patterns with a model, built by combining substrings of the input sequences. The hypothesis is that the set of biological sequences containing a pattern can be seen as generated by two separate sources: one emitting `background noise' with probability equalling the letter frequen ...
... represent conserved patterns with a model, built by combining substrings of the input sequences. The hypothesis is that the set of biological sequences containing a pattern can be seen as generated by two separate sources: one emitting `background noise' with probability equalling the letter frequen ...
Decoding the Genome of an Alien
... "To do all this, we need to be able to raise animals in the lab and have a better idea of what their normal behavior is, so we can recognize what has changed when a gene is deleted or disrupted. This is a big project, the kind that can only be done in a multidisciplinary environment like OIST," said ...
... "To do all this, we need to be able to raise animals in the lab and have a better idea of what their normal behavior is, so we can recognize what has changed when a gene is deleted or disrupted. This is a big project, the kind that can only be done in a multidisciplinary environment like OIST," said ...
Ultraconserved Elements in the Human Genome
... coding exons from known genes. In 17 of these 24 “ancient” cases there is clear mRNA or EST evidence that the coding region overlapped by the element is alternatively spliced in human. These include alternatively spliced exons of genes EIF2C1, BCL11A, EVI1, ZFR, CLK4, HNRPH1, and DDX5, as well as GR ...
... coding exons from known genes. In 17 of these 24 “ancient” cases there is clear mRNA or EST evidence that the coding region overlapped by the element is alternatively spliced in human. These include alternatively spliced exons of genes EIF2C1, BCL11A, EVI1, ZFR, CLK4, HNRPH1, and DDX5, as well as GR ...
Model plants, with special emphasis on Arabidopsis
... The knowledge needed for efficient crop breeding is still substantial, even for those crops that have received the most R&D attention. Crop breeding as practiced to date is a time-consuming process being based on generating large numbers of gene combinations and evaluating the progeny in many locati ...
... The knowledge needed for efficient crop breeding is still substantial, even for those crops that have received the most R&D attention. Crop breeding as practiced to date is a time-consuming process being based on generating large numbers of gene combinations and evaluating the progeny in many locati ...
Chapter 7 Notes: DNA Profiling
... • Two major factors affecting reliability: population genetics and genetic statistics • Humans have thousands of RFLP loci or DNA segments that can be selected and used for fingerprinting analysis Can depend on demographic factors such as ethnicity or geographic isolation Humans only differ in about ...
... • Two major factors affecting reliability: population genetics and genetic statistics • Humans have thousands of RFLP loci or DNA segments that can be selected and used for fingerprinting analysis Can depend on demographic factors such as ethnicity or geographic isolation Humans only differ in about ...
Chapter 11 : BIOTECHNOLOGY-PRINCIPLES
... Alternative selectable markers have been developed which differentiate recombinants from non-recombinants on the basis of their ability to produce colour in the presence of a chromogenic substrate. In this, a recombinant DNA is inserted within the coding sequence of an enzyme, â-galactosidase (gene ...
... Alternative selectable markers have been developed which differentiate recombinants from non-recombinants on the basis of their ability to produce colour in the presence of a chromogenic substrate. In this, a recombinant DNA is inserted within the coding sequence of an enzyme, â-galactosidase (gene ...
CoevolPaper2 - University of Illinois Archives
... 2.2 Evolution of Signatures in the 23S rRNA While phylogenetic analyses of 16S rRNA sequences have been widely used as a molecular taxonomic measure, studies of the 23S rRNA have been evolutionarily confined to a small number of taxa. Yet the 23S rRNA should prove at least as informative of the evol ...
... 2.2 Evolution of Signatures in the 23S rRNA While phylogenetic analyses of 16S rRNA sequences have been widely used as a molecular taxonomic measure, studies of the 23S rRNA have been evolutionarily confined to a small number of taxa. Yet the 23S rRNA should prove at least as informative of the evol ...
Assessment of regional benthic impact of salmon mariculture within
... therapeutants. Changes at the Deadmans Harbour reference site indicated a general improvement in ecosystem quality during the study period. Lime Kiln Bay experienced an increase in aquaculture activity during the first few years, followed by a complete cessation in 1998. Analyses indicated increased ...
... therapeutants. Changes at the Deadmans Harbour reference site indicated a general improvement in ecosystem quality during the study period. Lime Kiln Bay experienced an increase in aquaculture activity during the first few years, followed by a complete cessation in 1998. Analyses indicated increased ...
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.