Bioinformatics: Bringing it all together
... Shankar Subramaniam. "You can be sitting in front of any type of computer; as long as you have a web browser, you can access it." Software has also become more user-friendly. Back in the early 1990s, users of the GCG Wisconsin package, the grandfather of molecular-biology packages (now sold by Accel ...
... Shankar Subramaniam. "You can be sitting in front of any type of computer; as long as you have a web browser, you can access it." Software has also become more user-friendly. Back in the early 1990s, users of the GCG Wisconsin package, the grandfather of molecular-biology packages (now sold by Accel ...
Slides: background and project plan
... Regulation of Expression • Each cell contains an identical copy of the whole genome - but utilizes only a subset of the genes to perform diverse, unique tasks • Most genes are highly regulated – their expression is limited to specific tissues, developmental stages, physiological condition • Main re ...
... Regulation of Expression • Each cell contains an identical copy of the whole genome - but utilizes only a subset of the genes to perform diverse, unique tasks • Most genes are highly regulated – their expression is limited to specific tissues, developmental stages, physiological condition • Main re ...
Distalless and dachshund pattern both plesiomorphic
... (bearing the first walking leg pair or the first and second walking leg pairs). In contrast to these multiple studies of the role of Dll, no functional data are available for dac, hth, or exd in any chelicerate. The most recent addition to the suite of chelicerate study organisms is the harvestman Pha ...
... (bearing the first walking leg pair or the first and second walking leg pairs). In contrast to these multiple studies of the role of Dll, no functional data are available for dac, hth, or exd in any chelicerate. The most recent addition to the suite of chelicerate study organisms is the harvestman Pha ...
Genetic recombination in plants
... An important cautionary note, however, is that, because most fine-scale studies of recombination have assayed recombination rates only within genes, it is not possible to conclude that all hot spots are genes. One way to settle this question would be to identify a collection of recombination hot spo ...
... An important cautionary note, however, is that, because most fine-scale studies of recombination have assayed recombination rates only within genes, it is not possible to conclude that all hot spots are genes. One way to settle this question would be to identify a collection of recombination hot spo ...
Algorithms for Finding Gene Clusters
... For prokaryotes, it is also known that, in the vast majority of cases, functionally associated genes of a gene cluster lie on the same DNA strand [20,12]. We take this into account by constructing signed permutations where the sign of a gene indicates the strand it lies on. We then determine all com ...
... For prokaryotes, it is also known that, in the vast majority of cases, functionally associated genes of a gene cluster lie on the same DNA strand [20,12]. We take this into account by constructing signed permutations where the sign of a gene indicates the strand it lies on. We then determine all com ...
Mitochondrial DNA - Circle
... The authors who reported the presence of mitochondrial genes in amitochondrial eukaryotes all reinterpreted prevailing theory in saying that mitochondria must have been present then lost after they had transferred some of their genetic information to the nucleus. The hydrogenosome, a structure invol ...
... The authors who reported the presence of mitochondrial genes in amitochondrial eukaryotes all reinterpreted prevailing theory in saying that mitochondria must have been present then lost after they had transferred some of their genetic information to the nucleus. The hydrogenosome, a structure invol ...
Gene Section NOTCH2 (Notch homolog 2 (Drosophila)) Atlas of Genetics and Cytogenetics
... complex with RBP-j kappa and Mastermind proteins and activates genes of the hairy/enhancer of split (hes) family. Notch2 behaves very similar to Notch1 at the biochemical level, and in fact, C-terminal intracellular region of Notch1 can functionally replace that of Notch2 in vivo. However specific f ...
... complex with RBP-j kappa and Mastermind proteins and activates genes of the hairy/enhancer of split (hes) family. Notch2 behaves very similar to Notch1 at the biochemical level, and in fact, C-terminal intracellular region of Notch1 can functionally replace that of Notch2 in vivo. However specific f ...
Developing a Bioassay for Triclosan Toxicity Abstract
... one of the most commonly detected organic compound in surface waters. It has been proven to accumulate in tissue, cause toxicity to aquatic organisms, and impair muscle contraction. It is critical to develop a sensitive and economic bioassay for a chemical so prevalent in our environment. This study ...
... one of the most commonly detected organic compound in surface waters. It has been proven to accumulate in tissue, cause toxicity to aquatic organisms, and impair muscle contraction. It is critical to develop a sensitive and economic bioassay for a chemical so prevalent in our environment. This study ...
ACTIN-RELATED PROTEIN6 Regulates Female Meiosis By
... been identified in Arabidopsis thaliana (March-Díaz and Reyes, 2009; Meagher et al., 2009), indicating that Arabidopsis has the SWR1 complex. Additionally, H2A.Z deposition at many target loci is disrupted in Arabidopsis SWR1 subunit-defective mutants (Deal et al., 2007). ACTIN-RELATED PROTEIN6 (ARP6 ...
... been identified in Arabidopsis thaliana (March-Díaz and Reyes, 2009; Meagher et al., 2009), indicating that Arabidopsis has the SWR1 complex. Additionally, H2A.Z deposition at many target loci is disrupted in Arabidopsis SWR1 subunit-defective mutants (Deal et al., 2007). ACTIN-RELATED PROTEIN6 (ARP6 ...
Regulation of Bacterial Conjugation in Microaerobiosis by
... host-encoded regulators may control conjugal transfer in most (perhaps all) F-like plasmids while others may be plasmid specific. For instance, F transfer undergoes a drastic decrease in stationary phase (Frost and Manchak 1998), a behavior that is not observed in pSLT (Camacho et al. 2005b). Anothe ...
... host-encoded regulators may control conjugal transfer in most (perhaps all) F-like plasmids while others may be plasmid specific. For instance, F transfer undergoes a drastic decrease in stationary phase (Frost and Manchak 1998), a behavior that is not observed in pSLT (Camacho et al. 2005b). Anothe ...
Picoplankton Bloom in Global South? A High Fraction of Aerobic
... Lami et al., 2007; Schwalbach and Fuhrman, 2005) and despite initial reports, they support the hypothesis proposed by Kolber (2001) that these organisms would have an advantage in oligotrophic conditions. Recent studies, however, suggest that AAPs thrive better in more eutrophic environments (Cottre ...
... Lami et al., 2007; Schwalbach and Fuhrman, 2005) and despite initial reports, they support the hypothesis proposed by Kolber (2001) that these organisms would have an advantage in oligotrophic conditions. Recent studies, however, suggest that AAPs thrive better in more eutrophic environments (Cottre ...
CHAPTER 15 THE CHROMOSOMAL BASIS OF INHERITANCE
... that predicted from the recombination frequency of 17.0%. Because b and vg are relatively far apart, double crossovers occur between these loci and cancel each other out, leading us to underestimate the actual map distance. If linked genes are so far apart on a chromosome that the recombination freq ...
... that predicted from the recombination frequency of 17.0%. Because b and vg are relatively far apart, double crossovers occur between these loci and cancel each other out, leading us to underestimate the actual map distance. If linked genes are so far apart on a chromosome that the recombination freq ...
Morphology of nuclear transcription | SpringerLink
... 2009; Shiao et al. 2011). The exact number and degree of variation in composition of individual repeats is largely unknown, mostly because molecular methods to analyze single repetitive elements in a genomic context have been missing. For HeLa cells, it was calculated that about 120 TUs are actively ...
... 2009; Shiao et al. 2011). The exact number and degree of variation in composition of individual repeats is largely unknown, mostly because molecular methods to analyze single repetitive elements in a genomic context have been missing. For HeLa cells, it was calculated that about 120 TUs are actively ...
Evolution of a pseudo-control region in the mitochondrial genome of
... might stay for longer and occasionally interbreed with B. oreophilus cannot be excluded. In the present study we tried to elucidate the unresolved phylogeny of B. buteo and its relatives in a molecular approach. Analyses of mitochondrial (mt) sequences of the genus Buteo have not yet been extensivel ...
... might stay for longer and occasionally interbreed with B. oreophilus cannot be excluded. In the present study we tried to elucidate the unresolved phylogeny of B. buteo and its relatives in a molecular approach. Analyses of mitochondrial (mt) sequences of the genus Buteo have not yet been extensivel ...
Aus dem Max-Planck-Institut für Psychiatrie
... psychiatric disorders has long been recognized from twin and adoption studies. Nowadays, genetic linkage analysis even allows the precise identification of genetic loci involved in a pathology (Inoue and Lupski, 2003). In combination with information on the human genome sequence this represents an i ...
... psychiatric disorders has long been recognized from twin and adoption studies. Nowadays, genetic linkage analysis even allows the precise identification of genetic loci involved in a pathology (Inoue and Lupski, 2003). In combination with information on the human genome sequence this represents an i ...
Genomic organisation of the Mal d 1 gene cluster on linkage group
... in Mal d 1 isoallergens that are not expressed in fruit and, thus, are not involved in allergic reactions. The observed functional differentiation among isoallergens and variants suggests the need for in-depth knowledge about the existence and performance of individual proteins and, thus, of individ ...
... in Mal d 1 isoallergens that are not expressed in fruit and, thus, are not involved in allergic reactions. The observed functional differentiation among isoallergens and variants suggests the need for in-depth knowledge about the existence and performance of individual proteins and, thus, of individ ...
Pax6 lights-up the way for eye development Ruth Ashery
... eyes has revealed a surprising conservation of molecular mechanisms. In particular, the study of the transcription factor Pax6 promoted our understanding of the development of ocular tissues. Pax6 is a member of the Pax family of transcription factors. It contains two DNA-binding motifs the paired d ...
... eyes has revealed a surprising conservation of molecular mechanisms. In particular, the study of the transcription factor Pax6 promoted our understanding of the development of ocular tissues. Pax6 is a member of the Pax family of transcription factors. It contains two DNA-binding motifs the paired d ...
Identification of a Vinyl Reductase Gene for
... may occur at various steps of chlorophyll biosynthesis before and after the reduction of D pyrrole ring by protochlorophyllide oxidoreductase. As a result, it is likely that the monovinyl and divinyl chlorophyll biosynthesis reactions may operate in parallel rather than by the normally accepted sing ...
... may occur at various steps of chlorophyll biosynthesis before and after the reduction of D pyrrole ring by protochlorophyllide oxidoreductase. As a result, it is likely that the monovinyl and divinyl chlorophyll biosynthesis reactions may operate in parallel rather than by the normally accepted sing ...
Microbial Ecology: Where are we now?
... specificity, uniformity, drop-off rate and reproducibility. The above-mentioned techniques were all evaluated using these key parameters (Ting et al. 2009). Senapathy et al. developed an enrichment technique based on fixed-randomization that binds multiple genomic sites with similar sequence complem ...
... specificity, uniformity, drop-off rate and reproducibility. The above-mentioned techniques were all evaluated using these key parameters (Ting et al. 2009). Senapathy et al. developed an enrichment technique based on fixed-randomization that binds multiple genomic sites with similar sequence complem ...
An Overview of Genetic Algorithms: Part 2, Research Topics 1
... One of the fundamental principles of GAs is that chromosomes which include schemata which are contained in the global optimum will increase in frequency (this is especially true of short, low-order schemata, known as building blocks ). Eventually, via the process of crossover, these optimal schemata ...
... One of the fundamental principles of GAs is that chromosomes which include schemata which are contained in the global optimum will increase in frequency (this is especially true of short, low-order schemata, known as building blocks ). Eventually, via the process of crossover, these optimal schemata ...
Maintenance of DNA Methylation during the Arabidopsis Life Cycle
... revised model for the cycle of MET1-dependent imprinting in plants. RESULTS FIS2 Expression Is Controlled by DNA Methylation–Dependent Imprinting To investigate the imprinted status of FIS2, we used polymorphisms in the FIS2 coding sequence between different wild-type accessions to distinguish trans ...
... revised model for the cycle of MET1-dependent imprinting in plants. RESULTS FIS2 Expression Is Controlled by DNA Methylation–Dependent Imprinting To investigate the imprinted status of FIS2, we used polymorphisms in the FIS2 coding sequence between different wild-type accessions to distinguish trans ...
Pattern of diversity in the genomic region near the
... ing genomic sequences from a sorghum tb1-like gene and with the rice ortholog, OsTB1 (34). Sorghum is a close relative to maize within the tribe Andropogoneae (35), whereas rice is a distant relative to maize within the family Poaceae (36). Pairwise identity plots to the maize sequence are shown in ...
... ing genomic sequences from a sorghum tb1-like gene and with the rice ortholog, OsTB1 (34). Sorghum is a close relative to maize within the tribe Andropogoneae (35), whereas rice is a distant relative to maize within the family Poaceae (36). Pairwise identity plots to the maize sequence are shown in ...
Functional Annotation
... Bio-ontologies are used to capture biological information in a way that can be read by both humans and computers. necessary for high-throughput “omics” datasets allows data sharing across databases ...
... Bio-ontologies are used to capture biological information in a way that can be read by both humans and computers. necessary for high-throughput “omics” datasets allows data sharing across databases ...
E. coli
... Separation of ETEC bacteria from target intestinal epithelial monolayers by semipermeable filters prevented activation of adenylate cyclase suggesting that pathogen-host cell contact is required for efficient toxin delivery Likewise, a non-motile strain bearing a mutation in the flagellar fliD g ...
... Separation of ETEC bacteria from target intestinal epithelial monolayers by semipermeable filters prevented activation of adenylate cyclase suggesting that pathogen-host cell contact is required for efficient toxin delivery Likewise, a non-motile strain bearing a mutation in the flagellar fliD g ...
High-Resolution Single-Copy Gene Fluorescence in Situ
... been distinctly illustrated by the molecular and cytological characterization of a heterochromatic knob on the short arm of Arabidopsis thaliana chromosome 4 (Fransz et al., 2000) and the confirmation of anchored BAC contigs and gene orders in rice (Oryza sativa) (Zhao et al., 2002). In maize, howev ...
... been distinctly illustrated by the molecular and cytological characterization of a heterochromatic knob on the short arm of Arabidopsis thaliana chromosome 4 (Fransz et al., 2000) and the confirmation of anchored BAC contigs and gene orders in rice (Oryza sativa) (Zhao et al., 2002). In maize, howev ...
Gene expression profiling
In the field of molecular biology, gene expression profiling is the measurement of the activity (the expression) of thousands of genes at once, to create a global picture of cellular function. These profiles can, for example, distinguish between cells that are actively dividing, or show how the cells react to a particular treatment. Many experiments of this sort measure an entire genome simultaneously, that is, every gene present in a particular cell.DNA microarray technology measures the relative activity of previously identified target genes. Sequence based techniques, like serial analysis of gene expression (SAGE, SuperSAGE) are also used for gene expression profiling. SuperSAGE is especially accurate and can measure any active gene, not just a predefined set. The advent of next-generation sequencing has made sequence based expression analysis an increasingly popular, ""digital"" alternative to microarrays called RNA-Seq. However, microarrays are far more common, accounting for 17,000 PubMed articles by 2006.