Cluster Analysis in DNA Microarray Experiments
... View clustering as a deterministic rule that can be applied to parameters (or estimates thereof) of the distribution of gene expression measures. Parameters of interest include covariances between the expression measures of different genes. The parametric bootstrap can be used to study distributiona ...
... View clustering as a deterministic rule that can be applied to parameters (or estimates thereof) of the distribution of gene expression measures. Parameters of interest include covariances between the expression measures of different genes. The parametric bootstrap can be used to study distributiona ...
Figures and figure supplements
... shown. Underlying colors indicate the similarity between the different datasets. Note that H3K36me3 was flagged for low signal to noise, potentially explaining the somewhat high correlation with H3K27me3 (see Figure 1—source data 4). However, this does not affect the conclusions of the paper in any ...
... shown. Underlying colors indicate the similarity between the different datasets. Note that H3K36me3 was flagged for low signal to noise, potentially explaining the somewhat high correlation with H3K27me3 (see Figure 1—source data 4). However, this does not affect the conclusions of the paper in any ...
Phosphate Utilization Efficiency Correlates with Expression of Low
... correlated with the expression of HvIPS1 (for P starvation inducible; noncoding RNA) but not with HvIPS2, suggesting that HvIPS1 plays a distinct role in the regulation of the low-affinity Pi transporters. In addition, high PUE was found to be associated with high root-shoot ratios in low-P conditio ...
... correlated with the expression of HvIPS1 (for P starvation inducible; noncoding RNA) but not with HvIPS2, suggesting that HvIPS1 plays a distinct role in the regulation of the low-affinity Pi transporters. In addition, high PUE was found to be associated with high root-shoot ratios in low-P conditio ...
Mol Biol Evol-2015-Lipinska-15
... females are capable of parthenogenesis. Partheno-sporophytes are morphologically and functionally indistinguishable from diploid sporophytes. Life cycle stages used for transcriptomic analysis are marked with an asterisk. ...
... females are capable of parthenogenesis. Partheno-sporophytes are morphologically and functionally indistinguishable from diploid sporophytes. Life cycle stages used for transcriptomic analysis are marked with an asterisk. ...
PowerPoint-Präsentation
... A The PseudoCAP annotation (Winsor et al, 2005) was used to categorize the members of the primary RpoN regulon and the enrichment of specific gene classes is displayed. Strong and moderate over-represented classes are highlighted in dark and light orange, while under-represented classes are shown in ...
... A The PseudoCAP annotation (Winsor et al, 2005) was used to categorize the members of the primary RpoN regulon and the enrichment of specific gene classes is displayed. Strong and moderate over-represented classes are highlighted in dark and light orange, while under-represented classes are shown in ...
Symposium Poster - uospur
... Abstract: Defects in the development and formation of synapses can cause neuronal and synaptic overgrowth, which can lead to many neurological disorders including autism. Previous studies have shown that defective FMR1 and ADAR genes result in synaptic overgrowth in Drosophila neuromuscular junction ...
... Abstract: Defects in the development and formation of synapses can cause neuronal and synaptic overgrowth, which can lead to many neurological disorders including autism. Previous studies have shown that defective FMR1 and ADAR genes result in synaptic overgrowth in Drosophila neuromuscular junction ...
Slides
... • genes are located at specific places on the chromosome (loci) • regions corresponding to genes are transcribed • sequences flanking the coding sequence control the start and stop of transcription • not all genes are expressed at the same rates or at the same times ...
... • genes are located at specific places on the chromosome (loci) • regions corresponding to genes are transcribed • sequences flanking the coding sequence control the start and stop of transcription • not all genes are expressed at the same rates or at the same times ...
Molecular regulators of phosphate homeostasis in plants
... induced genes in rice (Zhou et al., 2008). However, only overexpression of OsPHR2 results in increased shoot Pi accumulation in transgenic rice (Zhou et al., 2008). Overexpression of OsPHR2 also enhances root elongation and root hair proliferation, which was not observed in Arabidopsis with altered ...
... induced genes in rice (Zhou et al., 2008). However, only overexpression of OsPHR2 results in increased shoot Pi accumulation in transgenic rice (Zhou et al., 2008). Overexpression of OsPHR2 also enhances root elongation and root hair proliferation, which was not observed in Arabidopsis with altered ...
Transcriptional Attenuation
... phenomenon that reduces the extent or rate of transcription. In studies of bacterial gene regulation, however, it has acquired a more restricted definition and is used to describe a mechanism in which the level of transcriptional termination at a single, specific site within an operon, called an att ...
... phenomenon that reduces the extent or rate of transcription. In studies of bacterial gene regulation, however, it has acquired a more restricted definition and is used to describe a mechanism in which the level of transcriptional termination at a single, specific site within an operon, called an att ...
Seed-Specific Gene Activation Mediated by the Cre//ox Site
... altering Cre expression. Efficient Cre expression ultimately directed gene activation throughout the model tissue, whereas inefficient Cre expression resulted in mosaic tissue. limited gene activation provides a system for cell lineage and developmental analyses. ...
... altering Cre expression. Efficient Cre expression ultimately directed gene activation throughout the model tissue, whereas inefficient Cre expression resulted in mosaic tissue. limited gene activation provides a system for cell lineage and developmental analyses. ...
Catalytic FFPE Nucleic Acid Isolation for Best NGS Performance
... by fixation with formaldehyde, in formalin-fixed paraffin-embedded (FFPE) tissue block format. While formaldehyde stabilizes tissue for storage, it also forms extensive crosslinks and adducts with nucleic acids and other biomolecules in the sample. Such modifications strongly interfere with downstre ...
... by fixation with formaldehyde, in formalin-fixed paraffin-embedded (FFPE) tissue block format. While formaldehyde stabilizes tissue for storage, it also forms extensive crosslinks and adducts with nucleic acids and other biomolecules in the sample. Such modifications strongly interfere with downstre ...
Six novel CC - DIGITAL.CSIC, el repositorio institucional
... #3913}, while members of the C and CX3C classes act primarily on lymphocytes Teleost fish are a highly diverse group which constitute approximately one half of the vertebrate species. In recent years, many different chemokine sequences from different species are beginning to be identified in the lig ...
... #3913}, while members of the C and CX3C classes act primarily on lymphocytes Teleost fish are a highly diverse group which constitute approximately one half of the vertebrate species. In recent years, many different chemokine sequences from different species are beginning to be identified in the lig ...
Genomic overview of serine proteases
... Distribution of serine proteases across the human genome According to our survey of the human genome, utilizing the databases mentioned under ÔMethods,Õ there are about 500 confirmed, non-redundant proteases in the human genome so far, including non-peptidase homologues (see also Appendix 1). This re ...
... Distribution of serine proteases across the human genome According to our survey of the human genome, utilizing the databases mentioned under ÔMethods,Õ there are about 500 confirmed, non-redundant proteases in the human genome so far, including non-peptidase homologues (see also Appendix 1). This re ...
Identification and functional analysis of two ZIP metal Thlaspi caerulescens
... lation and homeostasis (Assunção et al. 2003a). Hyperaccumulation of metals requires an adapted metal homeostasis allowing enhanced tolerance to metals and their accumulation. Therefore, functional and/or transcriptional modification of metal transporters, metal chelators and other proteins are need ...
... lation and homeostasis (Assunção et al. 2003a). Hyperaccumulation of metals requires an adapted metal homeostasis allowing enhanced tolerance to metals and their accumulation. Therefore, functional and/or transcriptional modification of metal transporters, metal chelators and other proteins are need ...
Lampetra fluviatilis Neurotrophin Homolog, Descendant of a
... The generation of a phylogenetic tree is dependent on caref ul alignment of the sequences in a matrix that is used for the calculations, and nonhomologous characters should be excluded from the alignments. Three sequence matrices with aligned sequences were constructed: two with neurotrophin and one ...
... The generation of a phylogenetic tree is dependent on caref ul alignment of the sequences in a matrix that is used for the calculations, and nonhomologous characters should be excluded from the alignments. Three sequence matrices with aligned sequences were constructed: two with neurotrophin and one ...
Ribosomal frameshifting in decoding antizyme mRNAs from yeast
... Given the ubiquitous occurrence of polyamines and their multifaceted roles (20–23), it is not surprising that ornithine decarboxylase, which catalyzes the first step in polyamine synthesis, is tightly regulated. The existence of a negative regulator of ornithine decarboxylase, termed ornithine decarb ...
... Given the ubiquitous occurrence of polyamines and their multifaceted roles (20–23), it is not surprising that ornithine decarboxylase, which catalyzes the first step in polyamine synthesis, is tightly regulated. The existence of a negative regulator of ornithine decarboxylase, termed ornithine decarb ...
Overexpression of a Knotted-Like Homeobox Gene of Potato Alters
... elements in regulatory regions of the GA 20-oxidase gene of tobacco to suppress its activity (Sakamoto et al., 2001). The results of this study demonstrate that a potato (Solanum tuberosum) homeobox gene, POTH1, is involved in vegetative pattern formation, accompanied by a decrease in GA levels. On ...
... elements in regulatory regions of the GA 20-oxidase gene of tobacco to suppress its activity (Sakamoto et al., 2001). The results of this study demonstrate that a potato (Solanum tuberosum) homeobox gene, POTH1, is involved in vegetative pattern formation, accompanied by a decrease in GA levels. On ...
Principal Components Analysis
... factors. So with three factors, covariance is measured between factor x and y; y and z, and x and z. When more than 2 factors are involved, covariance values can be placed into a matrix. This is where PCA becomes useful. PCA will find Eigenvectors and eigenvalues relevant to the data using a covaria ...
... factors. So with three factors, covariance is measured between factor x and y; y and z, and x and z. When more than 2 factors are involved, covariance values can be placed into a matrix. This is where PCA becomes useful. PCA will find Eigenvectors and eigenvalues relevant to the data using a covaria ...
Epigenetic Mediation of Environmental Influences in Major Psychotic
... underpinnings of these disorders are epigenetic in form rather than DNA sequence based. Psychosis-associated environmental exposures, particularly at key developmental stages, may result in long-lasting epigenetic alterations that impact on the neurobiological processes involved in pathology. Althou ...
... underpinnings of these disorders are epigenetic in form rather than DNA sequence based. Psychosis-associated environmental exposures, particularly at key developmental stages, may result in long-lasting epigenetic alterations that impact on the neurobiological processes involved in pathology. Althou ...
Potential regulation of gene expression in photosynthetic cells by
... This can be used to test the evenness of spraying (T. Pfannschmidt et al, pers. obs.). In contrast, DBMIB is unstable in tissues and looses its effect within hours (Pfannschmidt et al., 2001). It is, therefore, desirable to repeat its application during the course of an experiment when working with ...
... This can be used to test the evenness of spraying (T. Pfannschmidt et al, pers. obs.). In contrast, DBMIB is unstable in tissues and looses its effect within hours (Pfannschmidt et al., 2001). It is, therefore, desirable to repeat its application during the course of an experiment when working with ...
Molecular Plant-Microbe Interactions
... O. viciifolia (Fig. 2; Table 1). These mutants showed a reduced number of nodules on A. cicer plants, compared with the wild-type strain N33. This reduction in the number of nodules was not observed on O. viciifolia plants except for the intergenic nodG-B mutant (JC306), which showed a slightly redu ...
... O. viciifolia (Fig. 2; Table 1). These mutants showed a reduced number of nodules on A. cicer plants, compared with the wild-type strain N33. This reduction in the number of nodules was not observed on O. viciifolia plants except for the intergenic nodG-B mutant (JC306), which showed a slightly redu ...
Divergent Evolutionary and Expression Patterns between Lineage
... rapa [57]. We defined the genes with reciprocal best hits and the alignment e-value lower than 0.001 [38] in these species as orthologous genes. After the construction of synteny and identification of orthologs between A. thaliana and the other three species, we were able to identify the A. thaliana ...
... rapa [57]. We defined the genes with reciprocal best hits and the alignment e-value lower than 0.001 [38] in these species as orthologous genes. After the construction of synteny and identification of orthologs between A. thaliana and the other three species, we were able to identify the A. thaliana ...
computation for chIP-seq and rNA-seq studies
... on (i) achieving sufficient enrichment of factor-bound chromatin relative to nonspecific chromatin background and (ii) obtaining sufficient enriched chromatin so that each sequence obtained is from a different founder molecule in the ChIP reaction (in other words, that the molecular library has adeq ...
... on (i) achieving sufficient enrichment of factor-bound chromatin relative to nonspecific chromatin background and (ii) obtaining sufficient enriched chromatin so that each sequence obtained is from a different founder molecule in the ChIP reaction (in other words, that the molecular library has adeq ...