Morphometric analysis of supraoptic neurons of the rat hypothalamic nuclei under conditions of prolonged illumination

The article reviews the results of studies of the morphofunctional state of neurons of the supraoptic nuclei of the rat hypothalamus under conditions of different duration of light regime. Under standard light regime in rats, a diurnal rhythm of morphofunctional activity of supraoptic nucleus neurons with maximum activity during daytime (before 2 p.m.) is recorded. In animals subjected to prolonged light exposure, more pronounced changes in the morphofunctional state of the supraoptic neurons of the hypothalamus at 2 a.m. than at 2 p.m. were established. Thus, the neuronal nucleus area was 94.08 ± 9.55 μm2 and was significantly greater than that in intact animals. The nucleo-cytoplasmic ratio of supraoptic hypothalamic neuron at 2 a.m. was lower than that in intact animals due to a decrease in specific nucleus volume. In comparison with the day period (2 p.m.), before 2 a.m. there was revealed a decrease of the neuron body area of supraoptic nuclei of hypothalamus due to possible decrease of the area of nucleus and nucleolus of cells. This was the reason for the increase in the nucleo-cytoplasmic ratio in the neurons under observation at night, which was 2.51 ± 0.023 units. Constant light regime did not cause inversion of the rhythm of morphofunctional activity of the neurons under study, the maximum values, as in intact animals, occurred in the daytime observation period

Integrative functional genomics

A report on the Keystone Symposium 'Biological Discovery Using Diverse High-Throughput Data', Steamboat Springs, USA, 30 March-4 April 2004

Computational prediction of transcription-factor binding site locations

Identifying genomic locations of transcription-factor binding sites, particularly in higher eukaryotic genomes, has been an enormous challenge. Various experimental and computational approaches have been used to detect these sites; methods involving computational comparisons of related genomes have been particularly successful

Correction by peptide bioregulators of micro- and ultramicroscopic changes in the pineal gland caused by stress under light deprivation

It has been established, that immobilizing stress causes decreasing of light cell's amount in pineal gland, which are the main source of melatonin production like under usual lighting and like under light deprivation. Light deprivation, that stimulates pineal gland function, also provides activation of pre-melatonin biosynthesis that increased production of endogenous melatonin

Dynamics of gene C-Fos activity in paraventricular nuclei of the hypothalamus of rats at light stress

Stress influence (light deprivation and stimulation) on gene c-fos state of early functional activity in subnuclei of paraventricular nucleus (PVN) of hypothalamus of rats in various periods of twenty-four hours (day and night) has been elucidated. Product expression of this gene - c-Fos protein - in animals which were hold under normal conditions of light and darkness alternations showed rather distinct circadian character. Simultaneously, change of duration of the light-darkness cycle results in evident desynchronization

Meta-analysis discovery of tissue-specific DNA sequence motifs from mammalian gene expression data

BACKGROUND: A key step in the regulation of gene expression is the sequence-specific binding of transcription factors (TFs) to their DNA recognition sites. However, elucidating TF binding site (TFBS) motifs in higher eukaryotes has been challenging, even when employing cross-species sequence conservation. We hypothesized that for human and mouse, many orthologous genes expressed in a similarly tissue-specific manner in both human and mouse gene expression data, are likely to be co-regulated by orthologous TFs that bind to DNA sequence motifs present within noncoding sequence conserved between these genomes. RESULTS: We performed automated motif searching and merging across four different motif finding algorithms, followed by filtering of the resulting motifs for those that contain blocks of information content. Applying this motif finding strategy to conserved noncoding regions surrounding co-expressed tissue-specific human genes allowed us to discover both previously known, and many novel candidate, regulatory DNA motifs in all 18 tissue-specific expression clusters that we examined. For previously known TFBS motifs, we observed that if a TF was expressed in the specified tissue of interest, then in most cases we identified a motif that matched its TRANSFAC motif; conversely, of all those discovered motifs that matched TRANSFAC motifs, most of the corresponding TF transcripts were expressed in the tissue(s) corresponding to the expression cluster for which the motif was found. CONCLUSION: Our results indicate that the integration of the results from multiple motif finding tools identifies and ranks highly more known and novel motifs than does the use of just one of these tools. In addition, we believe that our simultaneous enrichment strategies helped to identify likely human cis regulatory elements. A number of the discovered motifs may correspond to novel binding site motifs for as yet uncharacterized tissue-specific TFs. We expect this strategy to be useful for identifying motifs in other metazoan genomes

Publicity Text is in a Religious Sphere

Статтю присвячено опису релігійного (культового) рекламного тексту. Виокремлено та описано загальні характеристики вербального компонента цього виду соціальної реклами, визначено особливості його структури та змісту, вербальні засоби передачі аксіологічних характеристик об’єкта пропозиції. The article is devoted description of religious (cult) publicity text. Selected and described general descriptions of verbal component of this type of the social advertising, the features of his structure and maintenance, verbal facilities of transmission of axiological descriptions of object of suggestion, are certain

UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions

The Universal PBM Resource for Oligonucleotide-Binding Evaluation (UniPROBE) database is a centralized repository of information on the DNA-binding preferences of proteins as determined by universal protein-binding microarray (PBM) technology. Each entry for a protein (or protein complex) in UniPROBE provides the quantitative preferences for all possible nucleotide sequence variants (‘words’) of length k (‘k-mers’), as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data. In this update, we describe >130% expansion of the database content, incorporation of a protein BLAST (blastp) tool for finding protein sequence matches in UniPROBE, the introduction of UniPROBE accession numbers and additional database enhancements. The UniPROBE database is available at http://uniprobe.org.National Institutes of Health (U.S.) (grant number R01 HG003985

UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions

The Universal PBM Resource for Oligonucleotide-Binding Evaluation (UniPROBE) database is a centralized repository of information on the DNA-binding preferences of proteins as determined by universal protein-binding microarray (PBM) technology. Each entry for a protein (or protein complex) in UniPROBE provides the quantitative preferences for all possible nucleotide sequence variants (‘words’) of length k (‘k-mers’), as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data. In this update, we describe >130% expansion of the database content, incorporation of a protein BLAST (blastp) tool for finding protein sequence matches in UniPROBE, the introduction of UniPROBE accession numbers and additional database enhancements. The UniPROBE database is available at http://uniprobe.org.National Institutes of Health (U.S.) (grant number R01 HG003985

UniPROBE: an online database of protein binding microarray data on protein–DNA interactions

The UniPROBE (Universal PBM Resource for Oligonucleotide Binding Evaluation) database hosts data generated by universal protein binding microarray (PBM) technology on the in vitro DNA-binding specificities of proteins. This initial release of the UniPROBE database provides a centralized resource for accessing comprehensive PBM data on the preferences of proteins for all possible sequence variants (‘words’) of length k (‘k-mers’), as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data. In total, the database hosts DNA-binding data for over 175 nonredundant proteins from a diverse collection of organisms, including the prokaryote Vibrio harveyi, the eukaryotic malarial parasite Plasmodium falciparum, the parasitic Apicomplexan Cryptosporidium parvum, the yeast Saccharomyces cerevisiae, the worm Caenorhabditis elegans, mouse and human. Current web tools include a text-based search, a function for assessing motif similarity between user-entered data and database PWMs, and a function for locating putative binding sites along user-entered nucleotide sequences. The UniPROBE database is available at http://thebrain.bwh.harvard.edu/uniprobe/