PPTX - Bioinformatics.ca
... • Goal is to segment the genome into sub-classes. In each case, the tools identify certain data properties that subsets of the genome. Based on the groupings, the presence of known features (e.g. transcription start regions) is scored to suggest the functional meaning of the classes established. ...
... • Goal is to segment the genome into sub-classes. In each case, the tools identify certain data properties that subsets of the genome. Based on the groupings, the presence of known features (e.g. transcription start regions) is scored to suggest the functional meaning of the classes established. ...
EIN4 and ERS2 Are Members of the Putative Ethylene Receptor
... similar, and this domain of ETR1 is capable of ethylene binding when expressed in yeast (Schaller and Bleecker, 1995). By analogy to the bacterial histidine kinases, the binding of ethylene to the N-terminal domain of ETR1 could modulate the activity of the C-terminal histidine kinase, which in turn ...
... similar, and this domain of ETR1 is capable of ethylene binding when expressed in yeast (Schaller and Bleecker, 1995). By analogy to the bacterial histidine kinases, the binding of ethylene to the N-terminal domain of ETR1 could modulate the activity of the C-terminal histidine kinase, which in turn ...
Induction of XIST expression from the human active
... The XIST gene is the only gene known to be expressed exclusively from the inactive X chromosome (8) and is localised to the smallest interval of the X chromosome required in cis for inactivation to occur (9,10). The XIST RNA, which is not translated, remains in the nucleus where it is associated wit ...
... The XIST gene is the only gene known to be expressed exclusively from the inactive X chromosome (8) and is localised to the smallest interval of the X chromosome required in cis for inactivation to occur (9,10). The XIST RNA, which is not translated, remains in the nucleus where it is associated wit ...
Mitochondrial genes in the colourless alga Prototheca wickerhamii
... intron number is considerable. The gene for subunit I of the cytochrome oxidase (coxl), for example, contains 16 introns in the filamentous fungus Podospora anserina and up to seven introns in various strains of the yeast Saccharomyces cerevisiae, but none in the common laboratory strain of Neurospo ...
... intron number is considerable. The gene for subunit I of the cytochrome oxidase (coxl), for example, contains 16 introns in the filamentous fungus Podospora anserina and up to seven introns in various strains of the yeast Saccharomyces cerevisiae, but none in the common laboratory strain of Neurospo ...
Full Text - The International Journal of Developmental Biology
... Fig. 2. Synteny analyses of the crip family members in Homo sapiens, Mus musculus, Rattus norvegicus, Xenopus tropicalis and Danio rerio. (A) The schematic overview shows the comparison of the crip1 and crip2 genes and their neighbouring gene loci in H. sapiens (chromosome 14), M. musculus (chromoso ...
... Fig. 2. Synteny analyses of the crip family members in Homo sapiens, Mus musculus, Rattus norvegicus, Xenopus tropicalis and Danio rerio. (A) The schematic overview shows the comparison of the crip1 and crip2 genes and their neighbouring gene loci in H. sapiens (chromosome 14), M. musculus (chromoso ...
Ribosome engineering to promote new crystal forms
... Crystallographic studies of the ribosome have provided molecular details of protein synthesis. However, the crystallization of functional complexes of ribosomes with GTPase translation factors proved to be elusive for a decade after the first ribosome structures were determined. Analysis of the pack ...
... Crystallographic studies of the ribosome have provided molecular details of protein synthesis. However, the crystallization of functional complexes of ribosomes with GTPase translation factors proved to be elusive for a decade after the first ribosome structures were determined. Analysis of the pack ...
Maternal and paternal genomes contribute equally to the
... embryogenesis is thought to occur based on some gene-expression studies2–6. However, other gene-expression studies and genetic analyses show that some transcripts must derive from the early zygotic genome7–14, implying that the prevailing model does not fully explain the nature of zygotic genome act ...
... embryogenesis is thought to occur based on some gene-expression studies2–6. However, other gene-expression studies and genetic analyses show that some transcripts must derive from the early zygotic genome7–14, implying that the prevailing model does not fully explain the nature of zygotic genome act ...
Ribosomal RNA Secondary Structure
... pairing and nonpairing bases are 1,082 (54.4%) and 907 (45.6%)) respectively (table 1). These proportions are not significantly different [x2 = 0.03, degrees of freedom (df) = 1, P > 0.81 from the proportions predicted by the Xenopus model of secondary structure for the entire 28s gene [ 2,244 (54.6 ...
... pairing and nonpairing bases are 1,082 (54.4%) and 907 (45.6%)) respectively (table 1). These proportions are not significantly different [x2 = 0.03, degrees of freedom (df) = 1, P > 0.81 from the proportions predicted by the Xenopus model of secondary structure for the entire 28s gene [ 2,244 (54.6 ...
Part 3 - Bioinformatics.ca
... • Goal is to segment the genome into sub-classes. In each case, the tools identify certain data properties that subsets of the genome. Based on the groupings, the presence of known features (e.g. transcription start regions) is scored to suggest the functional meaning of the classes established. ...
... • Goal is to segment the genome into sub-classes. In each case, the tools identify certain data properties that subsets of the genome. Based on the groupings, the presence of known features (e.g. transcription start regions) is scored to suggest the functional meaning of the classes established. ...
An Experimental Program for Introducing First
... were not included because it was thought they were above the level of understanding for students in the class. Others were seen as only reinforcing points already illustrated by previous tables and graphs in the paper. The groups were given a series of questions for each data table or figure which t ...
... were not included because it was thought they were above the level of understanding for students in the class. Others were seen as only reinforcing points already illustrated by previous tables and graphs in the paper. The groups were given a series of questions for each data table or figure which t ...
Supplementary Material PDF
... co-injected at the single-cell stage with foxd3E1:GFP (B,E; n=11) and tfap2aE2:GFP (D,F; n=25) and imaged at 2-somites produces increased GFP expression when compared with enhancer:GFP constructs alone (A,C). (G-J) prdm1a mRNA overexpression also increases the expression of endogenous foxd3 along th ...
... co-injected at the single-cell stage with foxd3E1:GFP (B,E; n=11) and tfap2aE2:GFP (D,F; n=25) and imaged at 2-somites produces increased GFP expression when compared with enhancer:GFP constructs alone (A,C). (G-J) prdm1a mRNA overexpression also increases the expression of endogenous foxd3 along th ...
Ingestion of bacterially expressed dsRNAs can produce specific and
... A hairpin con®guration consists of a single T7 promoter driving an inverted repeat structure that has been interrupted by a non-homologous spacer DNA. These con®gurations are summarized in Fig. 1 (top). 3.2. Improved effectiveness of bacteria-induced RNAi using modi®ed bacterial strains Escherichia ...
... A hairpin con®guration consists of a single T7 promoter driving an inverted repeat structure that has been interrupted by a non-homologous spacer DNA. These con®gurations are summarized in Fig. 1 (top). 3.2. Improved effectiveness of bacteria-induced RNAi using modi®ed bacterial strains Escherichia ...
Ribosome profiling reveals post-transcriptional buffering of divergent
... Ribosome profiling reveals post-transcriptional buffering of divergent gene expression in yeast C. Joel McManus,1 Gemma E. May, Pieter Spealman, and Alan Shteyman Carnegie Mellon University, Department of Biological Sciences, Pittsburgh, Pennsylvania 15213, USA Understanding the patterns and causes ...
... Ribosome profiling reveals post-transcriptional buffering of divergent gene expression in yeast C. Joel McManus,1 Gemma E. May, Pieter Spealman, and Alan Shteyman Carnegie Mellon University, Department of Biological Sciences, Pittsburgh, Pennsylvania 15213, USA Understanding the patterns and causes ...
Full wwPDB X-ray Structure Validation Report i
... of RSRZ outliers, followed by percent RSRZ outliers for the chain as percentile scores relative to all X-ray entries and entries of similar resolution. The OWAB column contains the minimum, median, 95th percentile and maximum values of the occupancy-weighted average B-factor per residue. The column ...
... of RSRZ outliers, followed by percent RSRZ outliers for the chain as percentile scores relative to all X-ray entries and entries of similar resolution. The OWAB column contains the minimum, median, 95th percentile and maximum values of the occupancy-weighted average B-factor per residue. The column ...
Gene Section JUND (proto-oncogene) Atlas of Genetics and Cytogenetics in Oncology and Haematology
... leucine zipper (bZIP) DNA-binding proteins. Analysis of the protein expression levels demonstrated an opposite expression pattern between JUN and JUND. When cells entry into the G0 phase of the cell cycle by serum starvation, JUN level decreases and JUND level increases. Similar to JUNB, JUND has be ...
... leucine zipper (bZIP) DNA-binding proteins. Analysis of the protein expression levels demonstrated an opposite expression pattern between JUN and JUND. When cells entry into the G0 phase of the cell cycle by serum starvation, JUN level decreases and JUND level increases. Similar to JUNB, JUND has be ...
Characterization of the amino acid response element within the
... Among these genes are those that contain AAREs (AAR elements) that mediate the enhanced transcription (reviewed in [11]), and function as enhancer elements [12,13]. AARE-binding proteins have only been reported for two genes, ASNS (asparagine synthetase) and CHOP [C/EBP (CCAAT/enhancerbinding protei ...
... Among these genes are those that contain AAREs (AAR elements) that mediate the enhanced transcription (reviewed in [11]), and function as enhancer elements [12,13]. AARE-binding proteins have only been reported for two genes, ASNS (asparagine synthetase) and CHOP [C/EBP (CCAAT/enhancerbinding protei ...
Regulation of Stage I1 of Sporulation in Bacillus subtilis
... The finding that the expression of sporulation operons is strikingly different in strains carrying two different mutations, apparently in spoOJ, will be considered later (Discussion). Eflects of mutations in spoIIA on spore formation, sporulation phenotype, the formation of alkaline phosphatase and ...
... The finding that the expression of sporulation operons is strikingly different in strains carrying two different mutations, apparently in spoOJ, will be considered later (Discussion). Eflects of mutations in spoIIA on spore formation, sporulation phenotype, the formation of alkaline phosphatase and ...
Regulation of Stage I1 of Sporulation in Bacillus subtilis
... The finding that the expression of sporulation operons is strikingly different in strains carrying two different mutations, apparently in spoOJ, will be considered later (Discussion). Eflects of mutations in spoIIA on spore formation, sporulation phenotype, the formation of alkaline phosphatase and ...
... The finding that the expression of sporulation operons is strikingly different in strains carrying two different mutations, apparently in spoOJ, will be considered later (Discussion). Eflects of mutations in spoIIA on spore formation, sporulation phenotype, the formation of alkaline phosphatase and ...
Glycosylphosphatidyl inositol-anchored protein (GPI
... expressed genes. We validated the differential expression of several of the genes identified through Biochip analysis, by means of quantitative RT-PCR of RNA from 48 thymoma tumors. We found that GPI-80 was significantly higher in invasive thymoma (stage IV thymoma) than in stage I thymoma. It has p ...
... expressed genes. We validated the differential expression of several of the genes identified through Biochip analysis, by means of quantitative RT-PCR of RNA from 48 thymoma tumors. We found that GPI-80 was significantly higher in invasive thymoma (stage IV thymoma) than in stage I thymoma. It has p ...
Nucleotide Sequence and Organization of the Rat Heme Oxygenase
... binding site for Spl (reviewed in Ref. 31), are located at G A C C T 1 2 positions (-520) to (-526), (-99) to (-91) and (-58) to (-52). The first of these three is in a 3’ to 5’ orientation. The second sequence,GGGGCGGGG,is completely identical with the consensus sequences of Spl binding sites (33). ...
... binding site for Spl (reviewed in Ref. 31), are located at G A C C T 1 2 positions (-520) to (-526), (-99) to (-91) and (-58) to (-52). The first of these three is in a 3’ to 5’ orientation. The second sequence,GGGGCGGGG,is completely identical with the consensus sequences of Spl binding sites (33). ...
mRNA Expression Analysis
... transcripts by sequencing short tags rather than entire transcripts. The Illumina Tag Profiling protocol identifies mRNA transcripts by their unique, positionally known 20- or 21-base pair cDNA tag. These tags are compared to a species’ reference genome to identify the genes expressed. Tag Profiling ...
... transcripts by sequencing short tags rather than entire transcripts. The Illumina Tag Profiling protocol identifies mRNA transcripts by their unique, positionally known 20- or 21-base pair cDNA tag. These tags are compared to a species’ reference genome to identify the genes expressed. Tag Profiling ...
Evaluation of the phylogenetic position of the planctomycete
... In recent years, it has become apparent that the extent of LGT is so great that it must be regarded as one of the major driving forces of evolution. The view that all genetic information in a given lineage traces back to one common ancestor simply does not apply in the world of prokaryotes, where ea ...
... In recent years, it has become apparent that the extent of LGT is so great that it must be regarded as one of the major driving forces of evolution. The view that all genetic information in a given lineage traces back to one common ancestor simply does not apply in the world of prokaryotes, where ea ...
pdf - University of Pennsylvania
... in C. elegans reveals that multiple RNAs are translationally regulated by a similar mechanism, at different times and in different tissues during development (reviewed by Ambros, 2000). Genetic pleiotropy of the smg mutant phenotype suggests that the Smg repressor regulates not only nos, but also on ...
... in C. elegans reveals that multiple RNAs are translationally regulated by a similar mechanism, at different times and in different tissues during development (reviewed by Ambros, 2000). Genetic pleiotropy of the smg mutant phenotype suggests that the Smg repressor regulates not only nos, but also on ...
Functional Requirements of the Yellow Fever Virus Capsid Protein
... representation of the YFV genome, with open boxes denoting regions coding for the structural (white) and nonstructural (light gray) proteins that are translated as a polyprotein. The 5⬘- and 3⬘-untranslated regions (UTR) are depicted as solid lines. Also shown is a schematic representation of the YF ...
... representation of the YFV genome, with open boxes denoting regions coding for the structural (white) and nonstructural (light gray) proteins that are translated as a polyprotein. The 5⬘- and 3⬘-untranslated regions (UTR) are depicted as solid lines. Also shown is a schematic representation of the YF ...
Structural organization of the transfer RNA gene clusters of cholera
... most cases, host aminoacyl-tRNA synthetases and tRNAs. However, infections of Escherichia coli cells with T5 (Scherberg and Weiss 1970) and T-even phages (McClain et al 1972; Wilson et al 1972; Desai and Weiss 1977) induce the synthesis of a large number of tRNA species coded by the phage genome. A ...
... most cases, host aminoacyl-tRNA synthetases and tRNAs. However, infections of Escherichia coli cells with T5 (Scherberg and Weiss 1970) and T-even phages (McClain et al 1972; Wilson et al 1972; Desai and Weiss 1977) induce the synthesis of a large number of tRNA species coded by the phage genome. A ...
Non-coding RNA
A non-coding RNA (ncRNA) is an RNA molecule that is not translated into a protein. Less-frequently used synonyms are non-protein-coding RNA (npcRNA), non-messenger RNA (nmRNA) and functional RNA (fRNA). The DNA sequence from which a functional non-coding RNA is transcribed is often called an RNA gene.Non-coding RNA genes include highly abundant and functionally important RNAs such as transfer RNAs (tRNAs) and ribosomal RNAs (rRNAs), as well as RNAs such as snoRNAs, microRNAs, siRNAs, snRNAs, exRNAs, and piRNAs and the long ncRNAs that include examples such as Xist and HOTAIR (see here for a more complete list of ncRNAs). The number of ncRNAs encoded within the human genome is unknown; however, recent transcriptomic and bioinformatic studies suggest the existence of thousands of ncRNAs., but see Since many of the newly identified ncRNAs have not been validated for their function, it is possible that many are non-functional. It is also likely that many ncRNAs are non functional (sometimes referred to as Junk RNA), and are the product of spurious transcription.