The Incompatible Desiderata of Gene Cluster Properties
... than g. Note that the two definitions have switched roles: the local density is easily controlled by the parameter g for max-gap clusters but there is no way to constrain the local density of r-window clusters without also further constraining the maximum cluster length. This trade-off between glob ...
... than g. Note that the two definitions have switched roles: the local density is easily controlled by the parameter g for max-gap clusters but there is no way to constrain the local density of r-window clusters without also further constraining the maximum cluster length. This trade-off between glob ...
BLSSpeller: exhaustive comparative discovery of
... report all genome-wide conserved motifs. The term conserved relates to the occurrence of the motif in multiple promoter sequences of a particular gene family. Genome-wide conservation relates to the fact that this conservation occurs in more gene families than what is expected by chance. Motifs are ...
... report all genome-wide conserved motifs. The term conserved relates to the occurrence of the motif in multiple promoter sequences of a particular gene family. Genome-wide conservation relates to the fact that this conservation occurs in more gene families than what is expected by chance. Motifs are ...
The eukaryotic genome: a system regulated at different hierarchical
... How are gene clusters regulated? At least three classes of genomic element should be involved in the control of cell-typespecific expression of gene clusters. First, a cluster-control element that is responsible for switching the genomic domain between its active and inactive state should be present ...
... How are gene clusters regulated? At least three classes of genomic element should be involved in the control of cell-typespecific expression of gene clusters. First, a cluster-control element that is responsible for switching the genomic domain between its active and inactive state should be present ...
Title Heterochromatin Blocks Constituting the Entire
... with T4 DNA ligase, we introduced the treated DNA into competent bacterial cells, spread the culture on agar plates, and subsequently picked up several colonies. We selected plasmid clones with insert sizes that differed by multiples of 300 bp and sequenced them using the M13 universal primer. The ...
... with T4 DNA ligase, we introduced the treated DNA into competent bacterial cells, spread the culture on agar plates, and subsequently picked up several colonies. We selected plasmid clones with insert sizes that differed by multiples of 300 bp and sequenced them using the M13 universal primer. The ...
Integrated genome sequence and linkage map of physic nut
... and 0.746 Mbp, respectively, which are approximately 1.8 and 46.8 times longer, respectively, than the reported physic nut genome (Hirakawa et al., 2012). As the result of short contigs and scaffolds, too many predicted genes in their study were fragmented. Only 17 Mbp (6%) of their assembly (but ab ...
... and 0.746 Mbp, respectively, which are approximately 1.8 and 46.8 times longer, respectively, than the reported physic nut genome (Hirakawa et al., 2012). As the result of short contigs and scaffolds, too many predicted genes in their study were fragmented. Only 17 Mbp (6%) of their assembly (but ab ...
Supplementary document Trehalose/2
... genera in 13 different environments with salinities ranging from permanently hypersaline ...
... genera in 13 different environments with salinities ranging from permanently hypersaline ...
Mitochondrial genes in the colourless alga Prototheca wickerhamii
... P.wickerhamii Introns are structurally related to mitochondrial Introns from various ascomycetous fungi. (2) Phylogenetic analyses Indicate a close relationship between fungal and algal Intronic sequences. (3) The P. wickerhamii Introns are located at positions within the structural genes which can ...
... P.wickerhamii Introns are structurally related to mitochondrial Introns from various ascomycetous fungi. (2) Phylogenetic analyses Indicate a close relationship between fungal and algal Intronic sequences. (3) The P. wickerhamii Introns are located at positions within the structural genes which can ...
Pattern of diversity in the genomic region near the
... species. The tb1 gene largely controls the increase in apical dominance in maize relative to teosinte, and a region of the tb1 locus 5ⴕ to the transcript sequence was a target of selection during maize domestication. To better characterize the impact of selection at a major ‘‘domestication’’ locus, ...
... species. The tb1 gene largely controls the increase in apical dominance in maize relative to teosinte, and a region of the tb1 locus 5ⴕ to the transcript sequence was a target of selection during maize domestication. To better characterize the impact of selection at a major ‘‘domestication’’ locus, ...
Protein sequence comparisons show that the
... N-terminal portions of the HSV-1, VZV and EBV dUTPases, of some 200 residues, show little overall sequence similarity to each other, with only one convincingly conserved region. An alignment of this region and its surroundings is presented in Fig. 2. As shown in the figure, this conserved region is ...
... N-terminal portions of the HSV-1, VZV and EBV dUTPases, of some 200 residues, show little overall sequence similarity to each other, with only one convincingly conserved region. An alignment of this region and its surroundings is presented in Fig. 2. As shown in the figure, this conserved region is ...
Ensembl Compara Perl API
... 1. Fetch all the BLASTZ_NET alignments between the first 130K nucleotides of the human chromosome X and the mouse genome. 2. Print the exact location of the alignment blocks. 3. Compare the original and the aligned sequences. 4. Find the BLASTZ_NET alignments between human gene BRCA2 and the mouse g ...
... 1. Fetch all the BLASTZ_NET alignments between the first 130K nucleotides of the human chromosome X and the mouse genome. 2. Print the exact location of the alignment blocks. 3. Compare the original and the aligned sequences. 4. Find the BLASTZ_NET alignments between human gene BRCA2 and the mouse g ...
Functional genomics in chickens
... The genetic networks that govern the differentiation and growth of major tissues of economic importance in the chicken are largely unknown. Under a functional genomics project, our consortium has generated 30 609 expressed sequence tags (ESTs) and developed several chicken DNA microarrays, which rep ...
... The genetic networks that govern the differentiation and growth of major tissues of economic importance in the chicken are largely unknown. Under a functional genomics project, our consortium has generated 30 609 expressed sequence tags (ESTs) and developed several chicken DNA microarrays, which rep ...
source file - MIMG — UCLA
... For genes with possible alternative start codon…It’s time to BLAST! • BLAST your results: – Construct a “revised” protein sequence in FASTA format (add or subtract amino acid residues in proper reading frame to reflect new start codon position then copy/paste into lab notebook). ...
... For genes with possible alternative start codon…It’s time to BLAST! • BLAST your results: – Construct a “revised” protein sequence in FASTA format (add or subtract amino acid residues in proper reading frame to reflect new start codon position then copy/paste into lab notebook). ...
Chromosomal Clustering of Periodically Expressed Genes
... very similar to the profiles of the 4 representative genes shown in Figure 2. Our proposed method clearly identifies stagespecific patterns. ...
... very similar to the profiles of the 4 representative genes shown in Figure 2. Our proposed method clearly identifies stagespecific patterns. ...
Special Feature —Manipulating Genes to Understand
... advances in our understanding of the mechanisms of gene expression and regulation and the development of animal models of human diseases are but two examples of how this technology has affected medical science. Transgenic animals are defined as animals in which a segment of DNA has been physically i ...
... advances in our understanding of the mechanisms of gene expression and regulation and the development of animal models of human diseases are but two examples of how this technology has affected medical science. Transgenic animals are defined as animals in which a segment of DNA has been physically i ...
unique features of the plant life cycle and their consequences
... can undergo meiosis to produce eggs and sperm. Germcell specification occurs by several mechanisms, including the differential distribution of material stored in the egg (in worms and flies) and fate decisions at the time of gastrulation (in mammals)26,27. By contrast, the stemcell population that d ...
... can undergo meiosis to produce eggs and sperm. Germcell specification occurs by several mechanisms, including the differential distribution of material stored in the egg (in worms and flies) and fate decisions at the time of gastrulation (in mammals)26,27. By contrast, the stemcell population that d ...
Enlis Genome Research - Release Notes
... - Main Application: Added Homozygous Regions Detector tool. Find regions of the genome with "runs" of consecutive homozygous variants. For rare disease analysis, these regions may indicate a consanguineous union, and provide a starting point for finding recessive disease. In tumor samples, these reg ...
... - Main Application: Added Homozygous Regions Detector tool. Find regions of the genome with "runs" of consecutive homozygous variants. For rare disease analysis, these regions may indicate a consanguineous union, and provide a starting point for finding recessive disease. In tumor samples, these reg ...
Slide 1
... • Tell me what’s interesting about these genes – Are they enriched in known pathways, complexes, functions Analysis tools ...
... • Tell me what’s interesting about these genes – Are they enriched in known pathways, complexes, functions Analysis tools ...
Polymorphic miRNA-mediated gene regulation: contribution to
... and polyadenylation. At least half of them are proteinencoding mRNAs, whereas the remainder are so-called ‘mRNA-like non-coding RNAs’. The miRNA precursor hairpins are usually embedded in the introns of their host genes (80%), but can be found in exons or across exon– intron boundaries. Tandem clus ...
... and polyadenylation. At least half of them are proteinencoding mRNAs, whereas the remainder are so-called ‘mRNA-like non-coding RNAs’. The miRNA precursor hairpins are usually embedded in the introns of their host genes (80%), but can be found in exons or across exon– intron boundaries. Tandem clus ...
BMC Evolutionary Biology D- and L-lactate dehydrogenases during invertebrate evolution
... It is commonly accepted that new metabolic capacities of L-LDH enzymes have often arisen by gene duplications in addition to more orthodox evolutionary changes in existing genes. For this reason the Ldh gene family has been used as a model for gene duplication in vertebrate evolution [8,10]. It is g ...
... It is commonly accepted that new metabolic capacities of L-LDH enzymes have often arisen by gene duplications in addition to more orthodox evolutionary changes in existing genes. For this reason the Ldh gene family has been used as a model for gene duplication in vertebrate evolution [8,10]. It is g ...
Homology - a persona..
... can lead to a tree that has the correct phylogeny for the sequences but not for the taxa from which they derive; a gene tree is not necessarily a species tree. Xenology is defined as that condition (horizontal transfer) where the history of the gene involves an interspecies transfer of genetic mater ...
... can lead to a tree that has the correct phylogeny for the sequences but not for the taxa from which they derive; a gene tree is not necessarily a species tree. Xenology is defined as that condition (horizontal transfer) where the history of the gene involves an interspecies transfer of genetic mater ...
Slide 1 - Kenwood Academy High School
... the gene, the proper protein could be produced and the disease could be eliminated. It may sound like science fiction, but scientists have already opened the door to this molecular treatment known as gene therapy. Gene therapy is the practice of inserting functional genes into a person’s genome to r ...
... the gene, the proper protein could be produced and the disease could be eliminated. It may sound like science fiction, but scientists have already opened the door to this molecular treatment known as gene therapy. Gene therapy is the practice of inserting functional genes into a person’s genome to r ...
Studies of codon usage and tRNA genes of 18 unicellular organisms
... The 18 organisms are as follows: yeast S. cerevisiae, Aquifex aeolicus, Archaeoglobus fulgidus, B. subtilis, Borrelia burgdorferi, Chlamydia trachomatis, E. coli, Haemophilus influenzae, Helicobacter pylori, Methanococcus jannaschii, Methanobacterium thermoautotrophicum, Mycobacterium tuberculosis, ...
... The 18 organisms are as follows: yeast S. cerevisiae, Aquifex aeolicus, Archaeoglobus fulgidus, B. subtilis, Borrelia burgdorferi, Chlamydia trachomatis, E. coli, Haemophilus influenzae, Helicobacter pylori, Methanococcus jannaschii, Methanobacterium thermoautotrophicum, Mycobacterium tuberculosis, ...
Presentation
... • Built-in access to Glimmer 3.02 gene finder • The labelled boxes are anchors for sequence analysis • Segments of DNA can also be marked as a Feature for further analysis ...
... • Built-in access to Glimmer 3.02 gene finder • The labelled boxes are anchors for sequence analysis • Segments of DNA can also be marked as a Feature for further analysis ...
About OMICS Group
... A large proportion of the DEGs between Brassica hexaploid and its parents was involved in biosynthesis of secondary metabolites, plant-pathogen interaction, photosynthesis, and plant hormone signal transduction There were bigger differences on the level of gene expression between the hexaploid an ...
... A large proportion of the DEGs between Brassica hexaploid and its parents was involved in biosynthesis of secondary metabolites, plant-pathogen interaction, photosynthesis, and plant hormone signal transduction There were bigger differences on the level of gene expression between the hexaploid an ...
Phytozome Tutorial from David Goodstein
... genes for 18 plant genomes (in version 5). Sequence similarity (BLAST/BLAT) and keywordbased searching can help you pinpoint genes and gene families of interest. You can navigate the evolutionary history of each gene family, and identify closely related families (via shared functional annotation or ...
... genes for 18 plant genomes (in version 5). Sequence similarity (BLAST/BLAT) and keywordbased searching can help you pinpoint genes and gene families of interest. You can navigate the evolutionary history of each gene family, and identify closely related families (via shared functional annotation or ...
Transposable element
A transposable element (TE or transposon) is a DNA sequence that can change its position within the genome, sometimes creating or reversing mutations and altering the cell's genome size. Transposition often results in duplication of the TE. Barbara McClintock's discovery of these jumping genes earned her a Nobel prize in 1983.TEs make up a large fraction of the C-value of eukaryotic cells. There are at least two classes of TEs: class I TEs generally function via reverse transcription, while class II TEs encode the protein transposase, which they require for insertion and excision, and some of these TEs also encode other proteins. It has been shown that TEs are important in genome function and evolution. In Oxytricha, which has a unique genetic system, they play a critical role in development. They are also very useful to researchers as a means to alter DNA inside a living organism.