The nucleotide sequence of Saccharomyces cerevisiae
... A pair of genes from a clustered duplication can also differ in the presence of an intron. Both YDR055w and YBRO78w are homologous to the gene SPS2, but only YBR078w has an intron, and the CAI of the two genes differs from 0.27 (YDR055w) to 0.61 (YBR078w), suggesting an unusual evolutionary process. ...
... A pair of genes from a clustered duplication can also differ in the presence of an intron. Both YDR055w and YBRO78w are homologous to the gene SPS2, but only YBR078w has an intron, and the CAI of the two genes differs from 0.27 (YDR055w) to 0.61 (YBR078w), suggesting an unusual evolutionary process. ...
Lacroix_Insyght navigating amongst abundant - Migale
... Figure 2. Overview and close-up of the genomic organization view. The overview figure at the top shows that this view is organized into two different parts: on the right side, the comparison results are stacked up on top of each other, each within its own window. On the left side, different stack pa ...
... Figure 2. Overview and close-up of the genomic organization view. The overview figure at the top shows that this view is organized into two different parts: on the right side, the comparison results are stacked up on top of each other, each within its own window. On the left side, different stack pa ...
Chromosomes
... • Bacterial chromosomal DNA is usually a circular molecule that is a few million nucleotides in length – Escherichia coli Æ ~ 4.6 million base pairs – Haemophilus influenzae Æ ~ 1.8 million base pairs • A typical bacterial chromosome contains a few thousand different genes – Structural gene sequenc ...
... • Bacterial chromosomal DNA is usually a circular molecule that is a few million nucleotides in length – Escherichia coli Æ ~ 4.6 million base pairs – Haemophilus influenzae Æ ~ 1.8 million base pairs • A typical bacterial chromosome contains a few thousand different genes – Structural gene sequenc ...
U6 snRNA genes of Arabidopsis are transcribed
... usually located internally, within the coding region; tRNA and 5S rRNA genes containing internal A and B (or C) boxes are examples of such genes (2,5,6). In recent years, however, this distinction between pol II and pol in promoters has become much less rigid, (i) It has been found that efficient tr ...
... usually located internally, within the coding region; tRNA and 5S rRNA genes containing internal A and B (or C) boxes are examples of such genes (2,5,6). In recent years, however, this distinction between pol II and pol in promoters has become much less rigid, (i) It has been found that efficient tr ...
Gene Regulation
... • Different combinations of these features (of CRMs) have been used, often with PWM information, to predict regulatory elements for specific TFs. • However, very few existing methods are designed to be applied on a genome-wide scale without prior knowledge about sets of interacting TFs or sets of co ...
... • Different combinations of these features (of CRMs) have been used, often with PWM information, to predict regulatory elements for specific TFs. • However, very few existing methods are designed to be applied on a genome-wide scale without prior knowledge about sets of interacting TFs or sets of co ...
Bioinfo primer - part 6/6
... • High throughput technologies give us long lists of the parts of systems (chromosomes, genomes, cells, etc). We can now analyse how they work together to produce the complexity of the organisms. • The function of the genome is – Metabolism: metabolic pathways convert chemical energy derived from fo ...
... • High throughput technologies give us long lists of the parts of systems (chromosomes, genomes, cells, etc). We can now analyse how they work together to produce the complexity of the organisms. • The function of the genome is – Metabolism: metabolic pathways convert chemical energy derived from fo ...
00Exem hard
... will be marginally less affected by genome rearrangements than the duplicates. The reduced genomes containing only the true exemplars will therefore be less arranged with respect to each other than any other pair of reduced genomes. The problem then becomes one of selecting genes from gene families ...
... will be marginally less affected by genome rearrangements than the duplicates. The reduced genomes containing only the true exemplars will therefore be less arranged with respect to each other than any other pair of reduced genomes. The problem then becomes one of selecting genes from gene families ...
Crop improvement in the 21st century
... search for homology with other known genes; this often leads to a tentative identification of the sequence to a class of genes, but in all the genomes published so far a significant number of open reading frames do not have homology to genes of known function; for example, in the Arabidopsis sequenc ...
... search for homology with other known genes; this often leads to a tentative identification of the sequence to a class of genes, but in all the genomes published so far a significant number of open reading frames do not have homology to genes of known function; for example, in the Arabidopsis sequenc ...
2015.04.09.UMinn Resurgence of Ref Quality Genomes
... • Extremely high sequence identity (>99.9%) • Thousands of gaps filled, hundreds of mis-assemblies corrected • Complete gene models, promoter regions for nearly every gene • True representation of transposons and other complex features • Opportunities for studying large scale chromosome evoluti ...
... • Extremely high sequence identity (>99.9%) • Thousands of gaps filled, hundreds of mis-assemblies corrected • Complete gene models, promoter regions for nearly every gene • True representation of transposons and other complex features • Opportunities for studying large scale chromosome evoluti ...
2 - GEP Community Server
... 2. An initial report describing the annotation of one gene found in each student’s data set is required on Feb. 4. This is worth 10 points. 3. The complete annotation report is due on March 4. This is worth 28points. 4. The simulations report is due on March 25. This is worth 10 points. 5. The compl ...
... 2. An initial report describing the annotation of one gene found in each student’s data set is required on Feb. 4. This is worth 10 points. 3. The complete annotation report is due on March 4. This is worth 28points. 4. The simulations report is due on March 25. This is worth 10 points. 5. The compl ...
BMC Genomics - LCBB
... with 74 inversions, with a topology agrees with the reference tree, which is shown in Figure 3. We tested this data set with the original GRAPPA by ignoring the region boundaries and removing the IRb region. The inference allows inversions to occur across the IR and single copy regions. The best tre ...
... with 74 inversions, with a topology agrees with the reference tree, which is shown in Figure 3. We tested this data set with the original GRAPPA by ignoring the region boundaries and removing the IRb region. The inference allows inversions to occur across the IR and single copy regions. The best tre ...
PDF
... The acquisition of multiple genes from long terminal repeat (LTR) retrotransposons occurred in mammals. Genes belonging to a sushi-ichi-related retrotransposon homologs (SIRH) family emerged around the time of the establishment of two viviparous mammalian groups, marsupials and eutherians. These gen ...
... The acquisition of multiple genes from long terminal repeat (LTR) retrotransposons occurred in mammals. Genes belonging to a sushi-ichi-related retrotransposon homologs (SIRH) family emerged around the time of the establishment of two viviparous mammalian groups, marsupials and eutherians. These gen ...
Hybridisation techniques rely on a probe sequence which is
... Hybridisation techniques rely on a probe sequence which is complementary to the cloned gene, or to a sequence in the genome. How do you get the probe??? In order to get a probe, you need to know SOMETHING about the gene you are trying to find. 1) Protein sequence - you might have isolated the protei ...
... Hybridisation techniques rely on a probe sequence which is complementary to the cloned gene, or to a sequence in the genome. How do you get the probe??? In order to get a probe, you need to know SOMETHING about the gene you are trying to find. 1) Protein sequence - you might have isolated the protei ...
Ab initio gene prediction
... • The intron can be any length and still produce the same exons • This particular splice is between two codons (0-shifting) • The splice position can move and maintain coding frame as long as both positions move coordinately. • If one splice endpoint moves it may change reading frame ...
... • The intron can be any length and still produce the same exons • This particular splice is between two codons (0-shifting) • The splice position can move and maintain coding frame as long as both positions move coordinately. • If one splice endpoint moves it may change reading frame ...
Terauchi, R., Abe, A., Takagi, H., Tamiru, M
... phenotypes and markers from the parents to progeny, thus is usually called “linkage study.” The second genetic association approach does not involve crossing, and is applied to a population of individuals with unknown relationships to each other. This approach is commonly called “association study,” ...
... phenotypes and markers from the parents to progeny, thus is usually called “linkage study.” The second genetic association approach does not involve crossing, and is applied to a population of individuals with unknown relationships to each other. This approach is commonly called “association study,” ...
Functional analysis of the regulatory region of a zein gene in
... The protoplasts from endosperm 10 days after pollination, characterized by undetectable levels of zein transcripts and zein polypeptides [2, 22], show low levels of GUS activity for all the constructs tested. In a similar experiment Schwall and Feix [25] also report a low level of CAT activity drive ...
... The protoplasts from endosperm 10 days after pollination, characterized by undetectable levels of zein transcripts and zein polypeptides [2, 22], show low levels of GUS activity for all the constructs tested. In a similar experiment Schwall and Feix [25] also report a low level of CAT activity drive ...
Plant Genome Mapping: Strategies And Applications
... organism. A range of breeding strategies can be employed to develop different types of genetic populations, suitable to address different questions in inbreeding or outcrossing taxa. The limited resolution of genetic approaches to mapping of plant genomes are increasingly complemented by physical ap ...
... organism. A range of breeding strategies can be employed to develop different types of genetic populations, suitable to address different questions in inbreeding or outcrossing taxa. The limited resolution of genetic approaches to mapping of plant genomes are increasingly complemented by physical ap ...
279 - aaabg
... were taken at 0, 3, 7 and 21 days post-challenge (length of infection, L) with 4 biological replicates for each sample (4 parasite-tissue groups x 4 time points x 4 replicates = 64 arrays total). RNA extracts were hybridised to Affymetrix GeneChip® Bovine Genome arrays. Differential Gene Expression ...
... were taken at 0, 3, 7 and 21 days post-challenge (length of infection, L) with 4 biological replicates for each sample (4 parasite-tissue groups x 4 time points x 4 replicates = 64 arrays total). RNA extracts were hybridised to Affymetrix GeneChip® Bovine Genome arrays. Differential Gene Expression ...
supplementary information - Molecular Systems Biology
... was justified a posteriori by the inaccuracy of the predictions generated from them (data not shown). This provides indirect evidence of modularity in transcriptional regulation, suggesting that genetic co-expression results from coordinated activity of small groups of transcription factors. Shortes ...
... was justified a posteriori by the inaccuracy of the predictions generated from them (data not shown). This provides indirect evidence of modularity in transcriptional regulation, suggesting that genetic co-expression results from coordinated activity of small groups of transcription factors. Shortes ...
Power Point - Microbial Genome Program
... • This means that there are six possible amino acid sequences for the two DNA strands. • The bottom DNA strand runs complementary to the top one. Thus when reading the bottom three frames sequence, read from right to left. • In other words, read the sequence in the direction that the strand goes. ...
... • This means that there are six possible amino acid sequences for the two DNA strands. • The bottom DNA strand runs complementary to the top one. Thus when reading the bottom three frames sequence, read from right to left. • In other words, read the sequence in the direction that the strand goes. ...
High-throughput engineering of the mouse genome coupled with
... approach to generate almost any type of gene alteration, including conditional alleles, point mutations and gene swaps. Our approach to generate targeting vectors in which the coding region of a gene of interest is precisely replaced by a reporter gene involves the following steps. First, a series o ...
... approach to generate almost any type of gene alteration, including conditional alleles, point mutations and gene swaps. Our approach to generate targeting vectors in which the coding region of a gene of interest is precisely replaced by a reporter gene involves the following steps. First, a series o ...
Brassica genome structure
... n=8 to n=5 via fusion of chromosomes. It also includes 3 ancient polyploidizations. The most recent occurred in early Brassica with n=4 about 24-40 Mya. The others occurred after the mergence of Eudicots and Angiosperms. •Brassica chromosome number varies 2n=8 to 2n=256 •Sequencing of Arabidopsis yi ...
... n=8 to n=5 via fusion of chromosomes. It also includes 3 ancient polyploidizations. The most recent occurred in early Brassica with n=4 about 24-40 Mya. The others occurred after the mergence of Eudicots and Angiosperms. •Brassica chromosome number varies 2n=8 to 2n=256 •Sequencing of Arabidopsis yi ...
Screening of Gene Markers for Forensic Identification of Vaginal
... ,SERPIN B4 and SLPI .Eight genes out of these thirteen genes show expression the vaginal secretions. These genes are HBD1, MUC4, ADAMT S5, SLPI, CART1, KRT7, SPRR2B and HOXA13 (I). Other five genes namely SERPIN B4, INDO, CCL 20, CNFN and DEFA 5 show no expression at all. MUC4 and HBD1 were the gene ...
... ,SERPIN B4 and SLPI .Eight genes out of these thirteen genes show expression the vaginal secretions. These genes are HBD1, MUC4, ADAMT S5, SLPI, CART1, KRT7, SPRR2B and HOXA13 (I). Other five genes namely SERPIN B4, INDO, CCL 20, CNFN and DEFA 5 show no expression at all. MUC4 and HBD1 were the gene ...
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.