center - University of California, Santa Cruz
... Other Databases • Genome databases - one for each assembly of each organism: hg17, mm6, canFam1, etc. • hgCentral - home to dbDb and user settings info. One database shared by all web servers. • hgFixed - mostly microarray data. • uniProt - Relationalized SwissProt/trEMBL database. • go - Gene onto ...
... Other Databases • Genome databases - one for each assembly of each organism: hg17, mm6, canFam1, etc. • hgCentral - home to dbDb and user settings info. One database shared by all web servers. • hgFixed - mostly microarray data. • uniProt - Relationalized SwissProt/trEMBL database. • go - Gene onto ...
Return to the RNAi world: rethinking gene expression and
... remarkably stable differentiation events can be maintained for the entire life of an organism without any underlying changes in the DNA sequence. The germline cells, which in C. elegans inherit PIE-1 protein, are the only cells that retain the potential to launch the developmental program again in t ...
... remarkably stable differentiation events can be maintained for the entire life of an organism without any underlying changes in the DNA sequence. The germline cells, which in C. elegans inherit PIE-1 protein, are the only cells that retain the potential to launch the developmental program again in t ...
paper by Acquisti, Elser and Kumar
... reflects differences in the overall contribution of RNA and DNA to cellular biomass: DNA generally contributes less than 2% to overall organismal biomass, whereas RNA can constitute up to 15% of the biomass in multicellular eukaryotes (Sterner & Elser 2002; Elser et al. 2003). These results are also ...
... reflects differences in the overall contribution of RNA and DNA to cellular biomass: DNA generally contributes less than 2% to overall organismal biomass, whereas RNA can constitute up to 15% of the biomass in multicellular eukaryotes (Sterner & Elser 2002; Elser et al. 2003). These results are also ...
study guide for Vlad
... A process that may explain the observation that paralogous genes within one species are more closely related to each other than to members of the same gene family in another species, even though the gene duplication event preceded the speciation event. (Wikipedia) (x2) A leaf that is deeply divided ...
... A process that may explain the observation that paralogous genes within one species are more closely related to each other than to members of the same gene family in another species, even though the gene duplication event preceded the speciation event. (Wikipedia) (x2) A leaf that is deeply divided ...
cinnabar - UWL faculty websites
... region covered by the walk is deleted in the l(2)cn s4 hso chromosome. In contrast, DNA from the Df(2R)cn 7969 showed wild-type levels of hybridization to AF2 (Figure 3, lane I compared to 2), and )~E6 (not shown), but reduced levels with AH2 (Figure 3, lane 7 compared to 8) and AJ1 (not shown). )~G ...
... region covered by the walk is deleted in the l(2)cn s4 hso chromosome. In contrast, DNA from the Df(2R)cn 7969 showed wild-type levels of hybridization to AF2 (Figure 3, lane I compared to 2), and )~E6 (not shown), but reduced levels with AH2 (Figure 3, lane 7 compared to 8) and AJ1 (not shown). )~G ...
Journal of Biotechnology
... The complete genome sequence of Bacillus amyloliquefaciens type strain DSM7T is presented. A comparative analysis between the genome sequences of the plant associated strain FZB42 (Chen et al., 2007) with the genome of B. amyloliquefaciens DSM7T revealed obvious differences in the variable part of t ...
... The complete genome sequence of Bacillus amyloliquefaciens type strain DSM7T is presented. A comparative analysis between the genome sequences of the plant associated strain FZB42 (Chen et al., 2007) with the genome of B. amyloliquefaciens DSM7T revealed obvious differences in the variable part of t ...
Ch. 8: Presentation Slides
... • Other transposable elements in bacteria contain one or more genes unrelated to transposition that can be mobilized along with the transposable element; this type of element is called a transposon • Transposons can insert into plasmids that can be transferred to recipient cells by conjugation ...
... • Other transposable elements in bacteria contain one or more genes unrelated to transposition that can be mobilized along with the transposable element; this type of element is called a transposon • Transposons can insert into plasmids that can be transferred to recipient cells by conjugation ...
Immunome database for marsupials and monotremes Open Access
... and platypus sequences were annotated using a curated list of human immune genes from the IRIS database [51]. For predicted genes, candidate gene regions were first identified using either BLAST [10] or HMMER hidden Markov model [52] searches. Following this, best hits were either concatenated into ...
... and platypus sequences were annotated using a curated list of human immune genes from the IRIS database [51]. For predicted genes, candidate gene regions were first identified using either BLAST [10] or HMMER hidden Markov model [52] searches. Following this, best hits were either concatenated into ...
Introduction Exercise 1: Measuring gene expression
... previous exercise we found that ANXA2 had the highest readcount but what if this gene has a high readcount in any sample? To understand what expression levels mean in a relative context we need normalization and apply statistical testing. A very popular tool that allows to do this with RNA-Seq data ...
... previous exercise we found that ANXA2 had the highest readcount but what if this gene has a high readcount in any sample? To understand what expression levels mean in a relative context we need normalization and apply statistical testing. A very popular tool that allows to do this with RNA-Seq data ...
Topline Evaluation Scoring (TES)
... The TES uses the ‘A’ through ‘D’ grading scale, with an ‘A’ showing ‘ideal’ over-all muscling and a ‘D’ showing muscle atrophy in all three of the areas that make up their topline. Topline Evaluation is an indicator of the amino acids in a horses’ diet and if they are in adequate supply or are they ...
... The TES uses the ‘A’ through ‘D’ grading scale, with an ‘A’ showing ‘ideal’ over-all muscling and a ‘D’ showing muscle atrophy in all three of the areas that make up their topline. Topline Evaluation is an indicator of the amino acids in a horses’ diet and if they are in adequate supply or are they ...
Expressed sequence tag (EST) - Washington State University
... assign them into functional categories. The PipeOnline database is searchable by the name of the protein or the name of the organism with the closest homolog. The data in PipeOnline can also be browsed to examine contigs with high scoring pairs, expectation, or bit-score criteria. We chose to consid ...
... assign them into functional categories. The PipeOnline database is searchable by the name of the protein or the name of the organism with the closest homolog. The data in PipeOnline can also be browsed to examine contigs with high scoring pairs, expectation, or bit-score criteria. We chose to consid ...
emboj2008205-sup
... CUP1, SFA1derivative of TP strains described in Narayanan et al., 2006. GAA/TTC repeats of length 20, 60, 120 and 230 were integrated into LYS2 in two orientations using the dellito perfetto technique (Storici et al., 2001). GAA repeats located on the plasmids (Krasilnikova and Mirkin, 2004) were ...
... CUP1, SFA1derivative of TP strains described in Narayanan et al., 2006. GAA/TTC repeats of length 20, 60, 120 and 230 were integrated into LYS2 in two orientations using the dellito perfetto technique (Storici et al., 2001). GAA repeats located on the plasmids (Krasilnikova and Mirkin, 2004) were ...
Gibson Second Edition
... 1. Generation of high-resolution genetic and physical maps that will help in the localization of disease-associated genes. 2. The attainment of sequence benchmarks, leading to generation of a complete genome sequence by the year 2005. (A draft version was achieved in May 2000, but finished sequence ...
... 1. Generation of high-resolution genetic and physical maps that will help in the localization of disease-associated genes. 2. The attainment of sequence benchmarks, leading to generation of a complete genome sequence by the year 2005. (A draft version was achieved in May 2000, but finished sequence ...
Chp 18 Viruses and Bacteria
... ï Released virions can infect nearby cells. ï Lytic cycle takes only 20 to 30 minutes at 37°C. In that period, a T4 population can increase a hundredfold. Bacteria have several defenses against destruction by phage infection. ï Bacterial mutations can change receptor sites used by phages for recogni ...
... ï Released virions can infect nearby cells. ï Lytic cycle takes only 20 to 30 minutes at 37°C. In that period, a T4 population can increase a hundredfold. Bacteria have several defenses against destruction by phage infection. ï Bacterial mutations can change receptor sites used by phages for recogni ...
BioMart Mining data- worked example The human gene encoding
... Mining data- worked example The human gene encoding Glucose-6-phosphate dehydrogenase (G6PD) is located on chromosome X in cytogenetic band q28. Which other genes related to human diseases locate to the same band? What are their Ensembl Gene IDs and Entrez Gene IDs? What are their cDNA sequences? Fo ...
... Mining data- worked example The human gene encoding Glucose-6-phosphate dehydrogenase (G6PD) is located on chromosome X in cytogenetic band q28. Which other genes related to human diseases locate to the same band? What are their Ensembl Gene IDs and Entrez Gene IDs? What are their cDNA sequences? Fo ...
(lectures 24
... bridge and the other has no centromeres and gets lost. 6. The bridge structure is stretched between the two products of the first meitoic cell division, and it breaks at an unpredictable point on the bridge. 7. The result are gametes that have big duplications or deficiences, so they do not have the ...
... bridge and the other has no centromeres and gets lost. 6. The bridge structure is stretched between the two products of the first meitoic cell division, and it breaks at an unpredictable point on the bridge. 7. The result are gametes that have big duplications or deficiences, so they do not have the ...
Genome browser - Indiana University
... – Harmful (diabetes, cancer, heart disease, Huntington's disease, and hemophilia ) – Latent (variations found in coding and regulatory regions, are not harmful on their own, and the change in each gene only becomes apparent under certain conditions e.g. susceptibility to lung cancer) ...
... – Harmful (diabetes, cancer, heart disease, Huntington's disease, and hemophilia ) – Latent (variations found in coding and regulatory regions, are not harmful on their own, and the change in each gene only becomes apparent under certain conditions e.g. susceptibility to lung cancer) ...
Transcription and Processing
... Glyphosate is an herbicide used to kill weeds. It is the main component of a product made by the Monsanto Company called Roundup. Glyphosate kills plants by inhibiting an enzyme in the shikimate pathway called EPSPS. This herbicide is considered safe because animals do not have the shikimate pathway ...
... Glyphosate is an herbicide used to kill weeds. It is the main component of a product made by the Monsanto Company called Roundup. Glyphosate kills plants by inhibiting an enzyme in the shikimate pathway called EPSPS. This herbicide is considered safe because animals do not have the shikimate pathway ...
McElwain, Mark: A Critical Review of Gene Prediction Software
... differences in their predictive power. Burset and Guigo compared several programs including the abovementioned FGENEH and GRAIL 2 on a set of 570 sequences (Burset and Guigo, 1996). They found that, at the nucleotide level, FGENEH performed with sensitivity = 0.77 and specificity = 0.88, while GRAI ...
... differences in their predictive power. Burset and Guigo compared several programs including the abovementioned FGENEH and GRAIL 2 on a set of 570 sequences (Burset and Guigo, 1996). They found that, at the nucleotide level, FGENEH performed with sensitivity = 0.77 and specificity = 0.88, while GRAI ...
Understanding mechanisms of novel gene expression in
... of polyploids in nature or their selection for use in agriculture. Although the causes of novel variation in polyploids are not well understood, they could involve changes in gene expression through increased variation in dosage-regulated gene expression, altered regulatory interactions, and rapid g ...
... of polyploids in nature or their selection for use in agriculture. Although the causes of novel variation in polyploids are not well understood, they could involve changes in gene expression through increased variation in dosage-regulated gene expression, altered regulatory interactions, and rapid g ...
Gene models - Wheat Training
... they are based on. Transcriptome data and gene models from related species are often used to help define correct gene models in a species. As with genome assemblies it is vital for researchers using gene models to understand how they were created in order to be aware of shortcomings and potential pi ...
... they are based on. Transcriptome data and gene models from related species are often used to help define correct gene models in a species. As with genome assemblies it is vital for researchers using gene models to understand how they were created in order to be aware of shortcomings and potential pi ...
Microarray Analysis of Drosophila Development During
... (before the late larval ecdysone pulse) but then fall to low or undetectable levels during this pulse. This category is colored red in the first column. They are potentially repressed by ecdysone The second category consists of genes expressed at low or undetectable levels before the late larval ecd ...
... (before the late larval ecdysone pulse) but then fall to low or undetectable levels during this pulse. This category is colored red in the first column. They are potentially repressed by ecdysone The second category consists of genes expressed at low or undetectable levels before the late larval ecd ...
Module 2: T-COFFEE & Module 8: Horizontal Gene Transfer
... – Tree-based Consistency Objective Function for alignment Evaluation • Focuses on orthologous gene sequences • Used to generate multiple sequence alignments ...
... – Tree-based Consistency Objective Function for alignment Evaluation • Focuses on orthologous gene sequences • Used to generate multiple sequence alignments ...
Cis-regulatory mutations in human disease
... coagulation Factor IX and low-density lipoprotein receptor (LDLR), respectively. Cis-regulatory mutations in each of these genes have several features in common. Firstly, they are less frequent than coding mutations. Typically, the promoter region of a candidate disease gene is only screened for mut ...
... coagulation Factor IX and low-density lipoprotein receptor (LDLR), respectively. Cis-regulatory mutations in each of these genes have several features in common. Firstly, they are less frequent than coding mutations. Typically, the promoter region of a candidate disease gene is only screened for mut ...
“Indeed, the Homeobox has been called the `Rosetta Stone` of
... Figure 11.42(1) Evolutionary Conservation of Homeotic Gene Organization and Transcriptional Expression ...
... Figure 11.42(1) Evolutionary Conservation of Homeotic Gene Organization and Transcriptional Expression ...
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.