Down Syndrome: Antonarakis et al. (2004)
... cerevisiae genes. Subsequent on-going analysis based on computational methods, EST sequencing, laboratory verification and comparative genome analysis, resulted in an estimated 261–364 protein-coding genes (TABLE 1, references wherein and REFS 18,21–28). These include potential transcripts that are ...
... cerevisiae genes. Subsequent on-going analysis based on computational methods, EST sequencing, laboratory verification and comparative genome analysis, resulted in an estimated 261–364 protein-coding genes (TABLE 1, references wherein and REFS 18,21–28). These include potential transcripts that are ...
Regulation of bolting and identification of the α
... Each TUA gene loci in A. thaliana was used to search all the TUA gene sequences of B. rapa present in BRAD. Each predicted B. rapa TUA gene sequence was confirmed using FGENESH (http://www.softberry.com/berry.phtml?topic=fgenesh). The overall analysis revealed that the BrTUA gene family comprised of ...
... Each TUA gene loci in A. thaliana was used to search all the TUA gene sequences of B. rapa present in BRAD. Each predicted B. rapa TUA gene sequence was confirmed using FGENESH (http://www.softberry.com/berry.phtml?topic=fgenesh). The overall analysis revealed that the BrTUA gene family comprised of ...
How Genes and Genomes Evolve
... • Most cell types can be cultured but only cells that express telomerase can be immortalized • DNA can be cut reliably and in a repeatable manner using restriction enzymes – Be aware of the details of restriction endonucleases ...
... • Most cell types can be cultured but only cells that express telomerase can be immortalized • DNA can be cut reliably and in a repeatable manner using restriction enzymes – Be aware of the details of restriction endonucleases ...
Genome reduction as the dominant mode of evolution
... endosymbiont Buchnera aphidicola showed that metabolic requirements could determine not only the end point of genomic reduction but to some extent also the order of the gene deletion [38]. Moreover, the reductive trend is countered by proliferation of genes involved in parasite-host interaction such ...
... endosymbiont Buchnera aphidicola showed that metabolic requirements could determine not only the end point of genomic reduction but to some extent also the order of the gene deletion [38]. Moreover, the reductive trend is countered by proliferation of genes involved in parasite-host interaction such ...
April Fools Paper slide
... Single nucleotide mismatches between the crRNA and target sequence abolishes DNA cleavage • Cleavage efficiency was tested with an array of crRNAs with a single base mismatch from the target • Mismatches up to 11 bp 5’ of the PAM site abolished cleavage • Mismatches farther upstream retained effici ...
... Single nucleotide mismatches between the crRNA and target sequence abolishes DNA cleavage • Cleavage efficiency was tested with an array of crRNAs with a single base mismatch from the target • Mismatches up to 11 bp 5’ of the PAM site abolished cleavage • Mismatches farther upstream retained effici ...
Gene Prediction - Compgenomics2010
... Viterbi algorithm then calculates the functional sequence X* such that P(X*|S) is the largest among all possible values of X. ...
... Viterbi algorithm then calculates the functional sequence X* such that P(X*|S) is the largest among all possible values of X. ...
BiGCaT
... and map expression results Example QTL1a With a number of (slightly) upregulated genes ...
... and map expression results Example QTL1a With a number of (slightly) upregulated genes ...
Complex History of a Chromosomal Paralogy Region: Insights from
... on one chromosome has linked relatives on another, it seems reasonable to assume that each paralogous pair arose simultaneously, by chromosome duplication. However, our characterization of an amphioxus AAAH gene and our molecular phylogenetic analyses of AAAH genes and insulin-related genes have yie ...
... on one chromosome has linked relatives on another, it seems reasonable to assume that each paralogous pair arose simultaneously, by chromosome duplication. However, our characterization of an amphioxus AAAH gene and our molecular phylogenetic analyses of AAAH genes and insulin-related genes have yie ...
The study of threshold determination of gene identification and its
... In order to assess the methods of determining threshold and compare them with the method of using a fixed threshold value about 2, we chose 4 representative groups of gene sequences based on the famous biological data sites: http://www.ncbi.nlm.nih.gov/guide/. The accuracy statistics can be shown in ...
... In order to assess the methods of determining threshold and compare them with the method of using a fixed threshold value about 2, we chose 4 representative groups of gene sequences based on the famous biological data sites: http://www.ncbi.nlm.nih.gov/guide/. The accuracy statistics can be shown in ...
TITLE: Survey of Misannotations and Pseudogenes in the
... Mentor: Kousuke Hanada and Shin-Han Shiu, Department of Plant Biology, Michigan State University Abstract There are occasions where there are misannotations that sometimes are due to the existence of pseudogenes. This makes it difficult to conduct accurate research with this data. In the preliminary ...
... Mentor: Kousuke Hanada and Shin-Han Shiu, Department of Plant Biology, Michigan State University Abstract There are occasions where there are misannotations that sometimes are due to the existence of pseudogenes. This makes it difficult to conduct accurate research with this data. In the preliminary ...
- Biological Sciences
... share conserved sequence positions with other vertebrate tRNA genes. Thus, the platypus genome exhibits neither the unusual structure of the tRNALys gene (Janke et al. 1994) nor the unconventional anticodon of the tRNAAsp gene (Janke and Pääbo 1993) seen in the marsupial Didelphis virginiana. Furt ...
... share conserved sequence positions with other vertebrate tRNA genes. Thus, the platypus genome exhibits neither the unusual structure of the tRNALys gene (Janke et al. 1994) nor the unconventional anticodon of the tRNAAsp gene (Janke and Pääbo 1993) seen in the marsupial Didelphis virginiana. Furt ...
Testing enhancers predicted by high constraint
... expression of genes and defining their function in vivo remains a significant challenge in the annotation of vertebrate genomes. One major obstacle is the lack of experimentally validated training sets. In this study, we made use of extreme evolutionary sequence conservation as a filter to identify ...
... expression of genes and defining their function in vivo remains a significant challenge in the annotation of vertebrate genomes. One major obstacle is the lack of experimentally validated training sets. In this study, we made use of extreme evolutionary sequence conservation as a filter to identify ...
Exercises Biological databases PART ensembl
... consensus coding sequence project and they are confirmed by Havana, ensemble, NCBI and USCS genome browser. So they are consensus transcripts. In this view several tracks are shown and turned on by default: these are the %GC, regulatory regions (zoom at the legend, can you pinpoint promotor of pax6 ...
... consensus coding sequence project and they are confirmed by Havana, ensemble, NCBI and USCS genome browser. So they are consensus transcripts. In this view several tracks are shown and turned on by default: these are the %GC, regulatory regions (zoom at the legend, can you pinpoint promotor of pax6 ...
PPT - Bioinformatics.ca
... • Allows very fast, cross-data source querying • Search for genes (features, sequences, etc.) or SNPs based on – Position; function; domains; similarity; expression; etc. ...
... • Allows very fast, cross-data source querying • Search for genes (features, sequences, etc.) or SNPs based on – Position; function; domains; similarity; expression; etc. ...
Small-Subunit Ribosomal RNA Sequence from
... However, the 5s rRNA genes of Euglena are also located within the rDNA tandem array (Curtis and Rawson 198 1), while those of Trypanosoma are not (Cordingley 1985 ) . This may be an indication that rDNA tandem array formation, a process likely to have occurred numerous times in the eukaryotic lineag ...
... However, the 5s rRNA genes of Euglena are also located within the rDNA tandem array (Curtis and Rawson 198 1), while those of Trypanosoma are not (Cordingley 1985 ) . This may be an indication that rDNA tandem array formation, a process likely to have occurred numerous times in the eukaryotic lineag ...
BNS216 - Staff
... each one containing a recombinant vector • Each recombinant vector contains a random region of the target chromosome • The number of microbes in the library is large • Thus any gene in the target organism’s genome is present in at least one member of the gene library ...
... each one containing a recombinant vector • Each recombinant vector contains a random region of the target chromosome • The number of microbes in the library is large • Thus any gene in the target organism’s genome is present in at least one member of the gene library ...
2001_butterfield_THE SUGARCANE GENOME
... robustum and S. officinarum, and a monoploid number of 10 for ancestral Saccharum may indicate a more ancient origin for these species than S. spontaneum. This would agree with the conclusions of Wilson et al. (1999). An alternative explanation for preferential pairing, however, could be the presenc ...
... robustum and S. officinarum, and a monoploid number of 10 for ancestral Saccharum may indicate a more ancient origin for these species than S. spontaneum. This would agree with the conclusions of Wilson et al. (1999). An alternative explanation for preferential pairing, however, could be the presenc ...
The Ancestry of a Gene - 2009
... does not become fixed in the population, rather crossing over during the fixation process entails that at every locus the genes have an ancestral pool rather than a common ancestor. If one wants to think of mutations becoming fixed, mutations must be viewed as the base pair which mutates, not the ge ...
... does not become fixed in the population, rather crossing over during the fixation process entails that at every locus the genes have an ancestral pool rather than a common ancestor. If one wants to think of mutations becoming fixed, mutations must be viewed as the base pair which mutates, not the ge ...
Fulltext PDF
... about 0.17 million base pairs. In humans, on the other hand, there are 23 pairs of chromosomes, with more complexity, harbouring about 300 million base pairs. Yet another unique attribute of Drosophila is that the cells of the salivary glands and several other tissues in the larvae have giant polyte ...
... about 0.17 million base pairs. In humans, on the other hand, there are 23 pairs of chromosomes, with more complexity, harbouring about 300 million base pairs. Yet another unique attribute of Drosophila is that the cells of the salivary glands and several other tissues in the larvae have giant polyte ...
Achieving High-Level Functionality through Complexification
... to more specific roles, since there are more of them. The partitioning is complete when redundant clusters of genes are separated enough that they no longer produce identical proteins. After partitioning, mutations within the duplicated cluster of genes alter different steps in development than muta ...
... to more specific roles, since there are more of them. The partitioning is complete when redundant clusters of genes are separated enough that they no longer produce identical proteins. After partitioning, mutations within the duplicated cluster of genes alter different steps in development than muta ...
Part_of - coccidia.icb.usp.br
... • Gene products: e.g. cytochrome c is not in the ontologies, but attributes of cytochrome c, such as oxidoreductase activity, are. • Processes, functions or components that are unique to mutants or diseases: e.g. oncogenesis is not a valid GO term because causing cancer is not the normal function of ...
... • Gene products: e.g. cytochrome c is not in the ontologies, but attributes of cytochrome c, such as oxidoreductase activity, are. • Processes, functions or components that are unique to mutants or diseases: e.g. oncogenesis is not a valid GO term because causing cancer is not the normal function of ...
Document
... motifs (5-7mers) in the input promoter sequences. It then enumerates all possible pair combinations between the top 10 motifs. These motif pairs are then evaluated the significance – P value. If the most significant motif pair has a lower P-value than a threshold, the author predict that their bindi ...
... motifs (5-7mers) in the input promoter sequences. It then enumerates all possible pair combinations between the top 10 motifs. These motif pairs are then evaluated the significance – P value. If the most significant motif pair has a lower P-value than a threshold, the author predict that their bindi ...
Arabidopsis thaliana Arabidopsis thaliana
... mustard (Brassicaceae) family, which includes cultivated species such as cabbage and radish. Arabidopsis is not of major agronomic significance, but it offers important advantages for basic research in genetics and molecular biology. ...
... mustard (Brassicaceae) family, which includes cultivated species such as cabbage and radish. Arabidopsis is not of major agronomic significance, but it offers important advantages for basic research in genetics and molecular biology. ...
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.