Names of student and superviser
... Optional, but recommended: What other methods have already been used on your data, if any? What other techniques, besides data mining, could be used to analyze your data? Very briefly describe the experimental design and how it accomplished the stated objectives. What will the results be used ...
... Optional, but recommended: What other methods have already been used on your data, if any? What other techniques, besides data mining, could be used to analyze your data? Very briefly describe the experimental design and how it accomplished the stated objectives. What will the results be used ...
Molecular-aided identification of woody plants in a tropical forest of
... Schloss, P. D. & Handelsman, J. 2005 Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl. Envir. Microbiol. 71, 1501-1506. Yu, Y., Breitbart, M., McNairnie, P. & Rohwer, F. 2006 FastgroupII: a web-based bioinformatics platform for ...
... Schloss, P. D. & Handelsman, J. 2005 Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl. Envir. Microbiol. 71, 1501-1506. Yu, Y., Breitbart, M., McNairnie, P. & Rohwer, F. 2006 FastgroupII: a web-based bioinformatics platform for ...
Connolly/Lin/Mujeeb
... (The displaced subtree of αbr is “substituted” into the foot of βpp .) Now a modifying prepositional phrase can be added at node 2.2 of the (current) derived tree. However, by our ordering rules, the modifying PP (e.g., “to the picnic”) should actually have been added to βpp before βpp is adjoined i ...
... (The displaced subtree of αbr is “substituted” into the foot of βpp .) Now a modifying prepositional phrase can be added at node 2.2 of the (current) derived tree. However, by our ordering rules, the modifying PP (e.g., “to the picnic”) should actually have been added to βpp before βpp is adjoined i ...
Sequencing genomes
... protein sequences. 1572 substitutions were found. • These mutations do not significantly alter the protein function. Hence they are called accepted mutations (accepted by natural selection). • Probabilities that any one amino acid would mutate into any other were calculated. • If I know probabilitie ...
... protein sequences. 1572 substitutions were found. • These mutations do not significantly alter the protein function. Hence they are called accepted mutations (accepted by natural selection). • Probabilities that any one amino acid would mutate into any other were calculated. • If I know probabilitie ...
History of Molecular Evolution
... Late 1960s-1970s For several years, protein sequences had been used to reconstruct the evolutionary history of genes and organisms (phylogenetic analysis). At the same time, Willi Hennig and other systematicists argued that systematics ought to be based on evolutionary relationships, especially on i ...
... Late 1960s-1970s For several years, protein sequences had been used to reconstruct the evolutionary history of genes and organisms (phylogenetic analysis). At the same time, Willi Hennig and other systematicists argued that systematics ought to be based on evolutionary relationships, especially on i ...
Appendix S2.
... We used the hypothesis of Vidal et al. (2007b) to resolve relationships among the Caenophidia. This tree was chosen over several others for both its strong nodal support and for the large number of genes used (seven nuclear protein coding genes versus two mitochondrial genes in Heise et al. 1995, 1 ...
... We used the hypothesis of Vidal et al. (2007b) to resolve relationships among the Caenophidia. This tree was chosen over several others for both its strong nodal support and for the large number of genes used (seven nuclear protein coding genes versus two mitochondrial genes in Heise et al. 1995, 1 ...
TreeFam v9: a new website, more species and orthology-on-the
... easier interpretation of the evolutionary history of the gene (see Figure 1 for an example). Orthology-on-the-fly The identification of orthologs in related organism is a routine task and many databases/tools are available to do that (see ‘Introduction’ section). Some of the databases can be installed ...
... easier interpretation of the evolutionary history of the gene (see Figure 1 for an example). Orthology-on-the-fly The identification of orthologs in related organism is a routine task and many databases/tools are available to do that (see ‘Introduction’ section). Some of the databases can be installed ...
Monday, March 23, 2009 - Lynbrook Computer Science
... Consider the binary search tree that is formed from the letters S N O W F L A K E, in that order. Now consider the binary search tree built from the letter in reverse order (that is, the letters E K A L F W O N S, in that order). Both trees have 9 nodes. What is the sum of the internal path length ...
... Consider the binary search tree that is formed from the letters S N O W F L A K E, in that order. Now consider the binary search tree built from the letter in reverse order (that is, the letters E K A L F W O N S, in that order). Both trees have 9 nodes. What is the sum of the internal path length ...
Pattern Based Sequence Classification
... problem of sequence classification using rules composed of interesting patterns found in a dataset of labelled sequences and accompanying class labels. We measure the interestingness of a pattern in a given class of sequences by combining the cohesion and the support of the pattern. We use the disco ...
... problem of sequence classification using rules composed of interesting patterns found in a dataset of labelled sequences and accompanying class labels. We measure the interestingness of a pattern in a given class of sequences by combining the cohesion and the support of the pattern. We use the disco ...
STRAW: Species TRee Analysis Web server | Nucleic Acids
... (RF) topological distance (20) between gene trees and the estimated species tree. The RF topological distance measures the tree similarity; the lower the number the greater the similarity between the gene tree and the estimated species tree. We modified the RF distance to allow missing taxa by first fi ...
... (RF) topological distance (20) between gene trees and the estimated species tree. The RF topological distance measures the tree similarity; the lower the number the greater the similarity between the gene tree and the estimated species tree. We modified the RF distance to allow missing taxa by first fi ...
Powerpoints
... Markov Chain Monte Carlo Problem: If there are multiple peaks in the probability landscape, then MCMC may get stuck on one of them Solution: Metropolis-coupled Markov Chain Monte Carlo = MCMCMC = MC3 MC3 essential features: • Run several Markov chains simultaneously • One chain “cold”: this chain pe ...
... Markov Chain Monte Carlo Problem: If there are multiple peaks in the probability landscape, then MCMC may get stuck on one of them Solution: Metropolis-coupled Markov Chain Monte Carlo = MCMCMC = MC3 MC3 essential features: • Run several Markov chains simultaneously • One chain “cold”: this chain pe ...
271HWPropLogic
... Homework Prop Logic – Inference 1. Consider the statement “The car is either at John’s house or at Fred’s house. If the car is not at John’s house then it must be at Fred’s house”. Describe a set of propositional letters which can be used to represent this statement. Describe the statement using pro ...
... Homework Prop Logic – Inference 1. Consider the statement “The car is either at John’s house or at Fred’s house. If the car is not at John’s house then it must be at Fred’s house”. Describe a set of propositional letters which can be used to represent this statement. Describe the statement using pro ...
Mitochondrialproteinphylogenyjoins myriapods with chelicerates
... supported clades (Fig. 3). Well established clades such as monophyletic Vertebrata, Eutrochozoa (Lumbricus and Katharina), Arthropoda, Decapoda (Pagurus and Penaeus) and Branchiopoda (Artemia and Daphnia), Chelicerata and Hexapoda were recovered with high branch-support values. Most basal nodes with ...
... supported clades (Fig. 3). Well established clades such as monophyletic Vertebrata, Eutrochozoa (Lumbricus and Katharina), Arthropoda, Decapoda (Pagurus and Penaeus) and Branchiopoda (Artemia and Daphnia), Chelicerata and Hexapoda were recovered with high branch-support values. Most basal nodes with ...
1) of
... instead ot simple trees, due to pervasive lateral gene transfer. Post-cladogenesis genetic exchanges can be detected by the ABBA/BABA test: 1) Construct the phylogeny of a quartet of species as if it were a tree (let us first assume that it consists of 2 pairs of sisters), 2) For traits which displa ...
... instead ot simple trees, due to pervasive lateral gene transfer. Post-cladogenesis genetic exchanges can be detected by the ABBA/BABA test: 1) Construct the phylogeny of a quartet of species as if it were a tree (let us first assume that it consists of 2 pairs of sisters), 2) For traits which displa ...
An Introduction to Bioinformatics - E-Learning/An
... Digital sequences accepted by software Starts with greater than “>” Should be no longer than 120 characters Notepad or Fench TV ...
... Digital sequences accepted by software Starts with greater than “>” Should be no longer than 120 characters Notepad or Fench TV ...
Document
... • π represents the frequency of each codon, and is approximated via amino acid and nucleotide frequencies ...
... • π represents the frequency of each codon, and is approximated via amino acid and nucleotide frequencies ...