Ordered Sets
Mostrando 13-24 de 28 artigos, teses e dissertações.
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13. Algebraic aspects of the computably enumerable degrees.
A set A of nonnegative integers is computably enumerable (c.e.), also called recursively enumerable (r.e.), if there is a computable method to list its elements. The class of sets B which contain the same information as A under Turing computability (
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14. MAP2: multiple alignment of syntenic genomic sequences
We describe a multiple alignment program named MAP2 based on a generalized pairwise global alignment algorithm for handling long, different intergenic and intragenic regions in genomic sequences. The MAP2 program produces an ordered list of local multiple alignments of similar regions among sequences, where different regions between local alignments are indi
Oxford University Press.
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15. Ordered Partitioning Reveals Extended Splice-Site Consensus Information
Using recently available cDNA and genomic data (Berkeley Drosophila Genome Project; http://www.fruitfly.org), we computed a large sample of 10,057 Drosophila splice sites. An information-theoretic analysis of the nucleotide sequences adjacent to these splice sites showed a strong correlation between the sizes of introns and exons and the levels of informatio
Cold Spring Harbor Laboratory Press.
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16. The mapping and ordering of fragments of SV40 DNA produced by restriction endonucleases
SV40 DNA is cleaved by the Eco RII and Hae restriction endonucleases to give rise to two different sets of 16 fragments each. These fragments have been ordered by analysis of the products of redigestion of one set of fragments with another restriction enzyme. The cleavage sites have been precisely mapped based on length measurements of the products of each c
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17. Construction, arraying, and high-density screening of large insert libraries of human chromosomes X and 21: their potential use as reference libraries.
We have constructed cosmid libraries from flow-sorted human chromosomes X and 21, each of which contains greater than 30 genome equivalents, and have developed systems allowing permanent storage of primary clones, easy screening of libraries in high-density filter formats, and the simultaneous generation of fingerprinting and mapping data on the same set of
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18. One step assembly of multiple DNA fragments with a designed order and orientation in Bacillus subtilis plasmid
A universal method to reconstitute sets of genes was developed. Owing to the intrinsic nature of the plasmid establishment mechanism in Bacillus subtilis, the assembly of five antibiotic resistance genes with a defined order and orientation was achieved. These five fragments and the plasmid have three-base protruding sequences at both ends. The protruding se
Oxford University Press.
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19. The Comprehensive Mouse Radiation Hybrid Map Densely Cross-Referenced to the Recombination Map: A Tool to Support the Sequence Assemblies
We have developed a unique comprehensive mouse radiation hybrid (RH) map of nearly 23,000 markers integrating data from three international genome centers and over 400 independent laboratories. We have cross-referenced this map to the 0.5-cM resolution recombination-based Jackson Laboratory (TJL) backcross panel map, building a complete set of RH framework c
Cold Spring Harbor Laboratory Press.
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20. Mono- through hexanucleotide composition of the Escherichia coli genome: a Markov chain analysis.
Several statistical methods were tested for accuracy in predicting observed frequencies of di- through hexanucleotides in 74,444 bp of E. coli DNA. A Markov chain was most accurate overall, whereas other methods, including a random model based on mononucleotide frequencies, were very inaccurate. When ranked highest to lowest abundance, the observed frequenci
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21. Sterically shielded pyramidal amino groups in two 4,4′-(arylmethylene)bis(6-allyl-3-chloro-2-methylaniline) derivatives
4,4′-(Phenylmethylene)bis(6-allyl-3-chloro-2-methylaniline), C27H28Cl2N2, (I), and 4,4′-(2-thienylmethylene)bis(6-allyl-3-chloro-2-methylaniline), C25H26Cl2N2S, (II), adopt similar molecular conformations, although the thienyl group in (II) exhibits orientational disorder over two sets of sites with occupancies of 0.614 (3) and 0.386
International Union of Crystallography.
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22. Completion of the detailed restriction map of the E. coli genome by the isolation of overlapping cosmid clones.
Ordered sets of cosmids derived from E. coli K-12 803 overlap the 6 remaining gaps left in the physical map of strain W3110. We present detailed restriction maps of the gaps and surrounding regions, thus providing a comparison of about 30% of the genome of the two E. coli strains. Our analysis shows that there is a high degree of homology between the strains
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23. Yeast tRNAPhe conformation wheels: a novel probe of the monoclinic and orthorhombic models.
A series of conformation wheels is constructed from the recently refined X-ray crystallographic data of monoclinic and orthorhombic yeast tRNAPhe. These circular plots relate the primary chemical structure (i.e., base sequence) directly to the secondary and tertiary structure of the molecule. The circular sequence of backbone torsion angles displays a unique
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24. MSCAN: identification of functional clusters of transcription factor binding sites
Identification of functional transcription factor binding sites in genomic sequences is notoriously difficult. The critical problem is the low specificity of predictions, which directly reflects the low target specificity of DNA binding proteins. To overcome the noise produced in predictions of individual binding sites, a new generation of algorithms achieve
Oxford University Press.