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- PhyRevLett,92, Voss

Abstract A new method of quantifying correlations in symbolic sequences is applied to DNA nucleotides Spectral density measurements of individual base positions demonstrate the ubiquity of low frequency 1 f beta noise and long range fractal correlations as well as

Original URL path: http://linkage.rockefeller.edu/dnacorr/l-prl92-v.html (2012-11-26)

Open archived version from archive - NAR,90,Pizzi

13 3745 3752 1990 Abstract A method is proposed for the automatic detection of serial periodicities in a linear sequence Its application to DNA subtelomeric sequences from two lower eukaryotes P falciparum and S cerevisiae reveals ordered patterns organised in hierarchical periodicities not easily recognizable by other methods The possible implications concerning the evolution of tandemly repetitive arrays are discussed in light of a model which involves as successive steps

Original URL path: http://linkage.rockefeller.edu/dnacorr/l-nar90-p.html (2012-11-26)

Open archived version from archive - HamatolB,89,Ohno

in the periodic to chaotic transition In the case of alpha A crystallin coding sequence of the chicken the initial tetrameric periodicity of the primordial tetramer C C T G has been decaying by the golden mean the 4 7

Original URL path: http://linkage.rockefeller.edu/dnacorr/l-hb89-o.html (2012-11-26)

Open archived version from archive - HamatolB,87,Ohno

the readiness of these periodical polypeptide chains to assume alpha helical and or beta sheet secondary structures contributed to the extremely rapid initial functional diversification of these polypeptide chains It would be recalled that most if not all of the sugar metabolizing enzymes had already achieved the inviolable functional competence before the division of prokaryotes from eukaryotes On the other hand a certain dipeptidic of the peptidic periodicities was apparently

Original URL path: http://linkage.rockefeller.edu/dnacorr/l-hb87-o.html (2012-11-26)

Open archived version from archive - ImmunoGenet,86,Ohno

and the next year is going to be much like this year Accordingly the principle of repetitious recurrence pervades every aspect of life on this earth Thus individual genes in the genome have been duplicated and triplicated often to the point of redundancy and each coding sequence consists of numerous variously truncated as well as variously base substituted copies of the original primordial building block base oligomers and their allies

Original URL path: http://linkage.rockefeller.edu/dnacorr/l-imm86-oo.html (2012-11-26)

Open archived version from archive - JTheoBio,74,Elton

size mainly from bacteria are compiled from the literature A series of theoretical models of increasing complexity is put forward and it is concluded that the data support a model in which the DNA consists of a sequence of segments with different underlying base compositions Estimates of mean segment length and variance of G C content are made The possibility that the excess heterogeneity above random results from variation in

Original URL path: http://linkage.rockefeller.edu/dnacorr/l-jtb74-e.html (2012-11-26)

Open archived version from archive - Preparing " datafile " for LINKAGE

you didn t tell us how many markers there are try it again

Original URL path: http://linkage.rockefeller.edu/cgi-bin/webpreplink.cgi/second_page (2012-11-26)

Open archived version from archive - PAWE – Phenotype Edition

choosing the genetic model free method you specify the frequency distribution of genotypes 11 12 and 22 for the affected population and the unaffected population You can assume or not assume Hardy Weinberg equilibrium HWE for both the affected and unaffected population 1 1 4 1 1 Hardy Weinberg equilibrium Assumed If you assume HWE then the genotype frequency distribution is a function of a single parameter p that you enter into this box The parameter p must be a real positive number less than 1 The genotype frequencies of 11 12 and 22 are then and respectively 1 1 4 1 2 No Assumption of Hardy Weinberg equilibrium If you do not assume HWE then the genotype frequency distribution is a function of two parameters and The parameter is the genotype frequency for the 11 genotypes and the parameter is the genotype frequency for the 22 genotypes The genotype frequency for the 12 genotype is given by Thus the numbers you enter into these two boxes must be positive real numbers whose sum is less than 1 1 1 4 2 Genetic model based method You choose this option if you have estimates for the following five parameters the genotype relative risks R 1 and R 2 5 the disease allele frequency the marker 1 allele frequency and the proportion of linkage disequilibrium D 6 The genotype relative risks are defined as where The genotype relative risk parameters must be positive real numbers greater than 1 The disease allele frequency the marker 1 allele frequency and the D parameters must be positive real numbers that are less than 1 To see how the genotype relative risks disease allele frequency and disease prevalence below Section 1 1 7 are converted to the usual disease penetrance parameters click on the following link PAWE PH1 Note D 1 means complete disequilibrium the best case scenario D 0 means no disequilibrium the null scenario 1 1 5 Error model parameters For phenotype misclassification error in case control genetic association analyses we consider two types of misclassification the probability that a true affected individual is misclassified as an observed control and the probability that a true unaffected individual is misclassified as an observed case To our knowledge Bross 2 was the first to consider these misclassification parameters in case control association studies 1 1 5 1 Pr observed control true affected For the distinction between affected and case see above Section 1 0 Important Note This value is the probability that a true affected individual is misclassified as a control It must range between 0 0 and 1 0 This value may also be though of as 1 0 Sensitivity of the diagnostic instrument used to phenotype an individual 1 1 5 2 Pr observed case true unaffected For the distinction between unaffected and control see above Section 1 0 Important Note This value is the probability that a true unaffected individual is misclassified as a case It must range between 0 0 and

Original URL path: http://linkage.rockefeller.edu/joanne/pawe/Paweph-helpfile.htm (2012-11-26)

Open archived version from archive