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PAML: a program package for phylogenetic analysis by maximum likelihood

by Ziheng Yang - COMPUT APPL BIOSCI 13:555–556 , 1997
"... PAML, currently in version 1.2, is a package of programs for phylogenetic analyses of DNA and protein sequences using the method of maximum likelihood (ML). The programs can be used for (i) maximum likelihood estimation of evolutionary parameters such as branch lengths in a phylogenetic tree, the tr ..."
Abstract - Cited by 1459 (17 self) - Add to MetaCart
, the transition/transversion rate ratio, the shape parameter of the gamma distribution for variable evolutionary rates at sites, and rate parameters for different genes; (ii) likelihood ratio test of hypotheses concerning sequence evolution, such as rate con-stancy and independence among sites and rate constancy

Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol 2:2006.0008

by Tomoya Baba, Takeshi Ara, Miki Hasegawa, Yuki Takai, Yoshiko Okumura, Miki Baba, Kirill A Datsenko, Masaru Tomita, Barry L Wanner, Hirotada Mori , 2006
"... We have systematically made a set of precisely defined, single-gene deletions of all nonessential genes in Escherichia coli K-12. Open-reading frame coding regions were replaced with a kanamycin cassette flanked by FLP recognition target sites by using a one-step method for inactivation of chromosom ..."
Abstract - Cited by 714 (7 self) - Add to MetaCart
We have systematically made a set of precisely defined, single-gene deletions of all nonessential genes in Escherichia coli K-12. Open-reading frame coding regions were replaced with a kanamycin cassette flanked by FLP recognition target sites by using a one-step method for inactivation

Self-Similarity in World Wide Web Traffic: Evidence and Possible Causes

by Mark E. Crovella, Azer Bestavros , 1996
"... Recently the notion of self-similarity has been shown to apply to wide-area and local-area network traffic. In this paper we examine the mechanisms that give rise to the self-similarity of network traffic. We present a hypothesized explanation for the possible self-similarity of traffic by using a p ..."
Abstract - Cited by 1416 (26 self) - Add to MetaCart
, the effect of user "think time", and the superimposition of many such transfers in a local area network. To do this we rely on empirically measured distributions both from our traces and from data independently collected at over thirty WWW sites.

End-to-End Internet Packet Dynamics,”

by Vern Paxson - Proc. SIGCOMM '97, , 1997
"... Abstract We discuss findings from a large-scale study of Internet packet dynamics conducted by tracing 20,000 TCP bulk transfers between 35 Internet sites. Because we traced each 100 Kbyte transfer at both the sender and the receiver, the measurements allow us to distinguish between the end-to-end ..."
Abstract - Cited by 843 (19 self) - Add to MetaCart
Abstract We discuss findings from a large-scale study of Internet packet dynamics conducted by tracing 20,000 TCP bulk transfers between 35 Internet sites. Because we traced each 100 Kbyte transfer at both the sender and the receiver, the measurements allow us to distinguish between the end

Web Modeling Language (WebML): a modeling language for designing Web sites

by Stefano Ceri, Piero Fraternali, Aldo Bongio , 2000
"... Designing and maintaining Web applications is one of the major challenges for the software industry of the year 2000. In this paper we present Web Modeling Language (WebML), a notation for specifying complex Web sites at the conceptual level. WebML enables the high-level description of a Web site un ..."
Abstract - Cited by 426 (15 self) - Add to MetaCart
Designing and maintaining Web applications is one of the major challenges for the software industry of the year 2000. In this paper we present Web Modeling Language (WebML), a notation for specifying complex Web sites at the conceptual level. WebML enables the high-level description of a Web site

A Scalable Comparison-Shopping Agent for the World-Wide Web

by Robert B. Doorenbos, Oren Etzioni, Daniel S. Weld - In Proceedings of the First International Conference on Autonomous Agents , 1997
"... The Web is less agent-friendly than we might hope. Most information on the Web is presented in loosely structured natural language text with no agent-readable semantics. HTML annotations structure the display of Web pages, but provide virtually no insight into their content. Thus, the designers of i ..."
Abstract - Cited by 327 (19 self) - Add to MetaCart
automatically extract information from unfamiliar Web sites? (4) What aspects of the Web facilitate this competence? In this paper we investigate these issues with a case study using the ShopBot. ShopBot is a fullyimplemented, domain-independent comparison-shopping agent. Given the home pages of several on

Image Segmentation by Data Driven Markov Chain Monte Carlo

by Zhuowen Tu, Song-Chun Zhu, Heung-yeung Shum , 2001
"... This paper presents a computational paradigm called Data Driven Markov Chain Monte Carlo (DDMCMC) for image segmentation in the Bayesian statistical framework. The paper contributes to image segmentation in three aspects. Firstly, it designs effective and well balanced Markov Chain dynamics to exp ..."
Abstract - Cited by 277 (32 self) - Add to MetaCart
to explore the solution space and makes the split and merge process reversible at a middle level vision formulation. Thus it achieves globally optimal solution independent of initial segmentations. Secondly, instead of computing a single maximum a posteriori solution, it proposes a mathematical principle

The age distribution of cancer and a multistage theory of carcinogenesis.

by P Armitage , R Doll - Br J Cancer , 1954
"... Attempts to drive theoretical laws from changes in the death rate with age have a long history. They have not, in general, been very fruitful and there has been some hesitation in applying the technique to the study of cancer. Recently, however, two hypotheses about the mechanism of carcinogenesis ..."
Abstract - Cited by 270 (1 self) - Add to MetaCart
mechanism of multiple mutations but that hormonal control of growth might play an independent part. The purpose of the present paper is to examine the relation between mortality and age for cancer of different sites for each sex and to see whether hypothesis can account for the data when it is recognized

The probability of duplicate gene preservation by subfunctionalization.

by Michael Lynch , Allan Force - Genetics , 2000
"... ABSTRACT It has often been argued that gene-duplication events are most commonly followed by a mutational event that silences one member of the pair, while on rare occasions both members of the pair are preserved as one acquires a mutation with a beneficial function and the other retains the origin ..."
Abstract - Cited by 261 (2 self) - Add to MetaCart
-of-subfunction, the probability of duplicate-gene preservation can be appreciable if the long-term effective population size is on the order of 10 5 or smaller, especially if there are more than two independently mutable subfunctions per locus. Even a moderate incidence of partial loss-of-function mutations greatly elevates

Simplified processing for high spectral efficiency wireless communication employing multi-element arrays

by Gerard J. Foschini, Glen D. Golden, Reinaldo A. Valenzuela, Peter W. Wolniansky - IEEE J. Select. Areas Commun , 1999
"... Abstract — We investigate robust wireless communication in high-scattering propagation environments using multi-element antenna arrays (MEA’s) at both transmit and receive sites. A simplified, but highly spectrally efficient space–time communication processing method is presented. The user’s bit str ..."
Abstract - Cited by 256 (4 self) - Add to MetaCart
Abstract — We investigate robust wireless communication in high-scattering propagation environments using multi-element antenna arrays (MEA’s) at both transmit and receive sites. A simplified, but highly spectrally efficient space–time communication processing method is presented. The user’s bit
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