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An MML classification of protein structure that knows about angles and sequence. Pac Symp Biocomput 3: 585–596 (1998)

by T Edgoose, L Allison, D Dowe
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MML clustering of multi-state, Poisson, von Mises circular and Gaussian distributions

by Chris S. Wallace, David L. Dowe - Statistics Computing , 2000
"... Minimum Message Length (MML) is an invariant Bayesian point estimation technique which is also statistically consistent and efficient. We provide a brief overview of MML inductive inference ..."
Abstract - Cited by 29 (8 self) - Add to MetaCart
Minimum Message Length (MML) is an invariant Bayesian point estimation technique which is also statistically consistent and efficient. We provide a brief overview of MML inductive inference

A protein structural alphabet and its substitution matrix CLESUM

by Wei-mou Zheng, Xin Liu , 2004
"... To whom correspondence should be addressed. By using a mixture model for the density distribution of the three pseudobond angles formed by Cα atoms of four consecutive residues, the local structural states are discretized as 17 conformational letters of a protein structural alphabet. This coarse-gra ..."
Abstract - Cited by 3 (1 self) - Add to MetaCart
To whom correspondence should be addressed. By using a mixture model for the density distribution of the three pseudobond angles formed by Cα atoms of four consecutive residues, the local structural states are discretized as 17 conformational letters of a protein structural alphabet. This coarse-graining procedure converts a 3D structure to a 1D code sequence. A substitution matrix between these letters is constructed based on the structural alignments of the FSSP database. Key words: structure alignment; structural codes; structural substitution matrix. 1

INDUCTIVE INFERENCE BY USING INFORMATION COMPRESSION

by Ben Choi
"... Inductive inference is of central importance to all scientific inquiries. Automating the process of inductive inference is the major concern of machine learning researchers. This article proposes inductive inference techniques to address three inductive problems: (1) how to automatically construct a ..."
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Inductive inference is of central importance to all scientific inquiries. Automating the process of inductive inference is the major concern of machine learning researchers. This article proposes inductive inference techniques to address three inductive problems: (1) how to automatically construct a general description, a model, or a theory to describe a sequence of observations or experimental data, (2) how to modify an existing model to account for new observations, and (3) how to handle the situation where the new observations are not consistent with the existing models. The techniques proposed in this article implement the inductive principle called the minimum descriptive length principle and relate to Kolmogorov complexity and Occam’s razor. They employ finite state machines as models to describe sequences of observations and measure the descriptive complexity by measuring the number of states. They can be used to draw inference from sequences of observations where one observation may depend on previous observations. Thus, they can be applied to time series prediction problems and to one-to-one mapping problems. They are implemented to form an automated inductive machine. Key words: finite state machine, inductive inference, Kolmogorov complexity, learning mechanism, minimum descriptive length, Occam’s razor.

Foreword Re C. S. Wallace

by David L. Dowe , 2008
"... ..."
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Advance Access publication on June 18, 2008 doi:10.1093/comjnl/bxm117

by Foreword Re C. S. Wallace, David L. Dowe
"... One of the second generation of computer scientists, Chris Wallace completed his tertiary education in 1959 with a Ph.D. in nuclear physics, on cosmic ray showers, under Dr Paul George at Sydney University. Needless to say, computer science was not, at that stage, an established academic discipline. ..."
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One of the second generation of computer scientists, Chris Wallace completed his tertiary education in 1959 with a Ph.D. in nuclear physics, on cosmic ray showers, under Dr Paul George at Sydney University. Needless to say, computer science was not, at that stage, an established academic discipline. With Max Brennan 1 andJohnMaloshehaddesignedand built a large automatic data logging system for recording cosmic ray air shower events and with Max Brennan also developed a complex computer programme for Bayesian analysis of cosmic ray events on the recently installed SILLIAC computer. Appointed lecturer in Physics at Sydney in 1960 he was sent almost immediately to the University of Illinois to copy the design of ILLIAC II, a duplicate of which was to be built at Sydney. ILLIAC II was not in fact completed at that stage and, after an initial less than warm welcome by a department who seemed unsure exactly what this Australian was doing in their midst, his talents were recognized and he was invited to join their staff (under very generous conditions) to assist in ILLIAC II design 2. He remained there for two years helping in particular to design the input output channels and aspects of the advanced control unit (first stage pipeline). In the event, Sydney decided it would be too expensive to build a copy of ILLIAC II, although a successful copy (the Golem) was built in Israel using circuit designs developed by Wallace and Ken Smith. In spite of the considerable financial and academic inducements to remain in America, Wallace returned to Australia after three months spent in England familiarizing himself with the KDF9 computer being purchased by Sydney University to replace SILLIAC. Returning to the School of Physics he joined the Basser

Ninimum Message Length and Statistically Consistent Invariant; (Objective?) Bayesian Probabilistic Inference -- From (Medical) “Evidence”

by David L. Dowe - SOCIAL EPISTEMOLOGY VOL. 22, NO. 4, OCTOBER–DECEMBER 2008, PP. 433–460 , 2008
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