This is a wonderful and heartfelt book about the poetry of mathematics and how we fail to introduce it to students at schools and to society in general. I can finally stop feeling guilty about my obsession with popular math books and cool problems even though I know they probably have no practical value to me or to society whatsoever. After all it is not practical value that makes reading poetry a pleasure! I am thankful to all my wonderful math teachers who bequeathed me this guilty pleasure without my knowledge or consent in spite of the horrible curriculum, text books, and test system. And I highly recommend the author's second book "Measurement" to those who seek an alternative to the typical 10 pound high school textbooks full of repetitive and unimaginative problems.
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January 25, 2013
November 05, 2012
Parser Evaluation Using Textual Entailments
Deniz Yuret, Laura Rimell, Aydin Han. Language Resources and Evaluation. 2012. (PDF, URL, Task website, Related posts)
Abstract
Parser Evaluation using Textual Entailments (PETE) is a shared task in
the SemEval-2010 Evaluation Exercises on Semantic Evaluation. The
task involves recognizing textual entailments based on syntactic
information alone. PETE introduces a new parser evaluation scheme
that is formalism independent, less prone to annotation error, and
focused on semantically relevant distinctions. This paper describes
the PETE task, gives an error analysis of the top-performing Cambridge
system, and introduces a standard entailment module that can be used
with any parser that outputs Stanford typed dependencies.
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Abstract
Parser Evaluation using Textual Entailments (PETE) is a shared task in
the SemEval-2010 Evaluation Exercises on Semantic Evaluation. The
task involves recognizing textual entailments based on syntactic
information alone. PETE introduces a new parser evaluation scheme
that is formalism independent, less prone to annotation error, and
focused on semantically relevant distinctions. This paper describes
the PETE task, gives an error analysis of the top-performing Cambridge
system, and introduces a standard entailment module that can be used
with any parser that outputs Stanford typed dependencies.
Full post...
October 18, 2012
My comments on Norvig's comments on Chomsky's comments on Statistical Learning
Noam Chomsky made a few negative comments on statistical learning last year during the MIT150 Symposium on Brains, Minds, and Machines. Peter Norvig, who was also at the symposium, later published a provocative essay on Chomsky's comments.
I particularly enjoyed the statistical analysis of Chomsky's famous example: "Pereira (2001) showed that such a (statistical, finite-state) model, augmented with word categories and trained by expectation maximization on newspaper text, computes that (a) 'colorless green ideas sleep furiously' is 200,000 times more probable than (b) 'furiously sleep ideas green colorless'."
If interested in a colorful follow up to this discussion, see Straw men and Bee Science by Mark Liberman on the Language Log and the related comments.
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I particularly enjoyed the statistical analysis of Chomsky's famous example: "Pereira (2001) showed that such a (statistical, finite-state) model, augmented with word categories and trained by expectation maximization on newspaper text, computes that (a) 'colorless green ideas sleep furiously' is 200,000 times more probable than (b) 'furiously sleep ideas green colorless'."
If interested in a colorful follow up to this discussion, see Straw men and Bee Science by Mark Liberman on the Language Log and the related comments.
Full post...
August 14, 2012
Onur Varol, M.S. 2012
Current position: Assistant Professor, Sabancı University, Istanbul. (website, email).
M.S. Thesis: Modal Analysis of Myosin II and Identification of Functionally Important Sites. Koç University, Department of Computer Engineering. June, 2012. (PDF, Presentation).
Abstract:
Analysis of protein dynamics uses structural and fluctuation based methods. Fluctuation analysis of protein dynamics has proven to be a rewarding venue of research. Mass and spring models are used in previous research commonly. However, fluctuations of this models are based on purely harmonic which has significant gap between the experimental results. Deviations from harmonicity mostly observe in slow, collective modes. Corrections like anharmonic modal decomposition are first step in order to minimize this gap. The contribution of the higher-order corrections is limited because of the interacting modes. Mode-coupling corrections which yield valuable information on means of energy transfer and allostery.
In this work, molecular dynamic results of Dictyostelium discoideum myosin II motor domain is used as test ground. Mode fluctuation distributions produced using MD results, fully harmonic models and a model with anharmonic corrections. Tensorial hermite polynomials are used in order to obtain distributions of modal fluctuations. Fluctuations on modal space are transformed back into real space and distribution of residual fluctuations is compared using KL divergence. Analysis results for ligand-bound and free myosin dynamics are used in order to demonstrate that the mode-coupling contributions alone highlight functionally important sites.
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M.S. Thesis: Modal Analysis of Myosin II and Identification of Functionally Important Sites. Koç University, Department of Computer Engineering. June, 2012. (PDF, Presentation).
Abstract:
Analysis of protein dynamics uses structural and fluctuation based methods. Fluctuation analysis of protein dynamics has proven to be a rewarding venue of research. Mass and spring models are used in previous research commonly. However, fluctuations of this models are based on purely harmonic which has significant gap between the experimental results. Deviations from harmonicity mostly observe in slow, collective modes. Corrections like anharmonic modal decomposition are first step in order to minimize this gap. The contribution of the higher-order corrections is limited because of the interacting modes. Mode-coupling corrections which yield valuable information on means of energy transfer and allostery.
In this work, molecular dynamic results of Dictyostelium discoideum myosin II motor domain is used as test ground. Mode fluctuation distributions produced using MD results, fully harmonic models and a model with anharmonic corrections. Tensorial hermite polynomials are used in order to obtain distributions of modal fluctuations. Fluctuations on modal space are transformed back into real space and distribution of residual fluctuations is compared using KL divergence. Analysis results for ligand-bound and free myosin dynamics are used in order to demonstrate that the mode-coupling contributions alone highlight functionally important sites.
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