1,721,085 research outputs found
Universal chromatin state annotation of the mouse genome
No full textGenome-wide chromatin states learned from integrating genome-wide maps of multiple epigenetic marks within the same cell type have been widely used to generate genome annotations of individual cell types. An alternative strategy based on ‘stacked modeling’ can provide a single ‘universal’ chromatin state annotation based jointly on data from many cell types. In human, such an approach was recently demonstrated and the resulting chromatin state annotation, denoted full-stack, was shown to have complementary advantages to per-cell-type annotations. However, an analogous annotation has not been previously available in mouse. Here, we produce a chromatin state annotation for mouse based on 901 datasets assaying 14 chromatin marks in 26 different cell or tissue types. To characterize each chromatin state, we relate the states to other external annotations and compare them to analogously defined states in human. We expect the full-stack chromatin state annotation for mouse will be a useful resource for studying the genome of this key mammalian model organism
Universal chromatin state annotation of the mouse genome
No full textGenome-wide chromatin states learned from integrating genome-wide maps of multiple epigenetic marks within the same cell type have been widely used to generate genome annotations of individual cell types. An alternative strategy based on ‘stacked modeling’ can provide a single ‘universal’ chromatin state annotation based jointly on data from many cell types. In human, such an approach was recently demonstrated and the resulting chromatin state annotation, denoted full-stack, was shown to have complementary advantages to per-cell-type annotations. However, an analogous annotation has not been previously available in mouse. Here, we produce a chromatin state annotation for mouse based on 901 datasets assaying 14 chromatin marks in 26 different cell or tissue types. To characterize each chromatin state, we relate the states to other external annotations and compare them to analogously defined states in human. We expect the full-stack chromatin state annotation for mouse will be a useful resource for studying the genome of this key mammalian model organism
Theoretical Foundations for Abstraction-Based Probabilistic Planning
No full textion-Based Probabilistic Planning Vu Ha Peter Haddawy Department of EE & CS University of Wisconsin-Milwaukee fvu, [email protected] Abstract Modeling worlds and actions under uncertainty is one of the central problems in the framework of decision-theoretic planning. The representation must be general enough to capture real-world problems but at the same time it must provide a basis upon which theoretical results can be derived. The central notion in the framework we propose here is that of the affine-operator, which serves as a tool for constructing (convex) sets of probability distributions, and which can be considered as a generalization of belief functions and interval mass assignments. Uncertainty in the state of the worlds is modeled with sets of probability distributions, represented by affine-trees, while actions are defined as tree-manipulators. A small set of key properties of the affine-operator is presented, forming the basis for most existing operator-based definitio..
Bayes Network Abstraction for Decision-Theoretic Planning
No full textion for Decision-Theoretic Planning Vu Ha and Peter Haddawy Decision Systems and Artificial Intelligence Lab Dept. of EE&CS University of Wisconsin-Milwaukee Milwaukee, WI 53201 fvu,[email protected] Abstract This is a preliminary report on research towards the development of an abstraction-based framework for decision-theoretic planning using Bayesian networks. We discuss two problems: the representation of sets of probability distributions for Bayesian networks, and the issue of representing and abstracting actions using Bayesian networks. For the first problem, we propose the use of cc-trees to represent sets of probability distributions and show how propagation in Bayesian networks can be performed without loss of information in this representation. The cc-tree representation provides an intuitive and flexible way to make tradeoffs between precision and computational cost. For the second problem, we identify a class of planning problems where a simple abstraction technique c..
Going Beyond Counting First Authors in Author Co-citation Analysis
Full text linkThe present study examines one of the fundamental aspects of author co-citation analysis (ACA) - the way co-citation
counts are defined. Co-citation counting provides the data on which all subsequent statistical analyses and mappings
are based, and we compare ACA results based on two different types of co-citation counting - the traditional type that
only counts the first one among a cited work's authors on the one hand and a non-traditional type that takes into
account the first 5 authors of a cited work on the other hand. Results indicate that the picture produced through this non-traditional author co-citation counting contains more coherent author groups and is therefore considerably clearer. However, this picture represents fewer specialties in the research field being studied than that produced through the traditional first-author co-citation counting when the same number of top-ranked authors is selected and analyzed. Reasons for these effects are discussed
Variations on the Author
Full text link“Variations on the Author” discusses two of Eduardo Coutinho’s recent films (Um Dia na Vida, from 2010, and Últimas Conversas, posthumously released in 2015) and their contribution to the general question of documentary authorship. The director’s filmography is characterized by a consistent yet self-effacing form of authorial self-inscription: Coutinho often features as an interviewer that rather than express opinions propels discourses; an interviewer that is good at listening. This mode of self-inscription characterizes him as an author who is not expressive but who is nonetheless markedly present on the screen. In Um Dia na Vida, however, Coutinho is completely absent form the image, while Últimas Conversas, on the contrary, includes a confessional prologue that moves the director from the margins to the center of his films. This article examines the ways in which these works stand out in the filmography of a director who offers new insights into the notion of cinematic authorship
Appropriate Similarity Measures for Author Cocitation Analysis
Full text linkWe provide a number of new insights into the methodological discussion about author cocitation analysis. We first argue that the use of the Pearson correlation for measuring the similarity between authors’ cocitation profiles is not very satisfactory. We then discuss what kind of similarity measures may be used as an alternative to the Pearson correlation. We consider three similarity measures in particular. One is the well-known cosine. The other two similarity measures have not been used before in the bibliometric literature. Finally, we show by means of an example that our findings have a high practical relevance.information science;Pearson correlation;cosine;similarity measure;author cocitation analysis
Dispelling the Myths Behind First-author Citation Counts
Full text linkWe conducted a full-scale evaluative citation analysis study of scholars in the XML research field to explore just how different from each other author rankings resulting from different citation counting methods actually are, and to demonstrate the capability of emerging data and tools on the Web in supporting more realistic citation counting methods. Our results contest some common arguments for the continued
use of first-author citation counts in the evaluation of scholars, such as high correlations between author rankings by first-author citation counts and other citation
counting methods, and high costs of using more realistic citation counting methods that are not well-supported by the ISI databases. It is argued that increasingly available digital full text research papers make it possible for citation analysis studies to go beyond what the ISI databases have directly supported and to employ more
sophisticated methods
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