1,720,981 research outputs found
pp5: Estimation and comparison of protein backbone angle distributions
No full textCode for the publications:
Aviv A. Rosenberg, Nitsan Yehishalom, Ailie Marx, Alex Bronstein. "An amino domino model described by a cross peptide bond Ramachandran plot defines amino acid pairs as local structural units".
Under Review (2023). https://doi.org/10.1101/2022.10.23.513383.
Aviv A. Rosenberg, Ailie Marx, Alex M. Bronstein. "Codon-specific Ramachandran plots show amino acid backbone conformation depends on identity of the translated codon".
Nature Communications (2022). https://www.nature.com/articles/s41467-022-30390-
pp5: Estimation, comparison and data collection for protein backbone angle distributions
No full text<p>Code for the publications:</p>
<blockquote>
<p>Aviv A. Rosenberg, Ailie Marx, Alex M. Bronstein. "A catalogue of alternately located segments in protein crystal structures".<br>Under Review (2024).</p>
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<blockquote>
<p>Aviv A. Rosenberg, Nitsan Yehishalom, Ailie Marx, Alex Bronstein. "An amino domino model described by a cross peptide bond Ramachandran plot defines amino acid pairs as local structural units".<br>PNAS (2023). <a href="https://doi.org/10.1073/pnas.2301064120">https://doi.org/10.1073/pnas.2301064120</a>.</p>
</blockquote>
<blockquote>
<p>Aviv A. Rosenberg, Ailie Marx, Alex M. Bronstein. "Codon-specific Ramachandran plots show amino acid backbone conformation depends on identity of the translated codon".<br>Nature Communications (2022). https://www.nature.com/articles/s41467-022-30390-9</p>
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Functional Maps on Product Manifolds
No full textWe consider the tasks of representing, analyzing and manipulating maps between shapes. We model maps as densities over the product manifold of the input shapes; these densities can be treated as scalar functions and therefore are manipulable using the language of signal processing on manifolds. Being a manifold itself, the product space endows the set of maps with a geometry of its own, which we exploit to define map operations in the spectral domain. To apply these ideas in practice, we introduce localized spectral analysis of the product manifold as a novel tool for map processing
A Game-Theoretic Approach to Deformable Shape Matching
Full text linkWe consider the problem of minimum distortion intrinsic correspondence between deformable shapes, many useful formulations of which give rise to the NP-hard quadratic assignment problem (QAP). Previous attempts to use the spectral relaxation have had limited success due to the lack of sparsity of the obtained fuzzy solution. In this paper, we adopt the recently introduced alternative L1relaxation of the QAP based on the principles of game theory. We relate it to the Gromov and Lipschitz metrics between metric spaces and demonstrate on state-of-the-art benchmarks that the proposed approach is capable of finding very accurate sparse correspondences between deformable shapes. © 2012 IEEE
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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