1,721,132 research outputs found
Use case: The postsynaptic proteome, from "Assessing identity, redundancy and confounds in Gene Ontology annotations over time"
No full textThe following two data files were used in the analysis described in section 3.4 of Gillis, J. and Pavlidis, P. (2013) Assessing identity, redundancy and confounds in Gene Ontology annotations over time. Bioinformatics, 29 (4). pp. 476-82
Gene lists from Gillis, J. and Pavlidis, P. (2012) PLoS Computational Biology, 8 (3).
No full textGene lists: These are the gene lists (UCSC Golden Path for Human, NCBI for yeast, MGI for mouse) used in the paper with gene symbols, NCBI ids, and Gemma gene IDs (useful for accessing Gemma webservices
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
Gene lists from The role of indirect connections in gene networks in predicting function Gillis, J. and Pavlidis, P. (2011) Bioinformatics, 27 (13). pp. 1860-1866.
No full textGene lists: These are the gene lists (UCSC Golden Path for Human and Mouse, NCBI for yeast) used in the paper with gene symbols, NCBI ids, and Gemma gene IDs (useful for accessing Gemma webservices
Exceptional Edges matrices from "Guilt by Association" Is the Exception Rather Than the Rule in Gene Networks Gillis, J. and Pavlidis, P. (2012) PLoS Computational Biology, 8 (3).
No full textThese are the interaction matrices, with each gene replaced by a score indicating its agregate exceptionality. The underlying data (which gives criticality for each GO group, as opposed to an aggregate score) is some gigabytes large. The exceptionality matrices are sufficient to replicate almost all the results of the paper (but, unfortunately, doesn’t let one examine the criticality of individual GO subnetworks)
Gene Ontology matrices from The role of indirect connections in gene networks in predicting function Gillis, J. and Pavlidis, P. (2011) Bioinformatics, 27 (13). pp. 1860-1866.
No full textFigure data from "The role of indirect connections in gene networks in predicting function" Gillis, J. and Pavlidis, P. (2011) Bioinformatics, 27 (13). pp. 1860-1866.
No full textFigure data: These files have the data used in the figures. The figure 1 data is a little bulky. Please contact us if you’re interested in any other specific underlying data
Cross-validation calculation from "Guilt by Association" Is the Exception Rather Than the Rule in Gene Networks Gillis, J. and Pavlidis, P. (2012) PLoS Computational Biology, 8 (3).
No full textVariations 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
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