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Analysis of institutional authors

Lacroix VCorresponding AuthorGuigó RAuthor

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March 25, 2020
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Proceedings Paper
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Exact transcriptome reconstruction from short sequence reads

Publicated to: 5251 50-+ - 2008-01-01 5251(), DOI: 10.1007/978-3-540-87361-7_5

Authors:

Lacroix, V; Sammeth, M; Guigo, R; Bergeron, A
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Affiliations

Centro de Regulacion Genomica, Barcelona - Author
CRG, Genome Bioinformat Res Grp, Barcelona, Spain - Author
Univ Montreal, Comparat Genom Lab, Montreal, PQ, Canada - Author
Universite du Quebec a Montreal - Author
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Abstract

In this paper we address the problem of characterizing the RNA complement of a given cell type, that is, the set of RNA species and their relative copy number, from a large set of short sequence reads which have been randomly sampled from the cell's RNA sequences through a sequencing experiment. We refer to this problem as the transcriptome reconstruction problem, and we specifically investigate, both theoretically and practically, the conditions under which the problem can be solved. We demonstrate that, even under the assumption of exact information, neither single read nor paired-end read sequences guarantee theoretically that the reconstruction problem has a unique solution. However, by investigating the behavior of the best annotated human gene set, we also show that, in practice, paired-end reads - but not single reads - may be sufficient to solve the vast majority of the transcript variants species and abundances. We finally show that, when we assume that the RNA species existing in the cell are known, single read sequences can effectively be used to infer transcript variant abundances. © 2008 Springer-Verlag Berlin Heidelberg.
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Keywords

AnnotationIsoforms

Quality index

Bibliometric impact. Analysis of the contribution and dissemination channel

Independientemente del impacto esperado determinado por el canal de difusión, es importante destacar el impacto real observado de la propia aportación.

Según las diferentes agencias de indexación, el número de citas acumuladas por esta publicación hasta la fecha 2026-04-05:

  • WoS: 30
  • Scopus: 34
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Impact and social visibility

From the perspective of influence or social adoption, and based on metrics associated with mentions and interactions provided by agencies specializing in calculating the so-called "Alternative or Social Metrics," we can highlight as of 2026-04-05:

  • The use, from an academic perspective evidenced by the Altmetric agency indicator referring to aggregations made by the personal bibliographic manager Mendeley, gives us a total of: 57.
  • The use of this contribution in bookmarks, code forks, additions to favorite lists for recurrent reading, as well as general views, indicates that someone is using the publication as a basis for their current work. This may be a notable indicator of future more formal and academic citations. This claim is supported by the result of the "Capture" indicator, which yields a total of: 57 (PlumX).

With a more dissemination-oriented intent and targeting more general audiences, we can observe other more global scores such as:

  • The Total Score from Altmetric: 27.
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Leadership analysis of institutional authors

This work has been carried out with international collaboration, specifically with researchers from: Canada.

There is a significant leadership presence as some of the institution’s authors appear as the first or last signer, detailed as follows: First Author (LACROIX, VINCENT) .

the author responsible for correspondence tasks has been LACROIX, VINCENT.

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