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Gil-De-La-Fuente ACorresponding AuthorGodzien JAuthorSaugar SAuthorGarcia-Carmona RAuthorBarbas C.AuthorOtero A.Author

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February 4, 2019
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CEU Mass Mediator 3

Publicated to:Journal Of Proteome Research. 18 (2): 797-802 - 2019-02-01 18(2), DOI: 10.1021/acs.jproteome.8b00720

Authors: Gil-de-la-Fuente, Alberto; Godzien, Joanna; Saugar, Sergio; Garcia-Carmona, Rodrigo; Badran, Hasan; Wishart, David S; Barbas, Coral; Otero, Abraham

Affiliations

Centre for Metabolomics and Bioanalysis (CEMBIO), Facultad de Farmacia , Universidad San Pablo-CEU, CEU Universities, Campus Montepríncipe , Boadilla del Monte, Madrid 28668 , Spain - Author
CEU Univ, Univ San Pablo CEU, Escuela Politecn Super, Dept Informat Technol, Campus Monteprincipe, Madrid 28668, Spain - Author
CEU Univ, Univ San Pablo CEU, Fac Farm, Ctr Metabol & Bioanal CEMBIO, Campus Monteprincipe, Madrid 28668, Spain - Author
Department of Biological Sciences University of Alberta , Edmonton , Alberta T6G 2E9 , Canada - Author
Department of Computing Science , University of Alberta , Edmonton , Alberta T6G 2E8 , Canada - Author
Department of Information Technology, Escuela Politécnica Superior , Universidad San Pablo-CEU, CEU Universities, Campus Montepríncipe , Boadilla del Monte, Madrid 28668 , Spain - Author
Faculty of Pharmacy and Pharmaceutical Sciences , University of Alberta , Edmonton , Alberta T6G 2N8 , Canada - Author
Univ Alberta, Dept Biol Sci, Edmonton, AB T6G 2E9, Canada - Author
Univ Alberta, Dept Comp Sci, Edmonton, AB T6G 2E8, Canada - Author
Univ Alberta, Fac Pharm & Pharmaceut Sci, Edmonton, AB T6G 2N8, Canada - Author
Universidad CEU San Pablo. ESCUELA POLITECNICA SUPERI. Tecnologias de la Información - Author
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Abstract

CEU Mass Mediator (CMM, http://ceumass.eps.uspceu.es ) is an online tool that has evolved from a simple interface to query different metabolomic databases (CMM 1.0) to a tool that unifies the compounds from these databases and, using an expert system with knowledge about the experimental setup and the compounds properties, filters and scores the query results (CMM 2.0). Since this last major revision, CMM has continued to grow, expanding the knowledge base of its expert system and including new services to support researchers in the metabolite annotation and identification process. The information from external databases has been refreshed, and an in-house library with oxidized lipids not present in other sources has been added. This has increased the number of experimental metabolites up 332,665 and the number of predicted metabolites to 681,198. Furthermore, new taxonomy and ontology metadata have been included. CMM has expanded its functionalities with a service for the annotation of oxidized glycerophosphocholines, a service for spectral comparison from MS2 data, and a spectral quality-assessment service to determine the reliability of a spectrum for compound identification purposes. To facilitate the collaboration and integration of CMM with external tools and metabolomic platforms, a RESTful API has been created, and it has already been integrated into the HMDB (Human Metabolome Database). This paper will present the novel functionalities incorporated into version 3.0 of CMM.

Keywords

AnimalsAnnotationData curationDatabasesDatabases, factualHumansIdentificationInformation disseminationKnowledge representationLipid metabolismMass spectrometryMetabolomicsPhosphorylcholineRestSoftwareSoftware toolWeb services

Quality index

Bibliometric impact. Analysis of the contribution and dissemination channel

The work has been published in the journal Journal Of Proteome Research due to its progression and the good impact it has achieved in recent years, according to the agency WoS (JCR), it has become a reference in its field. In the year of publication of the work, 2019, it was in position 12/77, thus managing to position itself as a Q1 (Primer Cuartil), in the category Biochemical Research Methods.

From a relative perspective, and based on the normalized impact indicator calculated from World Citations provided by WoS (ESI, Clarivate), it yields a value for the citation normalization relative to the expected citation rate of: 5.3. This indicates that, compared to works in the same discipline and in the same year of publication, it ranks as a work cited above average. (source consulted: ESI Nov 14, 2024)

This information is reinforced by other indicators of the same type, which, although dynamic over time and dependent on the set of average global citations at the time of their calculation, consistently position the work at some point among the top 50% most cited in its field:

  • Weighted Average of Normalized Impact by the Scopus agency: 4.16 (source consulted: FECYT Feb 2024)
  • Field Citation Ratio (FCR) from Dimensions: 12.65 (source consulted: Dimensions Aug 2025)

Specifically, and according to different indexing agencies, this work has accumulated citations as of 2025-08-02, the following number of citations:

  • WoS: 110
  • Scopus: 116
  • Europe PMC: 72

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 2025-08-02:

  • 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: 189.
  • 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: 199 (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: 28.5.
  • The number of mentions on the social network X (formerly Twitter): 28 (Altmetric).

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 (Gil de la Fuente, Alberto) and Last Author (OTERO QUINTANA, ABRAHAN).

the author responsible for correspondence tasks has been Gil de la Fuente, Alberto.