Global Omic Data Integration on Animal, Vegetal and Environment Sectors

Projektinformationen

GLOMICAVE

ID Finanzhilfevereinbarung: 952908

DOI

10.3030/952908

Projekt abgeschlossen

EK-Unterschriftsdatum 9 November 2020

Startdatum 1 November 2020

Enddatum 30 April 2024

Finanziert unter

• INDUSTRIAL LEADERSHIP - Leadership in enabling and industrial technologies – Biotechnology

Gesamtkosten

€ 6 372 583,75

EU-Beitrag

€ 6 372 583,75

Koordiniert durch

FUNDACIO EURECAT
Spain

CORDIS bietet Links zu öffentlichen Ergebnissen und Veröffentlichungen von HORIZONT-Projekten.

Links zu Ergebnissen und Veröffentlichungen von RP7-Projekten sowie Links zu einigen Typen spezifischer Ergebnisse wie Datensätzen und Software werden dynamisch von OpenAIRE abgerufen.

Leistungen

Documents, reports (6)

GLOMICAVE semantic model

Common vocabulary to represent omic data and experiments to facilitate data integration and exploration

Responsible research and innovation

Reporting evidence on direct RRI actions carried out by the project.

Novel training Dataset and labelling functions

Report explaining the fundamentals to be able to automatically label the scientific text downloaded to allow the automatic preprocessing of the literature

Report on the contribution to standardization

Description of the objectives methodology and results that refer to the collaboration and communication with the relevant standardization Technical Committees of the standardization system and the contribution of GLOMICAVE to the ongoing and future standardization development

Report on the standardization landscape and applicable standards

Report presenting the project related applicable existing standards

Datasets and repositories benchmarking

Deliverable devoted to assess the different repositories and datasets to derive data model and integration requirements

Demonstrators, pilots, prototypes (5)

GLOMICAVE Knowledge graph

Development of a semantic repository and subsequent plugins to store experiment information and metadata

"GLOMICAVE pre-operational consolidated platform - ""beta"" release"

Overview of GLOMICAVE integrative approach including guidelines of installation.

GLOMICAVE Data lake

Consolidated version of the GLOMICAVE data lake including plug-ins, data curation mechanism and the specifications of the Open-API.

GLOMICAVE Open API

Details on how GLOMICAVE will facilitate data visualization and also data interaction with the rest of the analytical services.

Data gathering and curation mechanisms

Development of a curated data structure for experiment metadata and webbased interface to collaboratively curate submitted datasets and link datasets to shared internal or external identifiers

Other (3)

GLOMICAVE website

Launch of the project public webpage for communication and dissemination purposes Report describing the website and the main functionalities

Public Communication Materials

First collection of public materials to be used for communication purposes

Final Public Communication Materials

Final collection of public materials prepared for communication purposes.

Veröffentlichungen

Non-peer reviewed articles (6)

The Metabolic Signature of In Vitro Produced Bovine Embryos Helps Predict Pregnancy and Birth after Embryo Transfer.

Autoren: Isabel Gimeno; Pablo García-Manrique; Susana Carrocera; Cristina López-Hidalgo; Luis Valledor; David Martín-González; Enrique J. Gómez
Veröffentlicht in: Metabolites, Ausgabe 2, 2021, Seite(n) 484, ISSN 2218-1989
Herausgeber: MDPI
DOI: 10.3390/metabo11080484

Fitness of calves born from in vitro-produced fresh and cryopreserved embryos

Autoren: Gómez Enrique, Murillo Antonio, Carrocera Susana, Pérez-Jánez Juan José, Benedito Jose Luis, Martín-González David, Gimeno Isabel
Veröffentlicht in: Frontiers in Veterinary Science, 2022, ISSN 2297-1769
Herausgeber: -
DOI: 10.3389/fvets.2022.1006995

Predictive metabolomics of multiple Atacama plant species unveils a core set of generic metabolites for extreme climate resilience

Autoren: 2. Dussarrat, T., Prigent, S., Latorre, C., Bernillon, S., Flandin, A., Díaz, F.P., Cassan, C., Van Delft, P., Jacob, D., Varala, K., Joubes, J., Gibon, Y., Rolin, D., Gutiérrez, R.A. and Pétriacq, P.
Veröffentlicht in: New Phytologist, 2022, ISSN 1469-8137
Herausgeber: Wiley
DOI: 10.1111/nph.18095

Machine Learning-Based Retention Time Prediction of Trimethylsilyl Derivatives of Metabolites

Autoren: Sara M. de Cripan, Adrià Cereto-Massagué, Pol Herrero, Andrei Barcaru, Núria Canela, & Xavier Domingo-Almenara
Veröffentlicht in: Biomedicines, Special Ausgabe Omics Data Analysis and Integration in Complex Diseases, 2022, ISSN 2227-9059
Herausgeber: MDPI
DOI: 10.3390/biomedicines10040879

Biomarker metabolite mating of viable frozen-thawed IVP bovine embryos with pregnancy-competent recipients leads to improved birth rates

Autoren: Gimeno, I., Salvetti, P., Carrocera, S., Gatien, J., García-Manrique, P., López-Hidalgo, C., Valledor, L., Gómez, E
Veröffentlicht in: Journal of dairy science, 2023, ISSN 0022-0302
Herausgeber: American Dairy Science Association
DOI: 10.3168/jds.2022-23082

UPIMAPI, reCOGnizer and KEGGCharter: Bioinformatics tools for functional annotation and visualization of (meta)-omics datasets

Autoren: Sequeira, J. C.; Rocha, Miguel; Alves, M. M.; Salvador, Andreia Filipa Ferreira
Veröffentlicht in: Computational and Structural Biotechnology Journal, Ausgabe 1, 2022, Seite(n) 1798-1810, ISSN 2001-0370
Herausgeber: Elsevier
DOI: 10.1016/j.csbj.2022.03.042

Peer reviewed articles (4)

Computational Expansion of High-Resolution-MSn Spectral Libraries

Autoren: by Brandon Y. Lieng; Andrew T. Quaile; Hannes L. Rös (Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto); Xavier Domingo-Almenara (Centre for Omics Sciences, Eurecat – Technology Centre of Catalonia & Rovira i Virgili University Joint Unit)
Veröffentlicht in: Analytical Chemistry, 2023, ISSN 1520-6882
Herausgeber: ACS Publications
DOI: 10.1021/acs.analchem.3c03343

The recipient metabolome explains the asymmetric ovarian impact on fetal sex development after embryo transfer in cattle

Autoren: by Isabel Gimeno; Susana Carrocera; Enrique Gómez (Servicio Regional de Investigación y Desarrollo Agroalimentario); Pascal Salvetti; Julie Gatien & Daniel Le Bourhis (ELIANCE)
Veröffentlicht in: Journal of Animal Science, 2024, ISSN 1525-3163
Herausgeber: Oxford Academic
DOI: 10.1093/jas/skae081

Comparative constraint-based modelling of fruitdevelopment across species highlights nitrogen metabolismin the growth-defence trade-off

Autoren: by Sophie Colombie, Sylvain Prigent, Cedric Cassan, Annick Moing, Chloe Beaumont, Bertrand Beauvoit, Yves Gibon, Ghislaine Hilbert-Masson, Christel Renaud (Univ. Bordeaux), Emilia Dell’Aversana, Petronia Carillo (University of Campania “Luigi Vanvitelli”), Tim McCubbin, and Lars Keld Nielsen (The University of Queensland).
Veröffentlicht in: The Plant Journal, 2023, 2023, ISSN 1365-313X
Herausgeber: Wiley Online Library
DOI: 10.1111/tpj.16409

Enzyme-based kinetic modelling of ASC–GSH cycle during tomato fruit development reveals the importance of reducing power and ROS availability

Autoren: by Guillaume Decros; Thomas Dussarrat; Pierre Baldet; Martine Dieuaide-Noubhani; Alice Destailleur; Sylvain Prigent; Kentaro Mori; Joana Jorly; Sophie Colombié; Bertrand Beauvoit (INRAE, University of Bordeaux); Yves Gibon; Cédric Cassan; Amélie Flandin; Cécile Cabasson; Pierre Pétriacq (Bordeaux Metabolome, MetaboHUB)
Veröffentlicht in: New Phytologist, Ausgabe Volume 240, 2023, ISSN 1469-8137
Herausgeber: New Phytologist Foundation
DOI: 10.1111/nph.19160