MetaPlat SIGNED
Development of an Easy-to-use Metagenomics Platform for Agricultural Science
Total Cost €
0EC-Contrib. €
0Partnership
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0MetaPlat project word cloud
Explore the words cloud of the MetaPlat project. It provides you a very rough idea of what is the project "MetaPlat" about.
Project "MetaPlat" data sheet
The following table provides information about the project.
| Coordinator |
UNIVERSITY OF ULSTER
Organization address contact info |
| Coordinator Country | United Kingdom [UK] |
| Project website | http://www.metaplat.eu/ |
| Total cost | 648˙000 € |
| EC max contribution | 648˙000 € (100%) |
| Programme |
1. H2020-EU.1.3.3. (Stimulating innovation by means of cross-fertilisation of knowledge) |
| Code Call | H2020-MSCA-RISE-2015 |
| Funding Scheme | MSCA-RISE |
| Starting year | 2015 |
| Duration (year-month-day) | from 2015-12-01 to 2019-11-30 |
Partnership
Take a look of project's partnership.
| # | ||||
|---|---|---|---|---|
| 1 | UNIVERSITY OF ULSTER | UK (COLERAINE) | coordinator | 90˙000.00 |
| 2 | NSILICO LIFE SCIENCE LIMITED | IE (DOUGLAS) | participant | 315˙000.00 |
| 3 | FTK FORSCHUNGSINSTITUT FUR TELEKOMMUNIKATION UND KOOPERATION EV | DE (DORTMUND) | participant | 135˙000.00 |
| 4 | SRUC | UK (EDINBURGH) | participant | 54˙000.00 |
| 5 | UNIVERSITA DEGLI STUDI DI NAPOLI FEDERICO II | IT (NAPOLI) | participant | 54˙000.00 |
Map
Project objective
The aim of this project is to bring together experts from the academic and non-academic sectors and to create an easy-to-use integrated hardware and software platform. This will enable the rapid analysis of large metagenomic datasets. It will provide actionable insights into probiotic supplement usage, methane production and feed conversion efficiency in cattle. In the recent years, the number of projects or studies producing very large quantities of sequencing data – analysing microbial communities make-up and their interactions with the environment – has increased. Yet, the depth of analysis done is very superficial and represents an inefficient use of available information and financial resources. This project aims to address these deficiencies and will study the change within microbial communities, under various conditions in cattle guts and impacting probiotic supplement usage, methane production and feed conversion efficiency in cattle. To succeed, we propose to develop faster and more accurate analytic platforms in order to fully utilise the datasets generated. By focusing on better hardware and software platforms, better expertise and training, this project will pave the way for a more optimal usage of metagenomic datasets, thus reducing the number of animals necessary. This will ensure better and more economic animal welfare.
The Meta-Plat project objective is a mixture of innovative research, focused application and commercial awareness. The core objectives being pursued are: • Sample gut collection, from cattle, for sequencing; • Collection of publically available databases – to create a new classification of previously unclassified sequences, using machine learning algorithms; • Development of accurate classification algorithms; • Real-time or time-efficient comparison analyses; • Production of statistical and visual representations, conveying more useful information; • Platform integration; • Provide insights into probiotic supplement usage, methan
Deliverables
| Publications | Documents, reports | 2020-04-14 21:37:13 |
| Public release of the meta-genomic analysis platform | Other | 2020-04-14 21:37:13 |
| Technical reports and Platform Integration of WP3 pipelines | Documents, reports | 2020-04-14 21:37:13 |
| Academic papers and technical reports | Documents, reports | 2020-04-14 21:37:13 |
| Academic papers on changes in rumen microbial population due to chronic stress | Documents, reports | 2020-04-14 21:37:13 |
| Implementation of next software platform | Websites, patent fillings, videos etc. | 2020-04-14 21:37:13 |
| Academic papers & technical reports | Documents, reports | 2020-04-14 21:37:13 |
| Technical reports and Platform Integration of WP4 pipelines | Documents, reports | 2020-04-14 21:37:13 |
| Technical reports and Platform Integration of WP2 results and databases | Documents, reports | 2020-04-14 21:37:13 |
| Academic Papers | Documents, reports | 2020-04-14 21:37:13 |
| Implementation of Software platform | Demonstrators, pilots, prototypes | 2020-04-14 21:37:13 |
| Submission to EBI ENA database of the raw sequence files | Websites, patent fillings, videos etc. | 2020-04-14 21:37:13 |
| Current Algorithm evolution – Review/position publication | Documents, reports | 2020-04-14 21:37:12 |
Take a look to the deliverables list in detail: detailed list of MetaPlat deliverables.
Publications
| year | authors and title | journal | last update |
|---|---|---|---|
| 2019 |
Jyotsna Talreja Wassan, Huiru Zheng, Haiying Wang, Fiona Browne, Paul Walsh, Tim Manning, Richard Dewhurst, Rainer Roehe A Phylogeny-aware Feature Ranking for Classification of Cattle Rumen Microbiome published pages: , ISSN: , DOI: |
2019 IEEE International Conference on Bioinformatics and Biomedicine | 2020-04-14 |
| 2019 |
Mengyuan Wang, Huiru Zheng, Haiying Wang, Richard Dewhurst, Rainer Roehe, A knowledge driven mutual information-based analytical framework for the identification of rumen metabolites published pages: , ISSN: , DOI: |
2019 IEEE International Conference on Bioinformatics and Biomedicine | 2020-04-14 |
| 2019 |
Timmy Manning, Miguel Somarriba, Rainer Roehe, Simon Turner, Haiying Wang, Huiru Zheng, Brian Kelly, Jennifer Lynch, Paul Walsh Automated Object Tracking for Animal Behaviour Studies published pages: , ISSN: , DOI: |
2019 IEEE International Conference on Bioinformatics and Biomedicine | 2020-04-14 |
| 2019 |
Binh Vu, Yanxin Wu, Haithem Afli, Paul Mc Kevitt, Paul Walsh, Felix Engel, Michael Fuchs, Matthias Hemmje A Metagenomic Content and Knowledge Management Ecosystem Platform published pages: , ISSN: , DOI: |
2019 IEEE International Conference on Bioinformatics and Biomedicine | 2020-04-14 |
| 2019 |
Jyotsna Talreja Wassan, Haiying Wang, Fiona Browne, Huiru Zheng Phy-PMRFI: Phylogeny-Aware Prediction of Metagenomic Functions Using Random Forest Feature Importance published pages: 273-282, ISSN: 1536-1241, DOI: 10.1109/tnb.2019.2912824 |
IEEE Transactions on NanoBioscience 18/3 | 2020-04-14 |
| 2018 |
Huiru Zheng, Haiying Wang, Richard Dewhurst, Rainer Roehe Improving the Inference of Co-occurrence Networks in the Bovine Rumen Microbiome published pages: 1-1, ISSN: 1545-5963, DOI: 10.1109/tcbb.2018.2879342 |
IEEE/ACM Transactions on Computational Biology and Bioinformatics | 2020-04-14 |
| 2017 |
Haiying Wang, Huiru Zheng, Fiona Browne, Rainer Roehe, Richard J. Dewhurst, Felix Engel, Matthias Hemmje, Xiangwu Lu, Paul Walsh Integrated metagenomic analysis of the rumen microbiome of cattle reveals key biological mechanisms associated with methane traits published pages: 108-119, ISSN: 1046-2023, DOI: 10.1016/j.ymeth.2017.05.029 |
Methods 124 | 2020-04-14 |
| 2018 |
Jyotsna Talreja Wassan, Haiying Wang, Fiona Browne, Huiru Zheng A Comprehensive Study on Predicting Functional Role of Metagenomes Using Machine Learning Methods published pages: 1-1, ISSN: 1545-5963, DOI: 10.1109/tcbb.2018.2858808 |
IEEE/ACM Transactions on Computational Biology and Bioinformatics | 2020-04-14 |
| 2016 |
Haiying Wang, Huiru Zheng, Fiona Browne, Rainer Roehe, Richard Dewhurst, Felix Engel, Matthias Hemmje, and Paul Walsh Analysis of Rumen Microbial Community in Cattle through the Integration of Metagenomic and Network-based Approaches published pages: , ISSN: , DOI: |
Proc. of the IEEE International Conference on Bioinformatics and Biomedicine | 2020-04-14 |
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The information about "METAPLAT" are provided by the European Opendata Portal: CORDIS opendata.
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