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Opendata, web and dolomites

PAcMEN SIGNED

Predictive and Accelerated Metabolic Engineering Network

Total Cost €

EC-Contrib. €

Partnership

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Outcomes and
results

PAcMEN project word cloud

Explore the words cloud of the PAcMEN project. It provides you a very rough idea of what is the project "PAcMEN" about.

industrial programs causes created industry cell factory innovations smes network waste pacmen supervision oil scientists participation disciplines area microbial innovation universities skills entrepreneurship convert conduct consumption establishment networks positive renowned renewable phd ideal pioneers biorefineries students times turnover 16 collaborations finite career training environmental catastrophic sustainable predictable interdisciplinary coal commercialize chemicals metabolic scientific combination screening secondments distinguishes biomass gas contribution tomorrow itself economy technological move establishing predictability construction individual cells world coaching factories fuels framework 15 fossil altogether breakthrough prepare collaborative accelerated engineering dependent energy academic young academia

Project "PAcMEN" data sheet

The following table provides information about the project.

Coordinator	DANMARKS TEKNISKE UNIVERSITET Organization address address: ANKER ENGELUNDSVEJ 1 BYGNING 101 A city: KGS LYNGBY postcode: 2800 website: www.dtu.dk contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.
Coordinator Country	Denmark [DK]
Project website	http://www.pacmen-itn.eu/
Total cost	3˙967˙591 €
EC max contribution	3˙967˙591 € (100%)
Programme	1. H2020-EU.1.3.1. (Fostering new skills by means of excellent initial training of researchers)
Code Call	H2020-MSCA-ITN-2016
Funding Scheme	MSCA-ITN-ETN
Starting year	2016
Duration (year-month-day)	from 2016-10-01 to 2020-09-30

Partnership

Take a look of project's partnership.

#	participants	country	role	EC contrib. [€]
1	DANMARKS TEKNISKE UNIVERSITET DANMARKS TEKNISKE UNIVERSITET Organization address address: ANKER ENGELUNDSVEJ 1 BYGNING 101 A city: KGS LYNGBY postcode: 2800 website: www.dtu.dk contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DK (KGS LYNGBY)	coordinator	1˙450˙409.00
2	ECOLE POLYTECHNIQUE FEDERALE DE LAUSANNE ECOLE POLYTECHNIQUE FEDERALE DE LAUSANNE Organization address address: BATIMENT CE 3316 STATION 1 city: LAUSANNE postcode: 1015 website: www.epfl.ch contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	CH (LAUSANNE)	participant	530˙453.00
3	CHALMERS TEKNISKA HOEGSKOLA AB CHALMERS TEKNISKA HOEGSKOLA AB Organization address address: - city: GOETEBORG postcode: 41296 website: www.chalmers.se contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	SE (GOETEBORG)	participant	527˙318.00
4	TECHNISCHE UNIVERSITEIT DELFT TECHNISCHE UNIVERSITEIT DELFT Organization address address: STEVINWEG 1 city: DELFT postcode: 2628 CN website: www.tudelft.nl contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	NL (DELFT)	participant	510˙748.00
5	SILICOLIFE LDA SILICOLIFE LDA Organization address address: RUA DO CANASTREIRO 15 city: BRAGA postcode: 4715 387 website: www.silicolife.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	PT (BRAGA)	participant	450˙228.00
6	RHEINISCH-WESTFAELISCHE TECHNISCHE HOCHSCHULE AACHEN RHEINISCH-WESTFAELISCHE TECHNISCHE HOCHSCHULE AACHEN Organization address address: TEMPLERGRABEN 55 city: AACHEN postcode: 52062 website: www.rwth-aachen.de contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (AACHEN)	participant	249˙216.00
7	SESAM-BIOTECH GMBH SESAM-BIOTECH GMBH Organization address address: FORCKENBECKSTRASSE 50 city: AACHEN postcode: 52074 website: n.a. contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (AACHEN)	participant	249˙216.00
8	BORREGAARD AS BORREGAARD AS Organization address address: HJALMAR WESSELS VEI 6 city: SARPSBORG postcode: 1721 website: www.borregaard.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	NO (SARPSBORG)	partner	0.00
9	DONG ENERGY THERMAL POWER AS DONG ENERGY THERMAL POWER AS Organization address address: KRAFTVAERKSVEJ 53 city: FREDERICIA postcode: 7000 website: www.dongenergy.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DK (FREDERICIA)	partner	0.00
10	DSM FOOD SPECIALTIES BV DSM FOOD SPECIALTIES BV Organization address address: ALEXANDER FLEMINGLAAN 1 city: DELFT postcode: 2613 AX website: www.dsmfoodspecialties.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	NL (DELFT)	partner	0.00
11	EVOLVA AG EVOLVA AG Organization address address: DUGGINGERSTRASSE 23 city: REINACH postcode: 4153 website: www.evolva.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	CH (REINACH)	partner	0.00
12	TeselaGen TeselaGen Organization address address: 953 Indiana St. city: San Francisco postcode: n.a. website: n.a. contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	US (San Francisco)	partner	0.00
13	THE REGENTS OF THE UNIVERSITY OF CALIFORNIA THE REGENTS OF THE UNIVERSITY OF CALIFORNIA Organization address address: FRANKLIN STREET 1111, 12 FLOOR city: OAKLAND CA postcode: 94607 website: http://www.universityofcalifornia.edu/ contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	US (OAKLAND CA)	partner	0.00

Map

Project objective

The world economy is dependent on fossil resources: oil, gas and coal. The fossil resources are finite and their consumption causes catastrophic environmental changes. Therefore we need to move towards sustainable economy using renewable resources for energy and chemicals production. Via metabolic engineering approach, novel microbial cells can be created that can convert biomass and waste into fuels and chemicals. Metabolic engineering however distinguishes itself from other engineering disciplines by low predictability of the design and long turnover times for the cell factory construction and screening. Therefore there is a need for scientists, who can address these challenges. European Training Network on Predictable and Accelerated Metabolic Engineering Networks (PAcMEN) will be established at 5 renowned European universities and 2 SMEs with participation of 5 industrial and 1 academic partner organizations. In this program 16 PhD students (of which 15 funded by EU contribution) will learn to conduct state-of-the-art research on metabolic engineering of microbial cell factories and learn to commercialize innovations. This will be achieved via collaborative research projects under supervision of top scientists from academia and industry, network training, secondments with network partners, training on innovation and entrepreneurship, and individual career coaching. Altogether, PAcMEN training programme will provide young scientists with the ideal combination of scientific, technological, industrial and management skills to prepare them for their role as breakthrough pioneers in the establishment of tomorrow’s biorefineries. The PAcMEN project will have an overall positive impact by strengthening the research networks in the area of metabolic engineering, establishing long-term collaborations between the universities and industry, and by creating a framework for future interdisciplinary training programs.

Deliverables

List of deliverables.
PAcMEN website	Websites, patent fillings, videos etc.	2020-01-29 13:50:28
A new validated method for FACS-based screening of engineered proteins	Documents, reports	2020-01-29 13:50:28

Take a look to the deliverables list in detail: detailed list of PAcMEN deliverables.

Publications

List of publications.
year	authors and title	journal	last update
2020	Pierre Salvy, Vassily Hatzimanikatis The ETFL formulation allows multi-omics integration in thermodynamics-compliant metabolism and expression models published pages: , ISSN: 2041-1723, DOI: 10.1038/s41467-019-13818-7	Nature Communications 11/1	2020-02-04
2019	Petter Holland, David Bergenholm, Christoph S BÃ¶rlin, Guodong Liu, Jens Nielsen Predictive models of eukaryotic transcriptional regulation reveals changes in transcription factor roles and promoter usage between metabolic conditions published pages: 4986-5000, ISSN: 0305-1048, DOI: 10.1093/nar/gkz253	Nucleic Acids Research 47/10	2020-01-29
2019	Noushin Hadadi, Homa MohammadiPeyhani, Ljubisa Miskovic, Marianne Seijo, Vassily Hatzimanikatis Enzyme annotation for orphan and novel reactions using knowledge of substrate reactive sites published pages: 7298-7307, ISSN: 0027-8424, DOI: 10.1073/pnas.1818877116	Proceedings of the National Academy of Sciences 116/15	2020-01-29
2019	Hongzhong Lu, Feiran Li, BenjamÃn J. SÃ¡nchez, Zhengming Zhu, Gang Li, IvÃ¡n Domenzain, Simonas MarciÅ¡auskas, Petre Mihail Anton, Dimitra Lappa, Christian Lieven, Moritz Emanuel Beber, Nikolaus Sonnenschein, Eduard J. Kerkhoven, Jens Nielsen A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism published pages: , ISSN: 2041-1723, DOI: 10.1038/s41467-019-11581-3	Nature Communications 10/1	2020-01-29
2019	Jonathan Dahlin, Carina Holkenbrink, Eko Roy Marella, Guokun Wang, Ulf Liebal, Christian Lieven, Dieter Weber, Douglas McCloskey, Birgitta E. Ebert, Markus J. HerrgÃ¥rd, Lars Mathias Blank, Irina Borodina Multi-Omics Analysis of Fatty Alcohol Production in Engineered Yeasts Saccharomyces cerevisiae and Yarrowia lipolytica published pages: , ISSN: 1664-8021, DOI: 10.3389/fgene.2019.00747	Frontiers in Genetics 10	2020-01-29
2019	Gang Li, Kersten S. Rabe, Jens Nielsen, Martin K. M. Engqvist Machine Learning Applied to Predicting Microorganism Growth Temperatures and Enzyme Catalytic Optima published pages: 1411-1420, ISSN: 2161-5063, DOI: 10.1021/acssynbio.9b00099	ACS Synthetic Biology 8/6	2020-01-29
2018	Christoph S BÃ¶rlin, Nevena Cvetesic, Petter Holland, David Bergenholm, Verena Siewers, Boris Lenhard, Jens Nielsen Saccharomyces cerevisiae displays a stable transcription start site landscape in multiple conditions published pages: , ISSN: 1567-1364, DOI: 10.1093/femsyr/foy128	FEMS Yeast Research 19/2	2020-01-29
2019	Eko Roy Marella, Jonathan Dahlin, Marie Inger Dam, Jolanda ter Horst, Hanne Bjerre Christensen, Suresh Sudarsan, Guokun Wang, Carina Holkenbrink, Irina Borodina A single-host fermentation process for the production of flavor lactones from non-hydroxylated fatty acids published pages: , ISSN: 1096-7176, DOI: 10.1016/j.ymben.2019.08.009	Metabolic Engineering	2020-01-29
2019	Gang Li, Boyang Ji, Jens Nielsen The pan-genome of Saccharomyces cerevisiae published pages: , ISSN: 1567-1356, DOI: 10.1093/femsyr/foz064	FEMS Yeast Research 19/7	2020-01-29
2019	Christoph S BÃ¶rlin, David Bergenholm, Petter Holland, Jens Nielsen A bioinformatic pipeline to analyze ChIP-exo datasets published pages: , ISSN: 2396-8923, DOI: 10.1093/biomethods/bpz011	Biology Methods and Protocols 4/1	2020-01-29
2018	SÃ¸ren D Petersen, Jie Zhang, Jae S Lee, Tadas JakoÄiÅ«nas, Lise M Grav, Helene F Kildegaard, Jay D Keasling, Michael K Jensen Modular 5â€²-UTR hexamers for context-independent tuning of protein expression in eukaryotes published pages: , ISSN: 0305-1048, DOI: 10.1093/nar/gky734	Nucleic Acids Research	2020-01-29
2018	Eko Roy Marella, Carina Holkenbrink, Verena Siewers, Irina Borodina Engineering microbial fatty acid metabolism for biofuels and biochemicals published pages: 39-46, ISSN: 0958-1669, DOI: 10.1016/j.copbio.2017.10.002	Current Opinion in Biotechnology 50	2020-01-29
2017	Vasil D\'Ambrosio, Michael K. Jensen Lighting up yeast cell factories by transcription factor-based biosensors published pages: , ISSN: 1567-1364, DOI: 10.1093/femsyr/fox076	FEMS Yeast Research 17/7	2020-01-29
2018	Farshad Darvishi, Mehdi Ariana, Eko Roy Marella, Irina Borodina Advances in synthetic biology of oleaginous yeast Yarrowia lipolytica for producing non-native chemicals published pages: 5925-5938, ISSN: 0175-7598, DOI: 10.1007/s00253-018-9099-x	Applied Microbiology and Biotechnology 102/14	2020-01-29
2018	Hannes Juergens, Javier A Varela, Arthur R Gorter de Vries, Thomas Perli, Veronica J M Gast, Nikola Y Gyurchev, Arun S Rajkumar, Robert Mans, Jack T Pronk, John P Morrissey, Jean-Marc G Daran Genome editing in Kluyveromyces and Ogataea yeasts using a broad-host-range Cas9/gRNA co-expression plasmid published pages: , ISSN: 1567-1364, DOI: 10.1093/femsyr/foy012	FEMS Yeast Research 18/3	2020-01-29
2018	Pierre Salvy, Georgios Fengos, Meric Ataman, Thomas Pathier, Keng C Soh, Vassily Hatzimanikatis pyTFA and matTFA: a Python package and a Matlab toolbox for Thermodynamics-based Flux Analysis published pages: , ISSN: 1367-4803, DOI: 10.1093/bioinformatics/bty499	Bioinformatics	2020-01-29

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