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Fwd: Open position: Computational Scientist (m/f/d) - Monheim (Germany)
by Lieven Sterck 07 May '19

07 May '19

FYI > From: "erick antezana" <erick.antezana(a)gmail.com> > To: "erick antezana" <erick.antezana(a)gmail.com> > Sent: Tuesday, 7 May, 2019 15:11:54 > Subject: Open position: Computational Scientist (m/f/d) - Monheim (Germany) > (apologies for cross-posting) > Dear colleague, > We are looking for a 'computational scientist' with the following profile: > * Scientific master degree in bioinformatics or similar > * Experience in building and maintaining (bio-)ontologies as well as in > automatizing ontology maintenance tasks (e.g. using scripts) > * Experience/exposure with master data management (data stewardship and > governance) and with biological data integration as well as algorithms design > and implementation > * Experience in semantic web technologies and standards, e.g. with OBO, RDF, > OWL, SHACL, SPARQL, SKOS > * Familiar with graph-based systems (e.g. triple stores) > * Good understanding of ontology reasoning services and ontology editing tools > as well as of public resources as gene ontology, plant ontology, traits > ontology > * High ability to solve problems and to structure and simplify complex tasks and > ability to contribute in an international and dynamic research and development > team > * Fluent in English, both written and spoken > More details: > [ > https://jobs.bayer.com/job/Monheim-Computational-Scientist-%28mfd%29-Nort/5… > | > https://jobs.bayer.com/job/Monheim-Computational-Scientist-%28mfd%29-Nort/5… > ] > If you have any questions, don't hesitate in contacting me. > Best regards, > Erick Antezana

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HELIS Academy: Omics data analysis 11-14 June
by Tuur Muyldermans 07 May '19

07 May '19

?Dear, HELIS Academy presents the workshop "Omics data analysis through data integration - using biological pathways, networks, and linear models" What: The first HELIS Academy<https://helisacademy.com/en> Omics Data Analysis course will teach you about transcriptomics data analysis and multi-omics data integration. Topics that will be discussed: * Addressing how you obtain published data from data repositories and cover basic pre-processing steps, * Introducing you to molecular pathways, from what they are, to how to make your own, to how to use them in advanced omics data analysis (transcriptomics, proteomics, metabolomics) and how this compares Gene Ontology analysis, * Zooming out to utilize your pathway analysis in a broader network analysis so you can see the bigger picture, * How to integrate Omics data sets in an unsupervised statistical way using linear models. When: Tuesday 11 - Friday 14 June 2019. Following separate days/topics is possible. Full program details can be found here<https://training.vib.be/helis-academy-course-omics-data-analysis-through-da…>. For who: Scientists from industry and academia who wish to improve their hands-on knowledge on data integration techniques. Some basic experience with programming and scripting languages like Java and R is appreciated. This course is part of the Data Analysis and Stewardship theme of Helis Academy<https://www.helisacademy.com/en> and is organised by Maastricht University and VIB. Info about other courses in the theme of Data Analysis and Stewardship can be found on the Helis Academy website<https://www.helisacademy.com/en/data-analysis-stewardship> and also on the Helis Academy page on the DTL website<https://www.dtls.nl/training-and-education/helis-academy/>. Please spread this announcement in your organisation as you see fit. Kind regards, Tuur Muyldermans On behalf of the HELIS-DAS Academy team Tuur Muyldermans - ELIXIR Bioinformatics Trainer ELIXIR Belgium | VIB Bioinformatics Core Rijvisschestraat 126, 9052 Ghent | +32 9 248 16 15 www.elixir-belgium.org<https://www.elixir-belgium.org/> | https://corefacilities.vib.be<https://corefacilities.vib.be/> [ELIXIR logo]

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CFP MOPGP'2019 @Marrakech
by El-ghazali Talbi 06 May '19

06 May '19

CALL FOR ABSTRACTS The 13th International Conference on Multiple Objective Programming and Goal Programming (MOPGP) 28-31 October 2019, Marrakech, Morocco http://mopgp.org/ ----------------------------------------------------------------------------------------------------------------------- Dear Colleague, Selected extended-abstracts will be considered as potential full-paper publications, subject to peer reviews in the Journal "Annals of Operations Research" ( http://rutcor.rutgers.edu/CfPMOPGP%202019.pdf ). Abstracts are being accepted in the following categories: Theories and applications of MOP/GP; Fuzzy sets, soft computing and MOP/GP; Neural networks, meta-heuristics and MOP/GP; Interactive MOP/GP methods; Evolutionary MOP; Discrete and combinatorial MOP/GP; Stochastic MOP/GP; Fuzzy MOP/GP; Dynamic MOP/GP; Business applications of MOP/GP (Finance, Management, Marketing, …); Engineering applications of MOP/GP; All other topics in relation to MOP/GP Submission Deadline: May 30, 2019. Thank you in advance and look forward to seeing you! Best regards http://mopgp.org/ -- *********************************************************************** MOPGP'2019 Int. Conference on Multiple Objective Programming and Goal Programming 28-31 Oct 2019, Marrakech, Morocco http://www.mopgp.org *********************************************************************** Prof. El-ghazali TALBI Polytech'Lille, University Lille - INRIA CRISTAL - CNRS

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11th ISABS (International Society for Applied Biological Sciences) Conference in Split
by Lovro Trgovec-Greif 04 May '19

04 May '19

Dear all, On June 17-22, 2019, the 11th ISABS Conference on Forensic and Anthropologic Genetics and Mayo Clinic Lectures in Individualized Medicine will be held in Split, Croatia. The topics covered are also interesting to bioinformaticians/computational biologists. Among lots of interesting lectures there will be 4 lectures given by Nobel Laureates. Topics covered on the conference are are separated into three clusters: 1) Forensic Genetics, 2) Anthropological Genetics, 3) Medical Genetics. Details about the lecutres and registration could be found on the official web-page https://isabs.hr . Best regards, Lovro Trgovec-Greif

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VIB Bioinformatics Course - some places for Introduction to Python and Mass Spectometry Data Processing still available
by Alexander Botzki 03 May '19

03 May '19

Dear all, We would like to inform you that some places are still available for two courses organised by VIB Bioinformatics Core. Introduction to Python in Ghent, close to Ghent Sint Pieters Station More info and registration: https://training.vib.be/gentle-hands-introduction-python-programming Mass spectrometry data processing in Ghent, Technologiepark More info and registration: https://training.vib.be/mass-spectrometry-data-processing Thanks a lot. Best regards, Alex VIB Bioinformatics Core https://www.bits.vib.be

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Helis Academy Course: FAIR Data Stewardship - digital data scholarship for wetlab scientists, 27-29 May, 2019, Niel (Antwerp), Belgium
by Celia van Gelder 03 May '19

03 May '19

Dear colleague, >From 27-29 May, 2019, we will organize the first course in Data Analysis and Stewardship theme of the Helis Academy: FAIR Data Stewardship - digital data scholarship for wet lab scientists The target audience is wet-lab scientists - from industry and academia - and graduate students in the Life Sciences who wish to improve their digital scholarship on data handling. Some basic experience with programming and scripting languages like python, perl, R, matlab, etc. are an advantage, but not needed. The course is also relevant for Data Stewards who are supporting the life science researchers. The course will introduce the trainees to important concepts of data stewardship. We start with a general introduction covering the data life cycle, the FAIR principles and a definition of data stewardship and data stewards. The course will introduce the trainees to important concepts of data stewardship <https://www.dtls.nl/fair-data/research-data-management/research-data-manage ment/> . We start with a general introduction covering the data life cycle, the FAIR principles <https://doi.org/10.1038%2Fsdata.2016.18> and a definition of data stewardship and data stewards. We will pass the stages of the data life cycle in more detail in the training modules of this 3 day course. * Day 1: Why use a data management plan and what for? On day one trainees will investigate data management plans, which types are there and how they should be used. * Day 2: Mastering the data chaos during the research phase. On day two the course highlights how to work with data during the research phase, explaining how to create well formatted data which helps in the second module of day two to make data interoperable already during the active research phase. * Day 3: Boost your visibility and get cited for your data! On day three trainees will have an in-depth at persistent identifiers, different use cases and types of identifiers. Finally we are closing the data life cycle by making data fit for sharing, archiving and publishing. The training is organised by <http://www.dtls.nl/> DTL and delivered as a joint effort by DTL partners. You can find all the information, including the full programme and registration possibilities here: https://www.aanmelder.nl/helis-fair-data-stewardship-course This course is part of the Data Analysis and Stewardship theme of Helis Academy <https://www.helisacademy.com/en> and is organised by DTL and DTL collaborators. Info about other courses in the theme of Data Analysis and Stewardship can be found on the Helis Academy website <https://www.helisacademy.com/en/data-analysis-stewardship> and on the Helis Academy page on the DTL website <https://www.dtls.nl/training-and-education/helis-academy/> . Please spread this announcement in your organisation as you see fit. Best regards, Celia van Gelder Dr. Celia W.G. van Gelder Programme Manager DTL Learning Training Coordinator ELIXIR-NL ELIXIR Training Platform Leader tel. +31613375327 e-mail: <mailto:celia.van.gelder@dtls.nl> celia.van.gelder(a)dtls.nl websites: <https://www.dtls.nl/> https://www.dtls.nl/, <https://www.elixir-europe.org/platforms/training> https://www.elixir-europe.org/platforms/training skype: celia.van.gelder Office: DTL | Jaarbeurs Innovation Mile (JIM) | 6th floor Beatrixgebouw | Jaarbeursplein 6 | 3521 AL Utrecht Postal address: Postbus 8500 | 3503 RM Utrecht While I may be sending this email outside my normal office hours, I have no expectation to receive a reply outside yours.

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Course: Bioinformatics workflows with Snakemake
by TRAIN edgenomics-training 02 May '19

02 May '19

Are you running data analysis workflows? Want to step up to the next level of organisation and efficiency? Save yourself time, increase replicability, and master your analysis with Snakemake. The Snakemake workflow system provides effective solutions to organise your tasks, document and share your methods, make effective use of compute resources, and handle unexpected errors in processing. Edinburgh Genomics are offering a two-day course that will have you confident in using Snakemake to tackle complex workflow problems and in your day-to-day research. There are still places remaining for the first instance of this course: 30th - 31st May 2019. Sign up now here: http://genomics.ed.ac.uk/services/bioinformatics-workflows-snakemake Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics G.06, Ashworth Laboratories, Charlotte Auerbach Road, The King's Buildings, The University of Edinburgh, EH9 3FL, Edinburgh, Scotland Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.

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ELIXIR training course taking place 13, 14th of May and 15th of May in Ghent: Genomics and Best practises for Open Software - last days for registration
by Alexander Botzki 01 May '19

01 May '19

Dear all, I would like to send again the announcement of two ELIXIR training course taking place 13, 14th of May and 15th of May in Ghent. Introduction to Reproducible Genomics: Data Carpentry This is a Data Carpentry Workshop, with a special focus on sequence handling for variant calling using the cloud resources, the workshop will introduce you to Genomic concepts and scripting. Registration: https://training.vib.be/data-carpentry-genomics Best practises in Open Software In recent years, scientific research has become more data driven and data intensive and it is no longer possible to carry out the analysis without the use of computers and research software. Unfortunately, software is not always developed following best practices that ensure its quality and sustainability. Four simple recommendations to encourage best practices in open research software<https://f1000research.com/articles/6-876/v1> is a publication that addresses this issue by providing a simple, yet robust framework of recommendations that encourage the adoption of existing best practices in research software development. Registration: https://training.vib.be/4-oss-best-practises-open-software Trainers: Mateusz Kuzak, Toby Hodges Location: Ghent, training room in walking distance from Ghent Sint Pieters station Please feel free to spread further in your network if you see fit. Best regards, Alex Alexander Botzki - Head of VIB Bioinformatics Core | Training Coordinator ELIXIR-BE VIB Bioinformatics Core Rijvisschestraat 126, 9052 GENT, Belgium | +32 9 248 16 00 www.bits.vib.be<http://www.bits.vib.be/> | @vibbioinfocore | https://corefacilities.vib.be<https://corefacilities.vib.be/> [signatureFooter (002)]

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Positions available: 2 Research Engineers in Network Biology and Network Bioinformatics (TAGC; Marseille)
by Christine Brun 29 Apr '19

29 Apr '19

Dear all We have been funded for 2 Research Engineer positions in our labs (2 years each), working on systems genetics and network biology of cardiac aging in flies. Details are in the adds bellow. Please spread the information around you, Best Regards, Christine Brun, PhD, DR CNRS TAGC Deputy Director TAGC Inserm U1090, Aix-Marseille Université, Parc Scientifique et Technologique de Luminy, Case 928, 13288 Marseille cedex 9, France +33 4 91 82 87 12 christine-g.brun(a)inserm.fr <mailto:christine-g.brun@inserm.fr> https://tagc.univ-amu.fr/en/users/brun-christine <https://tagc.univ-amu.fr/en/users/brun-christine> and Laurent Perrin, CNRS Theories and Approaches of Genomic Complexity (TAGC) INSERM/AMU UMR_1090 Parc Scientifique de Luminy case 928 163, avenue de Luminy 13288 Marseille France Phone: 33491828727 laurent.perrin(a)univ-amu.fr <mailto:laurent.perrin@univ-amu.fr> Websites: https://tagc.univ-amu.fr/ <https://tagc.univ-amu.fr/> https://tagc.univ-amu.fr/en/users/perrin-laurent

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Postdoc positions in London
by Peter Van Loo 28 Apr '19

28 Apr '19

Hi all, For those interested in cancer genomics, we’ve got two postdoc positions in sarcoma genomics in London (one at Crick, one at UCL, in collaboration with Adrienne Flanagan): https://www.crick.ac.uk/research/labs/peter-van-loo/vacancies Best wishes, Peter -- Peter Van Loo, PhD Winton Group Leader – Cancer Genomics The Francis Crick Institute 1 Midland Road London NW1 1AT http://www.crick.ac.uk/peter-van-loo The Francis Crick Institute Limited is a registered charity in England and Wales no. 1140062 and a company registered in England and Wales no. 06885462, with its registered office at 1 Midland Road London NW1 1AT

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