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Last days to submit your abstract for Applied Bioinformatics in Life Sciences (2nd edition), 8-9 March, Leuven
by Lander Briels 08 Jan '18

08 Jan '18

8-9 March - Leuven - BE No Images? Click here<http://email.vibconferences.be/t/r-e-jrdryktt-l-f/> [http://i1.cmail19.com/ei/r/51/C55/137/031430/csfinal/Mailheaderwhiteletters…]<http://email.vibconferences.be/t/r-i-jrdryktt-l-r/> Abstract deadline 11 January Early Bird deadline 25 January Dear , First of all we wish you a happy and healthy new year! That all your goals may be achieved in 2018! With this email we want to remind you of the upcoming Abstract deadline of 11 January and would like to offer you the opportunity to take advantage of the Early Bird discount to register for the second edition of 'Applied Bioinformatics in Life Sciences'. The conference will take place on 8-9 March 2018, in Leuven, Belgium. [Rounded Rectangle: Register here] [Present your research at ABLS18]<http://email.vibconferences.be/t/r-i-jrdryktt-l-j/> Call for Abstracts - poster award Present your own research to more than 200 peers during one of our poster sessions. The deadline for the poster abstract submission is 11 January, 2018. The best abstracts will be selected for an oral presentation and the best poster will receive a poster prize! [Rounded Rectangle: Submit your abstract] [http://i3.cmail19.com/ei/r/51/C55/137/031430/csfinal/Speaker-hall1.jpg] Join 18 experts in the field The symposium will bring together some of the most highly regarded Academics in the world with novel technologies in several sessions, with topics focused on: · Medical Integrative Omics · Proteomics and Metabolomics · Structural Bioinformatics · Systems Biology The speakers covering these topics include: · Naama Barkai - Weizmann Institute of Science, IL · Stephan Beck - UCL, UK · Albert Heck - Utrecht University, NL · Ines Thiele - University of Luxembourg, LU · Janet Thornton - EMBL-EBI, UK · Michele Vendruscolo - University of Cambridge, UK · And many more...<http://email.vibconferences.be/t/r-i-jrdryktt-l-i/> [http://i4.cmail19.com/ei/r/51/C55/137/031430/csfinal/FacultyClub1.jpg] Meet your next collaborator You will also have ample opportunity to network during the catering moments and poster sessions. The conference dinner will take place in the 'The <http://email.vibconferences.be/t/r-i-jrdryktt-l-d/> F<http://email.vibconferences.be/t/r-i-jrdryktt-l-h/>aculty Club<http://email.vibconferences.be/t/r-i-jrdryktt-l-k/>' on 8 March. This is the ideal opportunity to network with our speakers and to meet your future collaborators. Not convinced yet? Please take a look at the pictures from the first edition<http://email.vibconferences.be/t/r-i-jrdryktt-l-b/>. We look forward to welcoming you in Leuven in 2018! With kind regards, Evy Vierstraete On behalf of the Organizing Committee: Alexander Botzki, VIB Bioinformatics Core Brigida Gallone, VIB-KU Leuven Center for Microbiology Diether Lambrechts, VIB-KU Leuven Center for Cancer Biology Joost Schymkowitz, VIB-KU Leuven Center for Brain & Disease Research Vanessa Vermeirssen, VIB-UGent Center for Plant Systems biology Paola Masuzzo, VIB-UGent Center for Medical Biotechnology Evy Vierstraete, VIB Science Events manager [Sponsors of GESB18]<http://email.vibconferences.be/t/r-i-jrdryktt-l-n/> [VIB Conference Series]<http://email.vibconferences.be/t/r-i-jrdryktt-l-x/> [Facebook]<http://email.vibconferences.be/t/r-i-jrdryktt-l-m/> [Twitter]<http://email.vibconferences.be/t/r-i-jrdryktt-l-c/> [LinkedIn]<http://email.vibconferences.be/t/r-i-jrdryktt-l-q/> [Website]<http://email.vibconferences.be/t/r-i-jrdryktt-l-a/> To stop receiveiving our invitations please click below. [http://i10.cmail19.com/static/eb/master/13-the-blueprint-3/images/tweet-ico…] Tweet <http://email.vibconferences.be/t/r-tw-jrdryktt-l-z/> [http://i1.cmail19.com/static/eb/master/13-the-blueprint-3/images/lishare-ic…] Share <http://email.vibconferences.be/t/r-li-jrdryktt-l-v/> Unsubscribe<http://email.vibconferences.be/t/r-u-jrdryktt-l-e/>

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bioinformatics postdoc in systems vaccinology
by Martijn.Huijnen＠radboudumc.nl 08 Jan '18

08 Jan '18

Dear all, The CMBI at the Radboud University is looking for a postdoc to do research into systems vaccinology of Bordetella pertussis (whooping cough, see attachment). Thank you for forwarding this vacancy to any potential candidates. Best regards, Martijn Huynen Het Radboudumc staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629. The Radboud university medical center is listed in the Commercial Register of the Chamber of Commerce under file number 41055629.

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One week left to apply: PhD position in bioinformatics for haplotype assembly - @DelftBL - @TUDelft
by Thomas Abeel - EWI 08 Jan '18

08 Jan '18

We have a Bioinformatics PhD position available at The Delft Bioinformatics Lab at TU Delft. Project: Your goal in this project is to create novel algorithms that resolve haplotypes in microbial genomes. Haplotypes refer to the sequence of all individual chromosome copies typically inherited together from a parent. This within-species genetic heterogeneity is one of the missing pieces in many microbial comparative genomics studies aiming to associate genotypes with phenotypes of interest. For many organisms, we poorly understand the contribution of the diversity within an individual, and one of the key reasons is that we don't have the computational tools to study this diversity. With the continued improvements in third generation sequencing technology, combined with the vast quantity of data being deposited publicly, this problem is ready for a solution. You will have three aims: • Implement reference-guided haplotyping from pangenome reference sequence graphs • Explore de novo haplotyping from 3rd generation sequencing data • Investigate copy-number detection at the gene and chromosome scale, and intra-chromosomal DNA variation. Candidate: The ideal candidate has an MSc degree in bioinformatics, computer science, or applied mathematics. Affinity with or experience in biology, genomics and/or sequence analysis are desirable. He/she must be able to work effectively in a multidisciplinary team. The candidate shares our view that communication skills are important, as is the ability to interact with peers, students, and technical staff. Programming and scripting experience is required. Experience in microbial genomics is an advantage. Apply before January 15, 2018 https://www.academictransfer.com/employer/TUD/vacancy/43973/lang/en/ kind regards, Thomas

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CFP META'18 @Marrakech
by El-ghazali Talbi 07 Jan '18

07 Jan '18

Apologies for cross-posting. Appreciate if you can distribute this CFP to your network. ********************************************************************** META'2018 International Conference on Metaheuristics and Nature Inspired Computing 27-31 Oct 2018 Marrakech, Morocco http://meta2018.sciencesconf.org/ ********************************************************************** META is one of the main event focusing on the progress of the area of metaheuristics and their applications. As in previous editions, META’2018 will provide an opportunity to the international research community in metaheuristics to discuss recent research results, to develop new ideas and collaborations, and to meet old friends and make new ones in a friendly and relaxed atmosphere. All selected papers will be published in the conference proceedings. Following the tradition, selected long papers will be published in a postponed Springer book as in META'2014 and META'2016. At least, 2 special special issues in ISI and SCOPUS journals are also confirmed: - Special issue in "Optimization and learning" in Wiley Journal ITOR - International Journal on Operational Research (deadline for submission: 31 May 2018) - Special issue in "Metaheuristics for 4.0 industry" in Elsevier Journal Swarm-and-Evolutionary-Computation (deadline for submission: 31 May 2018) META'2018 welcomes presentations that cover any aspects of metaheuristic research such as new algorithmic developments, high-impact applications, new research challenges, theoretical developments, implementation issues, and in-depth experimental studies. META'2018 strives for a high-quality program that will be completed by a number of invited talks, tutorials, workshops and special sessions. The scope of the META’2018 conference includes, but is not limited to: * Local search, tabu search, simulated annealing, VNS, ILS, … * Evolutionary algorithms, swarm optimization, scatter search, … * Emergent nature inspired algorithms: quantum computing, artificial immune systems, bee colony, DNA computing, … * Parallel algorithms * Hybrid methods with machine learning, game theory, mathematical programming, constraint programming, co-evolutionary, … * Application to: logistics and transportation, networks, scheduling, data mining, engineering design, energy, cloud, bio-medical, … * Theory of metaheuristics, landscape analysis, convergence, problem difficulty, very large neighbourhoods, … * Multi-objective optimization, bi-level optimization * Dynamic optimization, problems with uncertainty, … * Parameter tuning (static, dynamic, adaptive, self-adaptive) * Hyper-heuristics, cross-domain metaheuristics * Software frameworks for metaheuristics and nature inspired computing Submission of papers: ____________________ - Submission of papers via the website S1) Short papers: Extended abstracts of work-in-progress and position papers of a maximum of 3 pages. S2) Long papers: Original research contributions of a maximum of 10 pages. S3) Journal papers: High-quality manuscripts that have recently, within the last year, been submitted or accepted for journal publication. For this special case, the submission should have the same title that the accepted work, the abstract AND the complete reference of the work. - Proceedings of the conference will be provided. Selected papers of type S1 and S2 will be published in a Springer book and international journals (ISI journals). - Predefined styles are available on the website http://meta2018.sciencesconf.org/ - Proposals for invited sessions, workshops and tutorials: Deadline 15th March 2018. contact meta2018(a)sciencesconf.org Important dates _______________ - Submission deadline: April 13, 2018 - Notification of acceptance: May 15, 2018

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Post doctoral position in Lund, machine learning in medicine
by Mauno Vihinen 04 Jan '18

04 Jan '18

We are seeking for compentent candidates to a position of post doctoral fellow at Lund University. The position is for two years with an immediate opening. Requirements and details are at available at https://lu.mynetworkglobal.com/en/what:job/jobID:181799/type:job/where:4/ap… Applications submitted only by the electronic system at university will be considered. This position is for a person to continue development of our highly accurate variation prediction methods including PON-P2, PON-MMR2, PON-mt-tRNA, PON-Sol and others. For further information, contact: -- Mauno Vihinen Professor of Medical Structural Biology Department of Experimental Medical Science Lund University BMC B13 SE-22184 Lund Sweden http://structure.bmc.lu.se tel +46 72 526 0022 ORCID iD 0000-0002-9614-7976

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Bioinformatics position at Wageningen UR
by Warris, Sven 03 Jan '18

03 Jan '18

Dear all, Our group Applied Bioinformatics from Wageningen UR is looking for a new colleague: Bioinformatics Research Assistant https://www.wur.nl/en/Jobs/Vacancies/Show/Bioinformatics-Research-Assistant… We are looking for: The bioinformatics assistant will join a small team that supports a variety of larger collaborative projects ranging from RNA-seq analysis to hybrid de novo genome assemblies. Additional points of focus are genome reconstruction, annotation, comparative genomics, genetic variation analysis, phylogenomics and genome bioinformatics tool development. Of specific interest are TKI projects that focus on genetic diversity analysis, genome mapping, as well as development of a digital genebank. We ask: The position requires a researcher with expertise in applied bioinformatics, preferably holding a Master degree (at least a Bachelor degree in Bioinformatics (HBO) is required). We aim for an enthusiastic collaborator, who is strong in communication with wet-lab biologists and industrial collaborators and has a project-oriented attitude directed towards solutions. More information: For more information about this position, please contact dr. ir. Sander Peters, senior scientist Applied Bioinformatics cluster of Bioscience, Wageningen Plant Research, +31-317-481123 , sander.peters(a)wur.nl, or dr. Jens Allmer, Cluster leader Applied Bioinformatics, Wageningen Plant Research, +31-317-484 226, jens.allmer(a)wur.nl. Kind regards, Sven

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Invitation for Applied Bioinformatics in Life Science Conference in Leuven 8 - 9 March 2018
by Alexander Botzki 03 Jan '18

03 Jan '18

Dear colleagues on the BBC list, First of all a Happy New Year 2018! I would like to invite you to submit an abstract and join us at the up-coming Applied Bioinformatics Conference in Leuven, 8 - 9 March 2018. More information and registration at: https://vibconferences.be/event/applied-bioinformatics-in-life-sciences-2nd… See you in Leuven! Best regards, Alexander 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/> [MAIL SIGNATURE - ABLS2] [signatureFooter (002)]

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COSMIC: 14 positions available
by A.H.C. van Kampen 28 Dec '17

28 Dec '17

COSMIC offers 14 research positions (www.cosmic-h2020.eu<http://www.cosmic-h2020.eu>) Applications are invited for 14 ESRs (Early Stage Researchers) funded by the Marie-Skłodowska-Curie Innovative Training Network COSMIC (COmbatting Disorders of Adaptive Immunity with Systems MedICine) within the European Horizon 2020 Programme. COSMIC is an international consortium of high profile universities, research institutions and companies. We are looking for 13 PhD positions and 1 industrial researcher with profiles in experimental immunology and computational modelling. COSMIC aims to deliver the next generation of leading, entrepreneurial, and creative systems medicine professionals having expertise, skills, and experience to successfully combat complex human disorders. In COSMIC we will focus on the role of the germinal center in B-cell lymphoma and rheumatoid arthritis, diseases that originate from abnormal functioning of immune cells. For more information please visit www.cosmic-h2020.eu. | Prof. dr. Antoine H.C. van Kampen | (1) Bioinformatics Laboratory | Clinical Epidemiology, Biostatistics and Bioinformatics (KEBB) | Academic Medical Center (AMC) | Visiting address: Meibergdreef 9, J1B-208 (J-building, floor 1B) | Postal address: PO Box 22700, 1100 DE Amsterdam, the Netherlands | www.bioinformaticslaboratory.nl<http://www.bioinformaticslaboratory.nl/> | (2) Biosystems Data Analysis | Swammerdam Institute for Life Sciences (SILS) | University of Amsterdam | Visiting address: Science Park 904, C2-206 | 1098 XH Amsterdam, The Netherlands | www.bdagroup.nl<http://www.bdagroup.nl/> |phone: ++31-20-5667096 (AMC) |Mobile: 06-41768067 | a.h.vankampen(a)amc.uva.nl<mailto:a.h.vankampen@amc.uva.nl> | Skype:antoine.van.kampen | ________________________________ AMC Disclaimer : https://www.amc.nl/disclaimer ________________________________

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Save the Date - Belgian-Dutch Transcriptomics Data Analysis Summer School August 2018
by Alexander Botzki 22 Dec '17

22 Dec '17

Dear all, Save the date! Together with our partners @DTL_nl<https://twitter.com/DTL_nl> @ELIXIRNL<https://twitter.com/ELIXIRNL> @LUMC_Leiden<https://twitter.com/LUMC_Leiden> @ELIXIRnodeBE<https://twitter.com/ELIXIRnodeBE> we organise the first Belgian-Dutch #Transcriptomics<https://twitter.com/hashtag/Transcriptomics?src=hash> Data Analysis Summer School 2018 from 26th to 31st of August in the quaint city of Leuven. More information and registration for future alerts at http://bit.ly/2B9d6GM <https://t.co/BpLsYdVvlY> Enjoy the holiday season! 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/> [MAIL SIGNATURE - ABLS2] [signatureFooter (002)]

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BioSB course: Optimisation techniques in Bioinformatics and Systems Biology - 12-16 February - Wageningen
by Femke Francissen 20 Dec '17

20 Dec '17

BioSB course: Optimisation techniques in Bioinformatics and Systems Biology Course coordinators: Jaap Kaandorp (UvA), Jaap Molenaar (WU), Hans Stigter (WU), Cajo ter Braak (WU) Date: 12-16 February 2018 Location: Wageningen Website link <http://biosb.nl/education/course-portfolio-2/optimisation-techniques-in-bio…>Registration link <http://biosb.nl/education/course-portfolio-2/optimisation-techniques-in-bio…> Course description Many problems in bioinformatics and systems biology require at a certain moment application of some optimisation technique. When facing optimisation problems, many researchers suffice with applying a simple algorithm in Excel, coming to the conclusion that it does not work properly or runs into convergence problems. It is not necessary to stick to that stage, since optimisation is a rapidly expanding field of research, that generates more and more efficient, successful, and easy-to-use algorithms. This course is intended to provide you with the main ideas underlying optimisation, and to get you acquainted with the optimisation techniques that are nowadays available and widely used. In addition, a great variety of examples of optimisation problems in life sciences will be presented and discussed. Course programme The course has the following structure: Day 1: Math refresher and univariate optimisation (Jaap Molenaar+ Hans Stigter) Dag 2: Local multivariate optimisation (Jaap Molenaar + Hans Stigter) Dag 3: Global stochastic optimisation (simulated annealing, evolutionary algorithms) (Jaap Kaandorp) Dag 4: Parameter estimation, systems control and optimisation (Hans Stigter + Jaap Molenaar) Dag 5: MCMC techniques (Cajo ter Braak) The first day is devoted to study simple problems that allow the use of algorithms that are intuitively clear. On day 2, we extend to problems that are bit more complicated. On day 3, we introduce techniques that are based on stochastic searching, while day 4 is spent on the frequently met problem of finding values for the parameters in a model, given a dataset. This challenging problem requires a bit more sophisticated optimisation tools. You will learn about uncertainty and identifiability of the parameters. In addition, you will get some experience with using appropriate parameter estimation tools. On the last day, the state-of-the-art will be presented, since then the popular and powerful Markov Chain Monte Carlo (MCMC) technique will be dealt with. This method is based on a Bayesian approach. So, you will learn about prior distribution, posterior distribution, likelihood, and how in MCMC likelihood and prior distribution are combined to arrive at a posterior distribution. Target audience We assume that the participants have some basic knowledge of modelling in the life sciences. However, it is not necessary to be an expert in mathematics, since the course starts with a session to refresh the mathematical background needed for optimisation. BioSB research school This course is part of the Education Programme of BioSB <http://biosb.nl/education/course-portfolio-2/>, the Netherlands Bioinformatics and Systems Biology Research School, which offers training and education for in bioinformatics and systems biology. More information about BioSB can be found at www.biosb.nl <http://www.biosb.nl/>. Femke Francissen Community manager BioSB Research School

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