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Call for abstracts for ESCS 2016
by ISCBSC announcement 20 May '16

20 May '16

Dear colleague, Abstract submission for oral and poster presentations is open for the 4th European Student Council Symposium (ESCS) 2016. ESCS will take place on Saturday 3rd September during ECCB 2016 in The Hague, Netherlands. Please visit http://submit.iscbsc.org/escs to submit your abstract. The ESCS is a biennial interdisciplinary symposium that brings together students and young researchers from computational biology, bioinformatics, systems biology, and related fields. This symposium offers you a great opportunity to present your research to an international audience, get insights into hot topics and newly developed methods and build a network within the computational biology community of Europe. We are pleased to announce our three confirmed keynote speakers Kris Laukens (University of Antwerp, Belgium), Yves Van de Peer (Ghent University, Belgium), and Nuria Lopez-Bigas (Universitat Pompeu Fabra, Spain). The symposium includes ice-breaking, oral presentations, keynote talks, poster presentations and an evening social event that offer you the opportunity to get to know fellow young scientists from all over Europe in a casual setting. Please visit our website http://escs2016.iscbsc.org/ regularily as more information will be announced soon. For registration details, please visit http://www.eccb2016.org/registration/. We welcome students and young researchers from all areas of computational biology to join our community. Please help us spread the word by sharing the event flyer (please find it attached), and using the hashtag #ESCS16 on social media. We look forward to welcome you in The Hague! Annika Jacobsen and Kevin Schwahn, chair and co-chair, ESCS 2016 [image: Inline images 1] <https://www.avast.com/sig-email?utm_medium=email&utm_source=link&utm_campai…> Virus-free. www.avast.com <https://www.avast.com/sig-email?utm_medium=email&utm_source=link&utm_campai…> <#DDB4FAA8-2DD7-40BB-A1B8-4E2AA1F9FDF2>

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PhD vacancy at the Center for Medical Genetics of Ghent University
by Katrijn Vannerum 20 May '16

20 May '16

Dear colleagues, We have an exciting opportunity for an enthusiastic PhD candidate in a joint project entitled “Analysis of circulating tumor DNA from patients with cancer for early detection and selection of patients for precision medicine” at the Center for Medical Genetics of Ghent University in collaboration with the Department of Pathology and the Department of Radiology at Ghent University Hospital. The project aims to develop and experimentally validate novel computational methods to identify copy number variants and rare mutations in liquid biopsy samples from patients with cancer. Such methods will not only provide novel insights into the genetic makeup of several cancers, but will also provide new genomic tools for early detection of cancer, prediction of relapse and will enable the selection of patients for precision medicine. We are looking for an ambitious PhD candidate with an MSc degree in bio-engineering, biotechnology or biochemistry. The candidate should have a particular interest in genomics and bioinformatics research. More information about the position and the application procedure can be found in attachment. With kind regards, Björn Menten — Björn Menten, PhD Center for Medical Genetics Ghent University De Pintelaan 185 9000 Gent Belgium +32 9 332 5284 bjorn.menten(a)ugent.be<mailto:bjorn.menten@ugent.be>

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vacancy bioinformatics senior researcher viroscience
by Bas E. Dutilh 19 May '16

19 May '16

Genomic epidemiologist/ Bio-‐informatician Senior Researcher D Job description At the department of Viroscience we study how the interactions between viruses, human and animal hosts and environment, and changes thereof impact on global human health. Understanding virome diversity and evolution are essential and increasingly important areas of expertise. We look for an experienced, enthusiastic bio-‐informatician to develop an ambitious genomic epidemiological / bioinformatics research agenda aligned with the goals of the department. The initial work will be funded through EU funded projects (H2020 project COMPARE, www.compare-‐europe.eu and VIROGENESIS, http://www.kuleuven.be/english/research/EU/p/horizon2020/sc/sc1/Virogenesis) You will lead the Erasmus MC participation in the COMPARE project, contribute to the research profile of the department by writing grant applications and papers, and by providing training and support of PhD’s and post-‐docs in data analysis. The Department of Viroscience (http://virosciencelab.org/) at Erasmus MC employs more than 130 persons of different disciplines, and runs an extensive experimental research program on the epidemiology, pathogenesis, prevention and treatment of viral infections of global importance for human and animal health. The two research pillars focus on viral infections in the population at risk for severe consequences (immune-‐compromised, elderly, young), and on emerging (zoonotic) viral diseases. As WHO collaborating center and national and European reference center for influenza, emerging viral infections, and measles, our work is internationally focused. Under the same roof is a large diagnostic unit, which services the hospital as well as clinics and general practices. The department is equipped with state-‐of-‐the-‐art BSL2 and 3 laboratories, and clinical and experimental virology labs, in which all the virology, molecular biology, pathology, and immunology techniques necessary for these projects are operational. Erasmus MC has extensive capacity for NGS on multiple platforms combined into a genomic core facility coupled with decentralized platforms for experimental work. Qualifications and skills We are looking for a senior scientific researcher with an excellent track record in genomic epidemiology/bioinformatics, a clear vision of the potential contribution of NGS/bioinformatics to the mission of the department, experience in managing a team of both research and service staff, and experience in operating in an international context. To be appointed you must be able to obtain a certificate of good conduct. Terms of employment The gross monthly salary amounts a maximum of € 5.914,-‐ (scale 13), depending on your level of education and relevant experience and based on a full-‐time working week of 36 hours. The terms of employment are based on the Collective Bargaining Agreement for University Medical Centers (CAO UMC). Information For more information about this position, please contact M.P.G. Koopmans, head of the department, phone number: (+31)(0)10 704 4066 or e-‐mail: m.koopmans(a)erasmusmc.nl. Application Please send your application including Curriculum Vitae and accompanying letter by e-‐mail to: vacatures.tda(a)erasmusmc.nl stating vacancy code 50.19.15.TDA in the subject line. -- Dr. Bas E. Dutilh Metagenomics Group Theoretical Biology and Bioinformatics, Utrecht University Utrecht Bioinformatics Center +31 (0)30 253 4212 - http://tbb.bio.uu.nl/dutilh

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Post-docs opportunities : Luxembourg-Singapore Research Project
by Francisco Azuaje 18 May '16

18 May '16

Dear Colleagues, We are seeking 2 post-doctoral researchers to make significant contributions to the project: “New tools for the prediction of influential nodes and links in multi-level cancer-related networks”, a Luxembourg-Singapore research partnership. Further details and application submissions at: https://www.lih.lu/jobs/detail/2-post-doctoral-researchers-fa0416-12452 Sincerely, Francisco. _________________________________ Francisco Azuaje, PhD Senior Researcher NORLUX Neuro-Oncology Laboratory Department of Oncology Luxembourg Institute of Health 1A-B, rue Thomas Edison, L-1445 Strassen Luxembourg Tel: +352 26970-875 Fax: +352 26970-719 Email: francisco.azuaje(a)lih.lu<mailto:francisco.azuaje@lih.lu> Website: http://www.lih.lu/ [http://files.lih.lu/outlookSignature/lih.jpg] Join us on Facebook and follow our activities on Twitter: https://www.facebook.com/Luxembourg.Institute.of.Health http://twitter.com/LIH_Luxembourg http://www.norlux.lu This message (including any attachments) is intended for the addressee only and may contain confidential and/or privileged information and/or information protected by intellectual property rights. If you have received this message by mistake, please notify the sender by return e-mail and delete this message from your system. You should not use, alter, copy or distribute this message or disclose its contents to anyone. E-mail transmission can not be guaranteed to be secure or error free as information could be intercepted, corrupted, lost, destroyed, arrive late or incomplete, or contain viruses. Luxembourg Institute of Health shall not be responsible nor liable for the proper and complete transmission of the information contained in this communication nor for any delay in its receipt or damage to your system.

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TransMed 2016: Translational Medicine Informatics & Applications Meeting ISMB2016, July 8, 2016, Orlando, USA
by Venkata Pardhasaradhi SATAGOPAM 17 May '16

17 May '16

Dear all We are organising a Special Interest Group (SIG) during ISMB 2016. We will be very happy to see you there. TransMed 2016: Translational Medicine Informatics & Applications Meeting ISMB 2016, (Orlando, USA), on July 8, 2016. Knowledge-based translational medicine is a rapidly growing discipline in biomedical research and aims to expedite the discovery of new diagnostic tools and treatments by using a multi-disciplinary, highly collaborative, "bench-to-bedside" approach. Large amounts of multi-omics, imaging (medical and molecular) and clinical data can now be captured for given patient populations. In addition to the challenges of data curation and harmonisation, new computational methods are required to identify molecular signatures that suggest disease subtype. These signatures may be predictive of outcome or progression, and impact on disease management by suggesting personalised therapeutic strategies for patients. Such approaches will further the development of a new taxonomy of disease. In the TransMed SIG meeting, we will explore the current status of computational biology approaches within the field of translational medicine. Keynote Speakers Confirmed: Prof. Russ Altman, Professor of Bioengineering, Genetics, Medicine and Computer Science; Director, Biomedical Informatics Training Program, School of Medicine, Stanford University Prof. Sean Mooney, Professor of Biomedical Informatics and Medical Education, University of Washington; Chief Research Information Officer (CRIO) of UW Medicine Prof. John Overington, Director of Bioinformatics at Stratified Medical, Visiting Professor at the Institute of Cardiovascular Science, University College London and the Farr Institute Key dates: Abstract submissions deadline: May 27, 2016 Poster and Presentation acceptance notifications: May 31, 2016 Final program available: June 10, 2016 TransMed 2016 SIG: July 8, 2016 TransMed2016 SIG web site: http://transmedit.org/Main_Page <http://transmedit.org/Main_Page> Registration: https://www.iscb.org/ismb2016-registration <https://www.iscb.org/ismb2016-registration> Abstract submission: https://easychair.org/conferences/?conf=transmed2016 <https://easychair.org/conferences/?conf=transmed2016> Contact: transmed-coord(a)googlegroups.com <mailto:transmed-coord@googlegroups.com> Best regards, Venkata on behalf of TransMed 2016 SIG organising team -- Venkata P. Satagopam Bioinformatics Core Luxembourg Centre For Systems Biomedicine (LCSB) University of Luxembourg Campus Belval, House of Biomedicine II 6, avenue du Swing L-4367 Belvaux T +352-466-644-6421 F +352-466-644-6949 venkata.satagopam(a)uni.lu <mailto:venkata.satagopam@uni.lu> http://lcsb.uni.lu <http://lcsb.uni.lu/> ----- This message is confidential and may contain privileged information. It is intended for the named recipient only. If you receive it in error please notify me and permanently delete the original message and any copies. -----

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job opening at VIB - Bioinformatics Tool Engineer
by Alexander Botzki 17 May '16

17 May '16

Dear colleagues, At VIB, we have a new opening of a Bioinformatics Software Engineer - http://www.vib.be/en/jobs/Pages/Bioinformatics-Tool-Developer.aspx Please forward it in case you know someone who might be interested in applying for this opening at VIB. Thanks a lot and best regards, Alex Alexander Botzki Manager BITS | Training Coordinator ELIXIR-BE VIB - BITS, Rijvisschestraat 126, 9052 GENT | +32 9 248 16 00 www.bits.vib.be<http://www.bits.vib.be/> | @bitsatvib<https://twitter.com/bitsatvib> | https://corefacilities.vib.be<https://corefacilities.vib.be/>

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PhD position in Systems Biology
by Sophie de Buyl 13 May '16

13 May '16

Dear Colleagues, I would like to ask you to forward the following announcement to students who might be interested in applying for a PhD position in Systems Biology at VUB in Brussels. Thanks a lot! Sophie de Buyl PhD in Systems Biology — Applied Physics Group (APHY) @ VUB =================================================== We are looking for a highly motivated PhD student with a Master degree in Physics, Mathematics, Bio-Engineering or Biology interested in the development of mathematical and computational models applied to biological systems. Depending on the interest of the applicant, the PhD project could be oriented towards modeling the dynamics of human-associated microbial communities, modeling cellular differentiation or circadian rhythms. More generally, we focus on the dynamics of networks of interactions in biological systems. Knowledge of a programming language is a plus. The Applied Physics research group (http://we.vub.ac.be/aphy/About) is a multidisciplinary group of enthusiastic researchers that use experimental and theoretical methods to address fundamental challenges in biological physics, condensed matter physics, electromagnetism, laser physics and photonics. This combination allows an imaginative, cross-disciplinary and insightful approach to such problems. For example, we focus on the study of metamaterials and nanophotonics, on bio-inspired approaches to machine learning (reservoir computing), on the dynamics of semiconductor lasers, nonequilibrium pattern formation and soliton dynamics, as well as on genetic transcription, cell division & microbial interactions in biological systems. APHY is recognised as a leading and growing research group by the university. For that reason, in 2014 it received a Strategic Research Project “Applied Physics and Systems Biology” (2014-2019). The Vrije Universiteit Brussel (VUB) has been a leading player in the Flemish Higher Education landscape for 40 years. The University numbers 12.000 students and together with its hospital - UZ Brussel – employs more than 6000 people. The Vrije Universiteit Brussel is the largest Dutch speaking employer in the capital. Teaching and research at the VUB are founded on the principle of unfettered inquiry to benefit the progress of mankind. This means rejecting dogmatic positions and guaranteeing the freedom to form opinions without interference; in this way the University aims to ensure the dispersal of the principle of unfettered inquiry throughout society. As an employee of the Vrije Universiteit Brussel your days will be spent in a dynamic, diverse and multilingual environment. Our campus “Etterbeek” is a green oasis on the outskirts of the center of the capital of Flanders, Belgium and Europe. The city center, with all its opportunities, is within your reach by public transport in less than half an hour. To apply, please send your CV including grades, a motivation letter (one page) and one letter of reference (to be sent separately). Your motivation letter should briefly describe your research interests and why you are interested in joining our group. Please send your application material by email to sdebuyl(a)vub.ac.be. The position is open until filled and the expected starting date is September 1, 2016 (or earlier). Also students in their last year expecting to get their Master’s diploma before Sept. 1 may apply. =================================================== ______________ Sophie de Buyl Assistant Professor Applied Physics Group Vrije Universiteit Brussel Theoretical Physics Pleinlaan 2 1050 Brussels Belgium Room: 9F07.b sdebuyl(a)vub.ac.be Tel: +32-2-6292357 Fax: +32-2-6293614

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mark your agenda for the BIG N2N bioinformatics exhibition
by Katrijn Vannerum 13 May '16

13 May '16

Dear colleague, Do you find it difficult to explain your aunt, brother, neighbor,... what you're doing? The free Dutch/English BIG N2N bioinformatics exhibition aims at getting a broad public acquainted with bioinformatics: what is it and what is it used for? When? 14-24/7/2016, so during the Ghent Festival and a few days before, with official opening on 14/7 (more info will follow) Where? Palmarium, Botanical garden UGent, K.L. Ledeganckstraat 35, Gent Spread the word! Welcome, Katrijn Vannerum PhD Project manager BIG N2N (Bioinformatics Institute Ghent From Nucleotides to Networks) Ghent University http://www.bign2n.ugent.be/ twitter: @N2N_UGent Katrijn.Vannerum(a)UGent.be<mailto:Katrijn.Vannerum@UGent.be> Technologiepark 927 9052 Gent, Belgium +32 (0)9 331 36 85 [logo_BIG N2N_signature]

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Vacancy for Postdoctoral Researcher at Kris Gevaert lab – Chemical Proteomics, Identification of the Targets of Lead Compounds - erratum
by Katrijn Vannerum 12 May '16

12 May '16

Dear all, this is the correct link to apply: http://www.vib.be/en/jobs/Pages/Postdoctoral-Researcher-%E2%80%93-Chemical-… Excuses. Katrijn Vannerum From: nucleotides2networks-request(a)lists.ugent.be<mailto:nucleotides2networks-request@lists.ugent.be> [mailto:nucleotides2networks-request@lists.ugent.be] On Behalf Of Katrijn Vannerum Sent: 12 May 2016 11:34 To: nucleotides2networks(a)lists.ugent.be<mailto:nucleotides2networks@lists.ugent.be>; bbclist(a)psb.vib-ugent.be<mailto:bbclist@psb.vib-ugent.be> Subject: [N2N] Vacancy for Postdoctoral Researcher at Kris Gevaert lab – Chemical Proteomics, Identification of the Targets of Lead Compounds Description The proteomics lab headed by Prof. Kris Gevaert is hiring a postdoctoral researcher with proven expertise in contemporary proteome research to work in a multidisciplinary project that brings together several academic partners and a Flanders-based biotechnology company. We will use established (e.g., affinity purification-mass spectrometry, AP-MS) technologies and further implement recent developments (i.e., thermal proteome profiling) to identify the protein targets of a range of lead compounds in the area of human health. The selected candidate will have access to the latest mass spectrometry equipment in the VIB’s Proteomics Expertise Center (https://corefacilities.vib.be/pec) housed in the VIB Medical Biotechnology Center, and will work in close collaboration with molecular biologists. Profile Expertise in the field of mass spectrometry driven proteomics, and especially on protein complex purification and analysis is an important asset. How to apply? Interested candidates are asked to apply online through http://www.vib.be/en/jobs/Pages/Postdoctoral-Researcher-%E2%80%93-Chemic.... Please upload your full CV as well as two reference letters to your online application. Contact information: Kris.Gevaert(a)UGent.be<mailto:Kris.Gevaert@UGent.be> Katrijn Vannerum PhD Project manager BIG N2N (Bioinformatics Institute Ghent From Nucleotides to Networks) Ghent University http://www.bign2n.ugent.be/ twitter: @N2N_UGent Katrijn.Vannerum(a)UGent.be<mailto:Katrijn.Vannerum@UGent.be> Technologiepark 927 9052 Gent, Belgium +32 (0)9 331 36 85 [logo_BIG N2N_signature]

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Vacancy for Postdoctoral Researcher at Kris Gevaert lab – Chemical Proteomics, Identification of the Targets of Lead Compounds
by Katrijn Vannerum 12 May '16

12 May '16

Description The proteomics lab headed by Prof. Kris Gevaert is hiring a postdoctoral researcher with proven expertise in contemporary proteome research to work in a multidisciplinary project that brings together several academic partners and a Flanders-based biotechnology company. We will use established (e.g., affinity purification-mass spectrometry, AP-MS) technologies and further implement recent developments (i.e., thermal proteome profiling) to identify the protein targets of a range of lead compounds in the area of human health. The selected candidate will have access to the latest mass spectrometry equipment in the VIB’s Proteomics Expertise Center (https://corefacilities.vib.be/pec) housed in the VIB Medical Biotechnology Center, and will work in close collaboration with molecular biologists. Profile Expertise in the field of mass spectrometry driven proteomics, and especially on protein complex purification and analysis is an important asset. How to apply? Interested candidates are asked to apply online through http://www.vib.be/en/jobs/Pages/Postdoctoral-Researcher-%E2%80%93-Chemic.... Please upload your full CV as well as two reference letters to your online application. Contact information: Kris.Gevaert(a)UGent.be Katrijn Vannerum PhD Project manager BIG N2N (Bioinformatics Institute Ghent From Nucleotides to Networks) Ghent University http://www.bign2n.ugent.be/ twitter: @N2N_UGent Katrijn.Vannerum(a)UGent.be<mailto:Katrijn.Vannerum@UGent.be> Technologiepark 927 9052 Gent, Belgium +32 (0)9 331 36 85 [logo_BIG N2N_signature]

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