- BBClist - maillist.psb.ugent.be

Vacancy: scientist Biostatistics
by Jellema, Renger 27 Jul '15

27 Jul '15

Dear all, We are looking for a new colleague: a scientist Biostatistics. Interested in applying statistics in a business environment? The text and application procedure became available on our site today: http://www.dsm.com/corporate/careers/vacancies/dsmvacancies.html The Challenge Within the Genetics Department of the DBC there is a vacancy for the position of Scientist Biostatistics Located at Delft, The Netherlands The Position * As a Scientist Biostatistics, you will be located at the DSM Biotechnology Center in Delft, supporting business-driven R&D projects with design of experiments, data processing and statistically analysis for end-applications in food, pharma and/or bio-based chemicals and fuels. * Being part of the bioinformatics & modeling group, you will participate in multidisciplinary teams in which you will be the statistical expert across the different disciplines. * Projects may range from medium to high-throughput screenings for enzyme and strain development, applied biochemistry and analytical data, to QA/QC support for manufacturing, depending on your background and interest. * Your challenge will be to develop, implement and apply state-of-the-art statistical tools and workflows. The Ideal * Ph.D. in chemometrics, statistics, metabolic modeling, computational methods, bioinformatics, or a related discipline. Additional training or degree in biochemistry, molecular biology, food or biotechnology is considered to be an advantage. * Preferably 2-5 year experience, preferably in statistical data processing of biological data or fermentation data * Experience in setting up and applying statistical tools for quality control is an advantage. * Expert in R, Matlab, Spotfire, SAS, Minitab, Statgraphics or other statistical software packages * Experience using optimal experimental design techniques is a plus * Strong desire and proven ability to work collaboratively in multi-disciplinary project teams * Multidisciplinary team player, who takes initiative * Personal skills like problem analysis, creativity and being a strong communicator characterize your identity. DSM's wide diversity of disciplines makes it possible to offer employees a great variety of roles throughout their career. For instance, you may start your career in an area related to your education or qualifications, but your future is what you make of it. At DSM we stimulate people to determine their own career path and we encourage international careers. We strive to be an Employer of Choice and ensure that our employees are nurtured and given the opportunity to develop their talents. To learn more about DSM's HR vision and policy, please visit our website at www.dsm.com/career. Level C40/C41 Terms of conditions LOCAL CONTRACT The Procedure and Contact The DSM Recruitment and Selection Process is in line with the general procedure outlined elsewhere on our Career World. Please apply on-line and send your CV & cover letter and include information on your current remuneration. Please submit your application before deadline:17th of August Reference check procedures are part of the DSM Recruitment & Selection Process. You will be contacted when these references checks are required. Kind regards, Renger Renger Jellema | Senior Scientist Statistics | Group Lead BioIT | DSM Biotechnology Center | Alexander Fleminglaan 1 | 2613 AX Delft | Netherlands | T +31 15 279 2886 | renger.jellema(a)dsm.com | DSM Biotechnology Center is part of DSM Food Specialties B.V., Trade Register Number 27235314 [http://static.dsm.com/content/dam/dsm/images/DSM_Email_EN.jpg] ________________________________ DISCLAIMER: This e-mail is for the intended recipient only. If you have received it by mistake please let us know by reply and then delete it from your system; access, disclosure, copying, distribution or reliance on any of it by anyone else is prohibited. If you as intended recipient have received this e-mail incorrectly, please notify the sender (via e-mail) immediately.

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Job listing for Stratified Medical UK
by John Overington 27 Jul '15

27 Jul '15

Hi, Can this be posted to your list. Many thanks, John Overington ====== We are looking for an innovative data scientist to make a significant contribution in our drug discovery process by applying your expertise in bioinformatics data analysis, algorithm and workflow development and use of machine learning approaches applied to biological/chemical data. Working alongside a team of other highly skilled data scientists applying the very latest approaches to data science (e.g. deep learning, SVM, machine learning, CNN’s, Deep Belief Networks, NLP, to name a few), and supported by industry-leading figures and mentors you will be well positioned to innovate and perform world-leading research. Responsibilities * Develop very large-scale bioinformatics components of our proprietary technology platform. * Research deep-learning and other AI-based approaches to target validation and lead discovery and drug optimization. * Maintain cutting edge awareness of the bio/cheminformatics fields. * Play a key role in hands-on contribution to our drug discovery programs. Essential Qualifications and Experience * Programming in e.g. Python, JavaScript, java, web-services, and workflow tools (e.g. Pipeline Pilot/KNIME). * Database experience – SQL, ideally also experience of MapReduce and NoSQL. * Proven track record of applying informatics-based techniques to solve drug discovery problems. * PhD and five-plus years of postdoctoral experience in a drug discovery environment. * Expert knowledge of gene and protein sequence analysis, structural biology, pathway analysis, impact of genetic variation, and protein modelling; combined with experience of a wide range of bioinformatics resources – e.g. Ensembl, UniProt, Pfam, PDB, ModBase, Human Protein Atlas, KEGG. This position will report to the Director of Bioinformatics. If you are interested in this role, please send a cv to john.overington(a)stratifiedmedical.com<mailto:john.overington@stratifiedmedical.com> -- John P. Overington PhD MBCS FRSB FRSC CChem Director of Bioinformatics Stratified Medical 3rd floor, 91-93 Farringdon Road London EC1M 3LN United Kingdom Email: john.overington(a)stratifiedmedical.com<mailto:john.overington@stratifiedmedical.com> Telephone: +44-20-7400-7714 Twitter: @johnpoverington Admin: Laura.Hayes(a)stratifiedmedical.com<mailto:Laura.Hayes@stratifiedmedical.com>

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FW: [Training-coordinators] Structural Bioinformatics course at EMBL-EBI, 12-16th October, 2015.
by Barbara.vanKampen＠radboudumc.nl 27 Jul '15

27 Jul '15

Structural Bioinformatics course, 12-16th October 2015 Venue: EMBL-EBI, Wellcome Genome Campus, Hinxton, Cambridge UK Course organisers: Gerard Kleywegt (EMBL-EBI), Christine Orengo (UCL) and Tom Hancocks (EMBL-EBI) Full programme and registration details can be found at: http://www.ebi.ac.uk/training/course/structural-bioinformatics Course overview This course will explore bioinformatics data resources and tools that are available for the interpretation and exploitation of biomacromolecular structures, focusing on how best to use structural information to gain the most from it in specific research contexts. This will include investigating the impact of genetics variation on structure, predicting protein structure and function and exploring interactions with other macromolecules as well as with low-MW compounds. Course Audience This course is aimed at researchers who want to learn more about the application of structural information in their work and how to use the bioinformatics resources that are available. No previous experience of structural bioinformatics is required. Syllabus During this course you will learn about: * Public repositories of structural data: Protein Data Bank (PDB) and Electron Microscopy Data Bank (EMDB), and tools to search and analyse information in these repositories from PDBe (Protein Data Bank in Europe) * Computational approaches to structure prediction: ModBase, Rosetta, PHYRE, Interactome 3D * Impact of genetic variation on protein structure: Ensembl VEP, DBSeq, SAAPdb * Protein analysis and classification: Pfam, CATH, SCOP, InterPro, PDBeFold, PDBePISA, ProFunc * Tools and resources for drug discovery: ChEMBL This message sent to you as member of the NSBM mailinglist 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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Reminder; Bioinformatics Symposium, Utrecht September 14th
by Breukelen, B. van (Bas) 27 Jul '15

27 Jul '15

The Utrecht Bioinformatics Center (UBC) proudly announces the: Annual UBC Bioinformatics (Mini) Symposium, September 14th 2015 (Location: Utrecht, Zaalverhuur 7 @ Boothstraat 7, Netherlands). Everyone who is interested in bioinformatics and would like to hear a few great talks is welcome to attend. There is no fee at all, we only ask you to register yourself to make sure that there are enough chairs to sit on, coffee at the start and drinks afterwards. You can register by clicking on the link below or via http://ubc.uu.nl : http://www.eventbrite.nl/e/ubc-annual-mini-symposium-registration-149561201… Programme: 13:00 Welcome with coffee and tea 13:15 Introduction • Berend Snel: Welcome and Utrecht Bioinformatics Center progress report 13:30 Wouter de Laat: Gene regulation in the 3D genome 14:00 Alexandre Bonvin: Structure, affinity and specificity riddles in biomolecular interactions 14:30 Coffee and tea break 15:00 Frank Holstege: Understanding regulatory circuitry through large-scale genetic perturbation analyses 15:30 Keynote: Søren Brunak: Creating Disease Trajectories from Big Biomedical Data covering Millions of Patients 16:15 Reception (till 18:00) The UBC symposium is an ideal way to meet and talk to other bioinformaticians in the field and perhaps start some interesting collaborations. Everyone is welcome, See you soon, Berend Snel, Patrick Kemmeren and Bas van Breukelen p.s. Please spread the word: You are welcome to forward this mail to anyone you think might be interested in this symposium. Bas. van Breukelen, PhD Assistant Professor, Biomolecular Mass Spectrometry and Proteomics | http://www.hecklab.com | Utrecht University Coordinator Bioinformatics | Utrecht Bioinformatics Center (UBC) | http://ubc.uu.nl | Utrecht University Hugo R. Kruytbuilding | Room O605 | Padualaan 8 | 3584 CH Utrecht | T +31(0)30253 9761 | M +31(0)6 42222520 | b.vanbreukelen(a)uu.nl<mailto:b.vanbreukelen@uu.nl> [cid:2CDF3FE1-6FA1-40F3-A816-1D933B578100@science.uu.nl]

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Fwd: Structural Bioinformatics course at EMBL-EBI, 12-16th October, 2015.
by Frederik Coppens 23 Jul '15

23 Jul '15

> Structural Bioinformatics course, 12-16th October 2015 > Venue: EMBL-EBI, Wellcome Genome Campus, Hinxton, Cambridge UK > Course organisers: Gerard Kleywegt (EMBL-EBI), Christine Orengo (UCL) and Tom Hancocks (EMBL-EBI) > > Full programme and registration details can be found at: http://www.ebi.ac.uk/training/course/structural-bioinformatics <http://www.ebi.ac.uk/training/course/structural-bioinformatics> > > Course overview > > This course will explore bioinformatics data resources and tools that are available for the interpretation and exploitation of biomacromolecular structures, focusing on how best to use structural information to gain the most from it in specific research contexts. This will include investigating the impact of genetics variation on structure, predicting protein structure and function and exploring interactions with other macromolecules as well as with low-MW compounds. > > Course Audience > > This course is aimed at researchers who want to learn more about the application of structural information in their work and how to use the bioinformatics resources that are available. No previous experience of structural bioinformatics is required. > > Syllabus > > During this course you will learn about: > > Public repositories of structural data: Protein Data Bank (PDB) and Electron Microscopy Data Bank (EMDB), and tools to search and analyse information in these repositories from PDBe (Protein Data Bank in Europe) > Computational approaches to structure prediction: ModBase, Rosetta, PHYRE, Interactome 3D > Impact of genetic variation on protein structure: Ensembl VEP, DBSeq, SAAPdb > Protein analysis and classification: Pfam, CATH, SCOP, InterPro, PDBeFold, PDBePISA, ProFunc > Tools and resources for drug discovery: ChEMBL > > > > --------------------------------------------- > Dr Sarah Morgan > Training Programme Manager > > EMBL-European Bioinformatics Institute > Wellcome Trust Genome Campus > Hinxton > Cambridge > CB10 1SD > UK > ================================================================== Frederik Coppens, Ph.D. Project Leader Applied Bioinformatics & Biostatistics IT manager Tel: 32 (0)9 3313692 Fax:32 (0)9 3313809 VIB DEPARTMENT OF PLANT SYSTEMS BIOLOGY, UGent Technologiepark 927, 9052 Gent, BELGIUM frcop(a)psb.ugent.be http://www.psb.ugent.be/abb ==================================================================

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vacancies for bioinformaticians @CMGG-UGent
by Katleen De Preter 17 Jul '15

17 Jul '15

Dear All, The Speleman Research Team at the Center for Medical Genetics (Ghent) is seeking for 2 bio-informaticians: 1 post-doc and 1 PhD position are available. Please find further information in attachments. Kind regards, Frank and Katleen

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Just two weeks left until ICBO 2015 in Lisbon
by Francisco Couto 15 Jul '15

15 Jul '15

There are still places available to join your fellow ontologists in Lisbon for the International Conference on Biomedical Ontology. Lisbon is a historical and cultural city by the sea, with a mixed panorama of modern and medieval architecture. ICBO will be held at the Faculdade de Ciencias Campo Grande Campus, just a short metro ride from the city centre. Don’t miss out on the great weather, great discussions and great food! The schedule of the full event, including two days of workshops and two days of main conference sessions, is now available online at http://icbo2015.fc.ul.pt/program.html#schedule. Registration is open at http://icbo2015.fc.ul.pt/registration.html.

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PhD in Australia
by Stephane Rombauts 13 Jul '15

13 Jul '15

------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PhD projects@JCU on shrimp aquaculture and evolutionary genomics: https://research.jcu.edu.au/itrh-apb/vacancies We are looking for students with skills in genomics, transcriptomics and evolutionary bioinformatics for the following projects: Project 5 - Functional transcriptomics of viral infection in the black tiger prawn (James Cook University and CSIRO) This project will examine whether the manner in which a black tiger prawn ( Penaeus monodon ) is challenged with Gill-associated virus (GAV) affects what defence response pathways can be activated to protect the prawn against infection/disease. Essential components of the project will be GAV challenge trials in P. monodon and the generation and interrogation of RNAseq data to identify/predict genes and gene pathways activated in response to GAV challenge via the various infection routes examined. Silencing of gene expression using RNA interference (RNAi) will also be employed to further explore the functioning of genes predicted to have pivotal roles in the prawn defence response. The desired candidate will preferably have a background in molecular genetics along with skills in next-generation sequencing approaches and computational analyses. ____________________________________________________________________________________________________________________ Project 6 - Comparative, evolutionary and functional genomics of the black tiger prawn (University of Sydney & James Cook University) This project will be a component of the full genome assembly of an inbred black tiger prawn ( Penaeus monodon ) based on a combination of short-read sequences and standard mate-pair end Illumina together with the use of long-read sequencing data based on PacBio, HiC, Nanopore platforms for improved hybrid assembly (scaffold/chromosome level). After the genome is annotated thoroughly, the project will aim to find syntenic blocks and reconstruct the evolutionary history of Decapods/crustaceans by comparing the P. monodon genome to the genomes of Daphnia , Artemia , Litopenaeus vannamei and potentially of other decapods/crustaceans. The desired candidate will preferably have a background in molecular genetics along with skills in next-generation sequencing approaches and computational analyses. -- Stephane Rombauts Senior staff scientist Tel:+32 (0)9 331 38 21 Department of Plant Systems Biology VIB, Ghent University Technologiepark 927 9052 Ghent, Belgium http://www.psb.ugent.be

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Registration is open for the Utrecht Bioinformatics Center Symposium, Monday sept 14th 2015
by Breukelen, B. van (Bas) 08 Jul '15

08 Jul '15

The UBC proudly announces the: Annual UBC Bioinformatics (Mini) Symposium Everyone who is interested in bioinformatics and would like to hear a few great talks is welcome to attend. There is no fee at all, we only ask you to register yourself to make sure that there are enough chairs to sit on, coffee at the start and drinks afterwards. You can register by clicking on the link below or via http://ubc.uu.nl : http://www.eventbrite.nl/e/ubc-annual-mini-symposium-registration-149561201… Programme: 13:00 Welcome with coffee and tea 13:15 Introduction * Berend Snel: Welcome and Utrecht Bioinformatics Center progress report 13:30 Wouter de Laat: Gene regulation in the 3D genome 14:00 Alexandre Bonvin: Structure, affinity and specificity riddles in biomolecular interactions 14:30 Coffee and tea break 15:00 Frank Holstege: Understanding regulatory circuitry through large-scale genetic perturbation analyses 15:30 Keynote: Søren Brunak: Creating Disease Trajectories from Big Biomedical Data covering Millions of Patients 16:15 Reception (till 18:00) The UBC symposium is an ideal way to meet and talk to other bioinformaticians in the field and perhaps start some interesting collaborations. Everyone is welcome, See you soon, Berend Snel, Patrick Kemmeren and Bas van Breukelen p.s. Please spread the word: You are welcome to forward this mail to anyone you think might be interested in this symposium. Bas. van Breukelen, PhD Assistant Professor, Biomolecular Mass Spectrometry and Proteomics | http://www.hecklab.com | Utrecht University Coordinator Bioinformatics | Utrecht Bioinformatics Center (UBC) | http://ubc.uu.nl | Utrecht University Hugo R. Kruytbuilding | Room O605 | Padualaan 8 | 3584 CH Utrecht | T +31(0)30253 9761 | M +31(0)6 42222520 | b.vanbreukelen(a)uu.nl<mailto:b.vanbreukelen@uu.nl> [cid:2CDF3FE1-6FA1-40F3-A816-1D933B578100@science.uu.nl]

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PhD Position in Plant Bioinformatics (Ghent Belgium)
by Michiel Van Bel 08 Jul '15

08 Jul '15

Dear colleague, The department of Plant Systems Biology (VIB-UGent) is currently looking for an assistant computational scientist. More information available at: http://www.psb.ugent.be/jobs/412-assistant-computational-scientist kind regards -- Michiel Van Bel Postdoctoral fellow Tel:+32 (0)9 331 36 95 Department of Plant Systems Biology VIB, Ghent University Technologiepark 927 9052 Ghent, Belgium http://www.psb.ugent.be

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