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"Course in Multi-omic Integrative Analysis of Gene 23-27 Jan2017"
by Ana Conesa 28 Nov '16

28 Nov '16

Pre registration deadline Nov 30 2016. Register NOW! Course in Multi-omic Integrative Analysis of Gene Expression Centro de Investigación Príncipe Felipe, Valencia (Spain) January 23 – 27, 2017 (40 hours) View this email in your browser (http://us10.campaign-archive2.com/?u=9ad5383e9296c539126c417c9&id=4ded7e0b3…) ** ------------------------------------------------------------ The Genomics of Gene Expression lab presents this course that aims to teach the students how to perform an integrative analysis of different omic data types in order to model the regulation of gene expression. To this end, we will first study in depth the pre-processing and statistical analysis of the different omic data types with a special focus on Next Generation Sequencing technologies such as RNA-seq, ChIP-seq, DNase-seq, and Methyl-seq, but also metabolomics or proteomics. Next, we will study several integration examples to cover different integration strategies. All these lectures will be complemented with hands-on sessions. R programming language will be mostly used. Finally, we will also have a longer practical session to recapitulate all the learned lessons by solving a real integration problem. For this last session, the students can analyze either their own data or the data provided by the organizers. ** Target audience? Students and researchers with some experience in bioinformatics analysis and R programming language that wish to learn more about the integration of different omic data types. ------------------------------------------------------------ ** Price: 500 €. The price includes meals and coffees, as well as the gala dinner. ------------------------------------------------------------ The course is restricted to a maximum of 25 participants. The official language of the course will be English. ** Pre-registration ------------------------------------------------------------ Deadline: November 30, 2016 If you wish to pre-register to this course, you must send the following documentation to Sonia Tarazona (starazona(a)cipf.es (mailto:starazona@cipf.es) ) before the 30th of November, 2016: * CV * Enrollment form, which can downloaded from here here (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) . Requisites: Basic notions of R programming. If students are not familiar with R language, they should complete any of the following (free) courses or materials before coming to the course: * http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id… * http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id… with http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id… * http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i… → Manuals → An Introduction to R The students must bring their own computers. The organizers will provide information about the software or R libraries to be installed before the course, as well as the files or data needed for the course. Further information about the draft program of the course: http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i…. ============================================================ ** (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) ** (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) ** (http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i…) Copyright © 2016 CIPF, All rights reserved. Our mailing address is: eflores(a)cipf.es Want to change how you receive these emails? You can ** update your preferences (http://cipf.us10.list-manage.com/profile?u=9ad5383e9296c539126c417c9&id=73b…) or ** unsubscribe from this list (http://cipf.us10.list-manage1.com/unsubscribe?u=9ad5383e9296c539126c417c9&i…) This email was sent to bbclist(a)psb.ugent.be (mailto:bbclist@psb.ugent.be) why did I get this? (http://cipf.us10.list-manage.com/about?u=9ad5383e9296c539126c417c9&id=73b6d…) unsubscribe from this list (http://cipf.us10.list-manage1.com/unsubscribe?u=9ad5383e9296c539126c417c9&i…) update subscription preferences (http://cipf.us10.list-manage.com/profile?u=9ad5383e9296c539126c417c9&id=73b…) Centro de Investigación Príncipe Felipe . Eduardo Primo Yúfera 3 . 46012 . Valencia, Valencia 46012 . Spain Email Marketing Powered by MailChimp http://www.mailchimp.com/monkey-rewards/?utm_source=freemium_newsletter&utm…

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[Gtpb] Fwd: Introductory Bioinformatics training course - IB16S - Reminder
by Pedro L. Fernandes 27 Nov '16

27 Nov '16

*************** REMINDER ******************** The Gulbenkian Training Programme in Bioinformatics Applications for the bioinformatics training course IB16S Introductory Bioinformatics (Second course in 2016) - our entry level course with a soft introduction to NGS data analysis with David P. Judge, Pedro Fernandes and Daniel Sobral IMPORTANT DATES for this Course Deadline for applications: November 30th 2016 Course date: December 12th - December 16th 2016 Candidates with adequate profile will be accepted in the next 72 hours after the application until we reach 20 participants. Overview This is an entry level course aimed that those with a reasonable biological background but no significant experience with bioinformatics. The course is broadly based around a series of exercises in which a combination of simple analytical tools and reference to publicly available databases is applied to the investigation of a single human gene. The training manual for the course is comprised of detailed instructions for the tasks undertaken. Included are, questions (with answers) and discussion of and the interpretation of the results achieved. Participants are asked to imagine an interest in the disease aniridia. Course exercises then provide extremely detailed instruction leading participants to discover the gene primarily associated with this disease and all that is interesting about that gene and its protein products. This course will also provide a soft introduction to Next Generation Sequencing (NGS) data analysis. This part of the course aims at providing basic skills that are needed when one needs to process NGS data, such as evaluating data quality, trimming sequences, changing data formats, visualising data, etc. Then, participants will learn how to address a simple transcriptomics problem, stepwise, using open source bioinformatics tools. Objectives The operation of the various programs used in the exercises will be explained, but only to the extent that allows a user to select parameters intelligently and to interpret results. The course will provide participants with an awareness of a wide range of bioinformatics tools and sufficient experience to use those tools in basic investigations with a relatively high degree of user independence. In the training course design, this is intentionally built-in, to allow us to show a wide range of analytical techniques while providing enough experience to break the ice in all of them. Target Audience This course is intended for those wishing to investigate how they might begin to exploit the ever expanding abundance of computing and data resources for researchers seeking help in using them. Best, Pedro Fernandes -- Pedro Fernandes GTPB Coordinator Instituto Gulbenkian de Ciência Apartado 14 2781-901 OEIRAS PORTUGAL Tel +351 21 4407912 http://gtpb.igc.gulbenkian.pt _______________________________________________ GTPB mailing list GTPB(a)igc.gulbenkian.pt https://lists.igc.gulbenkian.pt/mailman/listinfo/gtpb

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Course in Multi-omic Integrative Analysis of Gene Expression, January 23-27 2017. Centro de Investigación Príncipe Felipe, Valencia, Spain
by Ana Conesa 25 Nov '16

25 Nov '16

Pre registration deadline Nov 30 2016. Register NOW! Course in Multi-omic Integrative Analysis of Gene Expression Centro de Investigación Príncipe Felipe, Valencia (Spain) January 23 – 27, 2017 (40 hours) View this email in your browser (http://us10.campaign-archive2.com/?u=9ad5383e9296c539126c417c9&id=4ca8ba9d9…) ** ------------------------------------------------------------ The Genomics of Gene Expression lab presents this course that aims to teach the students how to perform an integrative analysis of different omic data types in order to model the regulation of gene expression. To this end, we will first study in depth the pre-processing and statistical analysis of the different omic data types with a special focus on Next Generation Sequencing technologies such as RNA-seq, ChIP-seq, DNase-seq, and Methyl-seq, but also metabolomics or proteomics. Next, we will study several integration examples to cover different integration strategies. All these lectures will be complemented with hands-on sessions. R programming language will be mostly used. Finally, we will also have a longer practical session to recapitulate all the learned lessons by solving a real integration problem. For this last session, the students can analyze either their own data or the data provided by the organizers. ** Target audience? Students and researchers with some experience in bioinformatics analysis and R programming language that wish to learn more about the integration of different omic data types. ------------------------------------------------------------ ** Price: 500 €. The price includes meals and coffees, as well as the gala dinner. ------------------------------------------------------------ The course is restricted to a maximum of 25 participants. The official language of the course will be English. ** Pre-registration ------------------------------------------------------------ Deadline: November 30, 2016 If you wish to pre-register to this course, you must send the following documentation to Sonia Tarazona (starazona(a)cipf.es (mailto:starazona@cipf.es) ) before the 30th of November, 2016: * CV * Enrollment form, which can downloaded from here here (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) . Requisites: Basic notions of R programming. If students are not familiar with R language, they should complete any of the following (free) courses or materials before coming to the course: * http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id… * http://cipf.us10.list-manage2.com/track/click?u=9ad5383e9296c539126c417c9&i… with http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i… * http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i… → Manuals → An Introduction to R The students must bring their own computers. The organizers will provide information about the software or R libraries to be installed before the course, as well as the files or data needed for the course. Further information about the draft program of the course: http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…. ============================================================ ** (http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i…) ** (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) ** (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) Copyright © 2016 CIPF, All rights reserved. Our mailing address is: eflores(a)cipf.es Want to change how you receive these emails? You can ** update your preferences (http://cipf.us10.list-manage.com/profile?u=9ad5383e9296c539126c417c9&id=73b…) or ** unsubscribe from this list (http://cipf.us10.list-manage.com/unsubscribe?u=9ad5383e9296c539126c417c9&id…) This email was sent to bbclist(a)psb.ugent.be (mailto:bbclist@psb.ugent.be) why did I get this? (http://cipf.us10.list-manage.com/about?u=9ad5383e9296c539126c417c9&id=73b6d…) unsubscribe from this list (http://cipf.us10.list-manage.com/unsubscribe?u=9ad5383e9296c539126c417c9&id…) update subscription preferences (http://cipf.us10.list-manage.com/profile?u=9ad5383e9296c539126c417c9&id=73b…) Centro de Investigación Príncipe Felipe . Eduardo Primo Yúfera 3 . 46012 . Valencia, Valencia 46012 . Spain Email Marketing Powered by MailChimp http://www.mailchimp.com/monkey-rewards/?utm_source=freemium_newsletter&utm…

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Pre-doctoral researcher vacancy
by Ana Conesa 24 Nov '16

24 Nov '16

** Open positions ------------------------------------------------------------ ** Pre-doctoral researcher at CIPF ------------------------------------------------------------ View this email in your browser (http://us10.campaign-archive1.com/?u=9ad5383e9296c539126c417c9&id=1732a532e…) ** The Prometeo 2016 project “The Next Systems Biology: development of statistical methods for the biology of multiomic systems” ------------------------------------------------------------ It is a project of excellence funded by the Valencian Government in Spain. This is a multidisciplinary project between the Genomics of Gene Expression group (http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i…) (Dr. Ana Conesa Cegarra) and the Gene Expression and RNA metabolism group (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) (Dr. Susana Rodríguez-Navarro) from the Centro de Investigación Príncipe (CIPF), and the Multivariate Statistical Engineering Group (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) (Dr. Alberto Ferrer-Riquelme) from the Technical University of Valencia (UPV). The goal of this project is to generate statistical methods for the multiomics analysis. For this, histone ChIP-seq, RNA-seq, GRO-seq and PAR-CLIP data will be generated in a yeast model. Within this project a three-year pre-doctoral contract is offered to develop a thesis in multivariate statistical models for the integration of omic data. The PhD thesis will be co-supervised by Dr. Ana Conesa (CIPF) and Dr. Alberto Ferrer (UPV). The candidate will join the Genomics of Gene Expression group at the CIPF and will also be linked to the Multivariate Statistical Engineering Group at the UPV. The candidate must be enrolled in the PhD program in Statistics and Optimization of the UPV. ** What we require ------------------------------------------------------------ * Degree in statistics, mathematics, bioinformatics, biotechnology, engineering, or related degrees including statistical training * Average grade of the academic record equal to or greater than 7.5 points * Master’s degree * High level of spoken and written English ** Other merits ------------------------------------------------------------ * Experience in programming languages (R, MATLAB, Python, Perl, C / C ++) and Linux systems. * Knowledge of the molecular aspects of genome organization. * Excellent communication skills, assertiveness and the ability to work in multidisciplinary teams. Flexibility and planning. ** What we offer ------------------------------------------------------------ * Three-year contract * Professional category: Research Assistant * Salary Level: (Salary level as stipulated in the Convenio de Sanidad Privada de la Provincia de Valencia) * Funding Source/Project: PROMETEO2016/B/093 * Starting date: 09/01/2017 * Working day: Full Time * The deadline for receipt of resumes will be 13/12/2016 ** How to apply ------------------------------------------------------------ Interested candidates should send their CV, cover letter and references only by email to the following address: selection(a)cipf.es (mailto:selection@cipf.es) . Please indicate the offer reference number in the subject field. If you have any questions about this offer, please contact us: eflores(a)cipf.es (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) . ============================================================ ** (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) ** (http://cipf.us10.list-manage.com/track/click?u=9ad5383e9296c539126c417c9&id…) ** (http://cipf.us10.list-manage1.com/track/click?u=9ad5383e9296c539126c417c9&i…) Copyright © CIPF, All rights reserved. Our mailing address is: eflores(a)cipf.es Want to change how you receive these emails? You can ** update your preferences (http://cipf.us10.list-manage.com/profile?u=9ad5383e9296c539126c417c9&id=73b…) or ** unsubscribe from this list (http://cipf.us10.list-manage.com/unsubscribe?u=9ad5383e9296c539126c417c9&id…) This email was sent to bbclist(a)psb.ugent.be (mailto:bbclist@psb.ugent.be) why did I get this? (http://cipf.us10.list-manage.com/about?u=9ad5383e9296c539126c417c9&id=73b6d…) unsubscribe from this list (http://cipf.us10.list-manage.com/unsubscribe?u=9ad5383e9296c539126c417c9&id…) update subscription preferences (http://cipf.us10.list-manage.com/profile?u=9ad5383e9296c539126c417c9&id=73b…) Centro de Investigación Príncipe Felipe . Eduardo Primo Yúfera 3 . 46012 . Valencia, Valencia 46012 . Spain Email Marketing Powered by MailChimp http://www.mailchimp.com/monkey-rewards/?utm_source=freemium_newsletter&utm…

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Course on Programming for Evolutionary Biology
by Jan Aerts 23 Nov '16

23 Nov '16

Course on Programming for Evolutionary Biology When: March 4th - March 20th 2017 Location: Leipzig, Germany Application deadline: December 31st 2016 Detailed information about the course content and how to apply: http://evop.bioinf.uni-leipzig.de/ In this intensive 17 days course, students will learn how to survive in a Linux environment, get hands-on experience in two widely used programming languages (Python and R), and statistical data analysis. The classes will be given by experts in the field and consist of lectures and exercises with the computer. The aim of the course is to provide the students with the necessary background and skills to perform computational analyses with a focus on solving research questions related to genomics and evolution. The philosophy of the course will be “learning by doing”, which means that the computational skills will be taught using examples and real data from evolutionary biology for the exercises. During the course, students will also propose projects of their own interest and perform them as final projects in small groups under the supervision of a teaching assistant. This summer school is open for students from all countries and targeted toward PhD students and postdocs of evolutionary biology or related research fields with no or little programming experience who want to become proficient in computational evolutionary biology in a couple of weeks. The course takes place at the University of Leipzig. -- Prof Jan Aerts ESAT/STADIUS, Visual Data Analysis Lab KU Leuven, Belgium +16321053 http://www.esat.kuleuven.be/stadius/ http://vda-lab.be

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Vacancy "Scientist Bioinformatics" at Galapagos - Mechelen (BE) - MEC-217
by Mate Ongenaert 21 Nov '16

21 Nov '16

Galapagos is a clinical-stage biotechnology company specialized in the discovery and development of small molecule medicines with novel modes of action. Our pipeline comprises Phase 2, Phase 1, pre-clinical and discovery studies in cystic fibrosis, inflammation, fibrosis, osteoarthritis and other indications. We have discovered and developed filgotinib: in collaboration with Gilead we aim to bring this JAK1-selective inhibitor for inflammatory indications to patients all over the world. Galapagos is focused on the development and commercialization of novel medicines that will improve people's lives. The Galapagos group, including fee-for-service subsidiary Fidelta, has approximately 435 employees, operating from its Mechelen, Belgium headquarters and facilities in The Netherlands, France, and Croatia. More information at www.glpg.com<http://www.glpg.com>. For our site in Mechelen, we are looking for a Scientist Bioinformatics (MEC-217) > Also see: http://www.glpg.com/docs/view/5831de2c52d44-en Do you have the qualifications for this job opening, and are you up to the challenge of joining our entrepreneurial team? If so, please send your application (preferably by e-mail) to: Human Resources jobs_be(a)glpg.com<mailto:jobs_be@glpg.com> Galapagos NV - Human Resources Generaal De Wittelaan L11 A3 B-2800 Mechelen, Belgium Function description As a member of the bioinformatics team you will participate in bioinformatics efforts supporting the drug discovery projects at Galapagos. By carrying out functional analyses, data integration, and implementing and executing data analysis methodologies, you work with the multidisciplinary disease biology and drug discovery teams in acquiring scientific insights to direct the research strategy. You will play a key role in implementing bioinformatics tools and methods supporting a wide range of activities, from research projects to proof-of-concept studies. In collaboration with the Information Systems (IS) team, these tools will be incorporated into Galapagos' informatics infrastructure. This position offers an exciting opportunity to develop and deploy bioinformatics-driven solutions to the scientific community at Galapagos. Required skills and experience: * Degree (MSc with at least 3 years of relevant work experience or PhD) in a biological or chemical discipline with a demonstrated track record in bioinformatics, preferably in a pharma/biotech setting * roadly applicable general bioinformatics skills (pathway analysis, data and text mining, querying databases and repositories in the public domain) * Knowledge of expression data analysis (micro-arrays and/or sequencing-based) and experience in developing analysis strategies and workflows in transcriptomics * Working knowledge of Linux and programming expertise (e.g., C#, Java, Perl or Python) * Strong problem-solving ability, and the aptitude and zeal to acquire new skills necessary for the job * Rigorous and well organized; good verbal and written English communication skills * Team player able to work and communicate effectively in a multidisciplinary environment with people with different professional backgrounds (biology, chemistry, molecular modelling, IS, IT) Desirable skills: * Good knowledge of R (and the BioConductor libraries) and experience with reporting in R (sweave/knitr) and interactive web-interfaces (R/shiny) * Knowledge of disease-related pathways and systems biology approaches in relation to drug target discovery * Good understanding of statistics and experimental design * Understanding of data structures and data-interchange formats (e.g. JSON) and experience with document databases (such as MongoDB or Cassandra) and/or relational databases (MySQL/Oracle) [cid:image001.jpg@01D16D66.BD487830]<http://www.glpg.com/> Maté Ongenaert, PhD Senior Scientist Bioinformatics T: +32 15 342 927 Galapagos NV Generaal De Wittelaan L11 A3 2800 Mechelen * Belgium -- This e-mail and its attachment(s) (if any) may contain confidential and/or proprietary information and is intended for its addressee(s) only. Any unauthorized use of the information contained herein (including, but not limited to, alteration, reproduction, communication, distribution or any other form of dissemination) is strictly prohibited. If you are not the intended addressee, please notify the originator promptly and delete this e-mail and its attachment(s) (if any) subsequently. Neither Galapagos nor any of its affiliates shall be liable for direct, special, indirect or consequential damages arising from alteration of the contents of this message (by a third party) or as a result of a virus being passed on.

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Vacancy bioinformatician / software engineer VUmc Amsterdam The Netherlands
by Sie, Daud 21 Nov '16

21 Nov '16

Dear all, The Clinical Genetics department at the VUmc Amsterdam is looking for a bioinformatician / software engineer: https://www.werkenbijvumc.nl/vacatures/bioinformaticus-software-engineer/ The following job description is in Dutch. If you would like to know more please contact Daphne van Beek (e: d.vanbeek(a)vumc.nl or p: +31204444435) Job description (Dutch): ==== Werkomgeving: Het laboratorium genoomdiagnostiek is verantwoordelijk voor de diagnostiek van patiëntmateriaal bij (mogelijke) genetische/erfelijke afwijkingen. Innovatie is voor ons heel belangrijk en we doen veel aan technologische ontwikkeling, vaak in (inter)nationale samenwerkingen. Er wordt naast traditionele methoden veel gebruik gemaakt van Next Generation Sequencing dat 'big data' genereert. Voor alle processen op het lab is het belangrijk dat de diagnostiek geborgd wordt door een goede soft- en hardware infrastructuur, versiebeheer en onderhoud. Werkzaamheden: Als Bioinformaticus/Software Engineer zijn je voornaamste taken en verantwoordelijkheden: . Ontwikkelen, valideren en implementeren van nieuwe bioinformatische tools in de diagnostiek; . Ondersteunen van programmering robots op het lab; . Faciliteren van diagnostiek productie (o.a. runnen van pipelines, troubleshooten); . Internationaal beschikbaar maken van verschillende grote datasets (data ontsluiten); . Optimaliseren van de diagnostische workflow (o.a. door te automatiseren); . Uitvoeren van periodieke checks en het genereren van statistieken; . Versiebeheer van zowel soft- als hardware. Jouw profiel: . Afgeronde WO opleiding (bio)informatica of een afgeronde HBO opleiding (bio)informatica met bij voorkeur relevante werkervaring; . Ervaring met het ontwikkelen/runnen/onderhouden van een (automatiserings) pipeline; . Kennis van en ervaring met Python en bash in een Linux omgeving; . Ervaring met het werken met HPC is een pré; . Ervaring in de bioinformatica/genetica is niet nodig, interesse hierin is echter wenselijk; . Goede communicatievaardigheden. Daarnaast ben je analytisch sterk, inventief in het vinden van passende oplossingen, stressbestendig en neem je initiatief. Interesse? Wil je meer informatie over de functie dan kun je contact opnemen met mw. D. van Beek, bio-informaticus via 0204443092 of met R.van Latum via 0204444435. Je kunt uiterlijk tot en met 29 november 2016 solliciteren. ==== Kind regards, Daoud Sie, MSc Coordinator Genomics Research Facility VU University Medical Center Amsterdam - department of Pathology E: d.sie(a)vumc.nl P: +31204442428 Present: Mon/Tue/Wed/Fri De Boelelaan CCA-1.08, 1081 HV Amsterdam Mailing adress: Postbus 7057, 1007 MB Amsterdam www.vumc.com www.vumc.com/directions --------------------------------------------------- Disclaimer This e-mail is confidential and may contain information that is not intended for you. If you are not the addressee or if this message was sent to you by mistake, you are requested to inform the sender and delete the message. VU University Medical Center accepts no liability for damage of any kind resulting from the risks inherent in the electronic transmission of messages. ---------------------------------------------------

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Amsterdam Data Science Deep Dive into Health & Life Sciences - 25 November
by Sanne Abeln 19 Nov '16

19 Nov '16

Dear All, On *Friday 25 November (09:45-12:00) Amsterdam Data Science* will host a '*Deep Dive into Health & Life Sciences' *at the O|2 Building (close to the VU). Please register in advance here: https://www.meetup.com/Amsterdam-Data-Science/events/235121556/ See below for the detailed programme. Many thanks, Eva **** *ADS Deep Dive into Health & Life Sciences* *Friday, November 25, 2016* *09:45 AM to 12:00 PM* *Auditorium, O|2 Building, **De Boelelaan 1108, 1081 HZ, Amsterdam* 09:45 Coffee *10:00 Welcome* *10:05 Integration of Phenotypic Drug Efficacy and Molecular Chemogenomics Data for drug synergy prediction * Dr Albert Kooistra and George Kanev Medicinal Chemistry/AIMMS, VU University Amsterdam (FEW-FAR) in collaboration with Department of Neurosurgery VUMC *10:30 Algorithm based optimization of drug combinations - towards a personalized approach* Prof Arjan Griffioen Department of Medical Oncology, VU University Medical Center *10:55 Molecular PET imaging in personalized targeted therapy* Prof Guus van Dongen VUmc Imaging Center Amsterdam *11:20 Molecular determinants of drug response* Prof Lodewyk Wessels Computational Cancer Biology, The Netherlands Cancer Institute 11:45 Coffee & Snack Moderators: Bart Westerman (VUMC) and Chris de Graaf (VU) ** Kind regards, Eva Kenny Amsterdam Data Science - Project Manager Find out more: http://amsterdamdatascience.nl Follow us: https://twitter.com/ams_ds Email: e.r.kenny(a)uva.nl T: +31 (0)20 525 8107 <020%20525%208107> | Room C3.258A | IvI, UvA T: +31 (0)20 598 2988 <020%20598%202988> | Room T3.06b | CS, VU

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[Gtpb] Introductory Bioinformatics training course - IB16S - Reminder
by Pedro L. Fernandes 17 Nov '16

17 Nov '16

*************** REMINDER ******************** The Gulbenkian Training Programme in Bioinformatics Applications for the bioinformatics training course IB16S Introductory Bioinformatics (Second course in 2016) - our entry level course with a soft introduction to NGS data analysis with David P. Judge, Pedro Fernandes and Daniel Sobral IMPORTANT DATES for this Course Deadline for applications: November 30th 2016 Course date: December 12th - December 16th 2016 Candidates with adequate profile will be accepted in the next 72 hours after the application until we reach 20 participants. Overview This is an entry level course aimed that those with a reasonable biological background but no significant experience with bioinformatics. The course is broadly based around a series of exercises in which a combination of simple analytical tools and reference to publicly available databases is applied to the investigation of a single human gene. The training manual for the course is comprised of detailed instructions for the tasks undertaken. Included are, questions (with answers) and discussion of and the interpretation of the results achieved. Participants are asked to imagine an interest in the disease aniridia. Course exercises then provide extremely detailed instruction leading participants to discover the gene primarily associated with this disease and all that is interesting about that gene and its protein products. This course will also provide a soft introduction to Next Generation Sequencing (NGS) data analysis. This part of the course aims at providing basic skills that are needed when one needs to process NGS data, such as evaluating data quality, trimming sequences, changing data formats, visualising data, etc. Then, participants will learn how to address a simple transcriptomics problem, stepwise, using open source bioinformatics tools. Objectives The operation of the various programs used in the exercises will be explained, but only to the extent that allows a user to select parameters intelligently and to interpret results. The course will provide participants with an awareness of a wide range of bioinformatics tools and sufficient experience to use those tools in basic investigations with a relatively high degree of user independence. In the training course design, this is intentionally built-in, to allow us to show a wide range of analytical techniques while providing enough experience to break the ice in all of them. Target Audience This course is intended for those wishing to investigate how they might begin to exploit the ever expanding abundance of computing and data resources for researchers seeking help in using them. Best, Pedro Fernandes -- Pedro Fernandes Instituto Gulbenkian de Ciência Apartado 14 2781-901 OEIRAS PORTUGAL Tel +351 21 4407912 http://gtpb.igc.gulbenkian.pt _______________________________________________ GTPB mailing list GTPB(a)igc.gulbenkian.pt https://lists.igc.gulbenkian.pt/mailman/listinfo/gtpb

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Vacancies: Java and Front-end web developers @ UMCG
by Morris Swertz 17 Nov '16

17 Nov '16

Dear all I am happy to announce we have two new positions in our MOLGENIS software team to create open source software to analyse the terabytes of new NGS and biobank data for 'personalized’ genome diagnostics and research, enjoy use of state-of-the-art techniques and frameworks in coordination with colleagues from the data management and analysis teams, and write a lot of great code. *Senior Java developer with a passion for health research & applications* We seek an experienced Java developer to work on the data backbone of a "google drive” for large-scale research data, analysis backbone for data processing, annotation and interpretation, and data integration backbone based on ontologies. On top of that you will also work on "apps" to for research data publication, for diagnostic interpretation of DNA data, to make European biobank data findable and reusable, and to drive high-performance computing pipelines. see http://ow.ly/XQyt306egxL *Skilled Frontend Web developer for biobanking and genome interpretation* We also seek a skilled front-end developer to design and implement attractive user interfaces, co-develop elegant web services, and help in testing and operations with an eye for quality. You work especially at the frontend of a "google drive” for large-scale research data, analysis frontends for data processing, annotation and interpretation, data integration frontends based on ontologies and 'apps' to visualise research results, aid DNA diagnostic interpretation and make European biobanks findable and reusable. See http://ow.ly/i9md306g3D3 *Work environment* Both positions are at the Genomics Coordination Center (GCC) of the University Medical Centre Groningen, Department of Genetics. Along with 25 IT colleagues we work on smart open-source software to accelerate research and improve health care applications via web applications, high-performance computing analysis pipelines and large-scale e-infrastructure (cluster, storage, cloud). Furthermore, you will work with users of diverse backgrounds: geneticists, epidemiologists, statisticians, IT experts, data modelers and doctors, and you can participate in national and European projects such as BBMRI, ELIXIR, DTL, RD-connect and CORBEL. Please apply using the following links: Senior Java Developer http://ow.ly/XQyt306egxL Frontend Web Developer http://ow.ly/i9md306g3D3 Best wishes Morris -- Dr. Morris A. Swertz Coordinator BBMRI-NL common services for IT Coordinator DTL sector health Coordinator NFU biobank catalogue working group Head Section Systems Genetics & Genomics Coordination Center Associate Professor - Big data in biomedicine Dept. of Genetics, CB50 University Medical Center Groningen P.O. Box 30001 9700 RB GRONINGEN The Netherlands Phone +31 50 3617100 Fax + 31 50 3617230 Email m.a.swertz(a)rug.nl

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