- BBClist - maillist.psb.ugent.be

Postdoc and PhD position in evolutionary systems biology
by Katrijn Vannerum 24 Feb '15

24 Feb '15

From: Steven Maere <steven.maere(a)psb.vib-ugent.be<mailto:steven.maere@psb.vib-ugent.be>> Date: 23 Feb 2015 15:19:38 CET Subject: Postdoc and PhD position in evolutionary systems biology To: Steven Maere <stmae(a)psb.vib-ugent.be<mailto:stmae@psb.vib-ugent.be>> Dear colleagues, I'm currently looking for a postdoc to study the evolution of transcriptional systems after gene duplication using mechanistic genotype-phenotype mapping models. Because of budget restrictions, this person should not have obtained his/her PhD in Belgium (giving him/her a different status under Belgian tax law). I would be grateful if you could forward the following information to potential candidates. Many thanks, Steven

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Job opportunity : Structural bioinformatician - Product developer
by Marianne Rooman 23 Feb '15

23 Feb '15

Job opportunity : Structural bioinformatician - Product developer Context: The possibility of introducing targeted mutations in proteins to rationally modify their stability, thermal resistance, solubility or affinity for other partners is an important goal in protein science, which has applications in a wide series of biotechnological and biopharmaceutical processes. We developed a suite of software tools that predict the effect of point mutations on the thermodynamic and thermal stabilities on the basis of the experimental or modeled tertiary structure of the wild type protein. These tools are extremely helpful in limiting the number of mutations to be tested experimentally, as shown in a number of test cases. In order to provide access to this suite of software, we have set up a SaaS platform called dezyme and plan to create a company to provide services. In this framework, we are looking for a Bioinformatician. Job description: The main task will be the development of software (in C) and application to protein optimization, and involve teamwork with a business developer. More specifically this job will include: - Extension and optimization of existing software for the design of more stable proteins ; - Evaluation of the advantages compared to existing in silico methods ; - Application of software tools to optimize systems of interest for customers ; - Positioning of the software offering in industrial processes and in complement to experimental methods like directed mutagenesis. Profile: - Master in Bioinformatics, Informatics or Bioengineer - Autonomous and voluntary personality - Professional experience preferred but not required - Good knowledge of English Employment status: Freelance, Full time; 6 months at the University Libre de Bruxelles and afterwards in a startup Contact: Send your application with CV and motivation letter to Marianne Rooman (mrooman(a)ulb.ac.be) --------------------------------------------------------------- Marianne Rooman 3BIO-BioInfo - BioModeling, BioInformatics & BioProcesses Université Libre de Bruxelles 50 Roosevelt Ave, CP 165/61, 1050 Brussels, Belgium Phone: +32 2 650 2067 Email: mrooman(a)ulb.ac.be ----------------------------------------------------------------

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FW: APC Post-Doc (Bioinformatician) position in Southern Irelnd
by Claesson, Marcus 20 Feb '15

20 Feb '15

See http://www.teagasc.ie/opportunities/postdoctoral/ or, more specifically 1) Experienced Post-Doctoral Researcher - Bioinformatician (Ref: EPD/APCB1/0215)<http://www.teagasc.ie/opportunities/postdoctoral/Information_for_Candidates…> or 2) Teagasc Post-Doctoral Research Fellow in Bioinformatics Level 1 (PD1)/Level 2 (PD2)<http://www.teagasc.ie/opportunities/postdoctoral/Information_for_Candidates…> Teagasc, Food Research Centre, Moorepark, Fermoy, Co Cork Closing Date: no later than 12 midnight on Thursday 5 March 2015 Dr Paul Cotter Principal Research Officer, Teagasc Food Research Centre Moorepark, Cork Ireland Principal Investigator, Alimentary Pharmabiotic Centre Adjunct Lecturer, Cork Institute of Technology Tel. +353 (0)25 42694 http://orcid.org/0000-0002-5465-9068 Attention: This e-mail is privileged and confidential. If you are not the intended recipient please delete the message and notify the sender. Any views or opinions presented are solely those of the author. This email was scanned by Teagasc and has been certified virus free with the pattern file currently in use. This however cannot guarantee that it does not contain malicious content. Tabhair aire: Tá an r-phost seo faoi phribhléid agus faoi rún. Mura tusa an duine a bhí beartaithe leis an teachtaireacht seo a fháil, scrios é le do thoil agus cuir an seoltóir ar an eolas. Is leis an údar amháin aon dearcaí nó tuairimí a léirítear. Scanadh an r-phost seo le Teagasc agus deimhníodh go raibh sé saor ó víoras leis an bpatrúnchomhad atá in úsáid faoi láthair. Ní féidir a ráthú leis seo áfach nach bhfuil ábhar mailíseach ann.

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[Gtpb] Bioinformatics Training Course IB15F Announcement/Reminder
by Pedro Fernandes 20 Feb '15

20 Feb '15

Dear all, The Applications for the Introductory Bioinformatics course, first instance in the 2015 Programme, are now OPEN. IMPORTANT DATES for this Course Deadline for applications: March 20th 2015 Latest notification of acceptance: March 21st 2015 Course date: April 13th - April 17th 2015 Details are available here: http://gtpb.igc.gulbenkian.pt/bicourses/IB15F/ 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. Important NOTE: This is one of our most popular courses. It usually gets full very quickly. Applications are approved and accepted in order of arrival and we only have 20 seats. Best wishes Pedro Fernandes GTPB Coordinator -- 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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FW: PhD or Postdoc in Bioinformatics
by a.schlicker＠nki.nl 13 Feb '15

13 Feb '15

-------- Original Message -------- Subject: PhD or Postdoc in Bioinformatics Date: Wed, 11 Feb 2015 19:46:34 +0100 From: Mario Albrecht <info(a)mario-albrecht.de> Open PhD and Postdoc positions in Bioinformatics Institute for Knowledge Discovery, Graz University of Technology, Graz, Austria Deadline: 28 February 2015 Contact: Prof. Dr. Mario Albrecht, Institute for Knowledge Discovery, Graz University of Technology, Graz, Austria, info(a)mario-albrecht.at Find further information on the open PhD and Postdoc bioinformatics positions at http://www.medbioinf.at and below! Note: Please send your application to info(a)mario-albrecht.at as well! Please forward this mail to your colleagues, thank you! Open full-time bioinformatics PhD student position for molecular network research until 28 February 2015, for details see http://mibla.tugraz.at/14_15/Stk_8/8.html#112 and as follows: Molecular networks and proteins are involved in many biological processes. Therefore, we aim at the development and application of computational network methods for the analysis and prediction of molecular interactions and their structural and functional changes due to sequence mutations. The mutations might occur in disease genes or bacterial and viral genomes. Based on the analysis results, we also want to develop innovative bioinformatics approaches for modeling pathways and their changes as well as for the design and prioritization of follow-up experiments. Open full-time bioinformatics postdoc position for integrative omics research until 28 February 2015, for details see http://bioinf.tugraz.at/images/Postdoc.pdf and as follows: Cancer is the leading cause of death and involves altered lipid metabolism. The rate-limiting enzyme in triacylglyceride degradation, the adipose triglyceride lipase (ATGL), might not participate only in lipid mobilization and degradation, but also in signaling pathways by generating lipid signaling molecules. Therefore, we aim at the large-scale elucidation of the functional role of ATGL in cancer progression using different omics strategies combined with computational approaches. Novel bioinformatics methods are developed for analyzing the data of molecular proteomics and metabolomics networks related to lipolysis in cancer.

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N2N seminar Thursday, February 19 at 11 am: ': 'Learning Bayesian Networks with Biomedical Applications' By Prof. de Campos
by Katrijn Vannerum 12 Feb '15

12 Feb '15

Dear All, Prof. Cassio P. de Campos will give a seminar on Thursday, February 19 at 11 am: 'Learning Bayesian Networks with Biomedical Applications'. (See abstract below) Please contact me if you would like to have a meeting with Prof. Cassio P. de Campos in the afternoon. The lunch meeting (12-14h) is open to PhD students registered at the Doctoral Schools. With kind regards, Katrijn Vannerum PhD Project manager N2N (From Nucleotides to Networks) Multidisciplinary Research Partnership Bioinformatics and Systems Biology Ghent University http://www.nucleotides2networks.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 [cid:image003.png@01D046AB.FE0F4570] [cid:image004.png@01D046AB.FE0F4570] "Learning Bayesian Networks with Biomedical Applications" Professor Cassio de Campos Queens's University Belfast, School of Electronics, Electrical Engineering and Computer Science, Belfast, Ireland February 19, 2015 (11:00) Lunch meeting for Doctoral Schools students 12:00-14:00 Jozef Schell seminar room, Technologiepark 927 - 9052 Zwijnaarde http://www.nucleotides2networks.be/node/232 http://www.nucleotides2networks.be/events Abstract This talk presents an overview of Bayesian networks and methods for learning them. It discusses on recent methods and theoretical results to speed up computations and to improve accuracy. Applications arising in real-data biomedical problems are described, where it is argued that Bayesian networks can provide meaningful and interpretable results. In particular, we discuss on unsupervised clustering of copy number data, as well as data imputation with application in survival analysis of diffuse large B cell and marginal zone lymphoma patients.

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Course 'Life Sciences and biomedical technology' with session on 'Introduction into bio-informatics and computational biology' at Ghent University
by Katrijn Vannerum 10 Feb '15

10 Feb '15

Click here<http://www.ivpv.ugent.be/opleidingen/aanbod/life2015/index.htm> if you are not able to read the content of this e-mail [cid:part2.08030104.06080605@ugent.be] [cid:image001.jpg@01D0454A.CB66C1F0] More information <http://www.ivpv.ugent.be/opleidingen/aanbod/life2015/index.htm> Post-academic course Life Sciences and biomedical technology "Life sciences" is a broad field encompassing different disciplines and expertise, involving biologists, geneticists, biomedical scientists, medical doctors as well as bio- and biomedical engineers and computer scientists. The aim of this course is to provide to the student, in an accessible and comprehensive way, the essentials of life sciences. * Session 1: Architecture and structure of cells 25 March 2015 * Session 2: Energetic and metabolic aspects of cells 1 April 2015 * Session 3: Hereditary information - on DNA and genes 22 April 2015 * Session 4: From cell to tissues - techniques for analysis 29 April 2015 * Session 5: Gene technology and molecular diagnostics 6 May 2015 * Session 6: Oncology 13 May 2015 * Session 7: Medical imaging 20 May 2015 * Session 8: Introduction into bio-informatics and computational biology 27 May 2015 * Session 9: Immunology 3 June 2015 2015 * Session 10: Microbiology and the microbiome 17 June 2015 © 2015 Instituut voor Permanente Vorming (IVPV) - UGent Let us know if You don't want to receive these e-mails<mailto:els.vanlierde@ugent.be?subject=stopEmaillife> anymore. An Balcaen Coördinator Instituut voor Permanente Vorming - Universiteit Gent Technologiepark 904, 9052 Zwijnaarde 09 264 55 92 an.balcaen(a)ugent.be<mailto:an.balcaen@ugent.be> www.ivpv.ugent.be<http://www.ivpv.ugent.be>

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Registration open: NBIC/BioSB Course Pattern Recognition (4th edition), 23-27 March 2015, Amsterdam
by Celia.vanGelder＠radboudumc.nl 10 Feb '15

10 Feb '15

NBIC/BioSB Course Pattern Recognition (4th edition) Date: 23-27 March, 2015 Location: Amsterdam Course Coordinator: Perry Moerland (AMC) Website: http://biosb.nl/education/course-portfolio/pattern-recognition/ Registration: http://biosb.nl/education/enrollment-pattern-recognition-course-4th-edition/ On March 23-27, 2015, NIBC/BioSB organises the fourth edition of the PhD Course Pattern Recognition in Amsterdam. The course aims at PhD students with a background in bioinformatics, computer science or a related field. The course introduces basic techniques from the fields of pattern recognition and machine learning to solve bioinformatics problems. After having followed this course, a student should have an overview of basic pattern recognition techniques and be able to recognize what method is most applicable to classification problems (s)he encounters in bioinformatics applications. The course is aimed at PhD students with a background in bioinformatics, computer science or a related field; a working knowledge of basic statistics and linear algebra is assumed. Preparation material on statistics and linear algebra will be distributed before the course, to be studied by students missing the required background. This course is part of the Education Programme of BioSB, 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>. Best regards Celia van Gelder Dr. Celia W.G. van Gelder Education Manager NBIC/BioSB Coordinator Education CMBI Programme Manager Learning DTL/ELIXIR-NL tel. +31-(0)24-3666120 e-mail: Celia.vanGelder(a)radboudumc.nl<mailto:C.vanGelder@umcn.nl> websites: www.nbic.nl<http://www.nbic.nl/>, www.biosb.nl, www.cmbi.ru.nl<http://www.cmbi.ru.nl/>, www.dtls.nl Postal address: CMBI 260 Radboud University Nijmegen-Medical Centre PO Box 9101 6500 HB Nijmegen The Netherlands 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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Announcement mini-symposium 19 February at VU University Amsterdam: Data Crunching for Medicinal Chemistry and Life Sciences
by Barbara.vanKampen＠radboudumc.nl 10 Feb '15

10 Feb '15

Dear all, You are cordially invited to join us for a mini-symposium on Thursday 19th February from 11:00 hours at VU University Amsterdam. For catering, your registration is required but participation is free. Please register here before 17 February: http://www.formdesk.com/vuamsterdam/data_crunch_mini_symp The detailed agenda is given below. Best regards, Medicinal Chemistry VU University Amsterdam --- Data Crunching for Medicinal Chemistry and Life Sciences Mini-symposium on Thursday 19th February in lecture theater WN-F123, De Boelelaan 1085, 1081HV Amsterdam, The Netherlands 11:00 Chair: Iwan de Esch (Division Medicinal Chemistry, VU University Amsterdam) 11:05 Translating biological and chemical data into structure-based protein-ligand interaction prediction Chris de Graaf (Division Medicinal Chemistry, VU University Amsterdam) 11:30 Competitive inhibitors of receptor tyrosine kinases: Rational design, synthesis and in vivo evaluation Didier Rognan (CNRS/Universite de Strasbourg, FR) 12:00 High End StaR-Based GPCR Ligand Design Andrea Bortolato (Heptares Therapeutics, UK) 12:30 Lunch & Networking 13:15 Data-driven medicinal chemistry in the era of big data Scott Lusher (Netherlands eScience Center) 13:45 Explaining Disease Using Big Data: How Valid Is Your Pathway? Jaap Heringa (Centre for Integrative Bioinformatics, VU University Amsterdam) 14:15 Closing remarks --- At 15.45 Albert Kooistra (Medicinal Chemistry, VU University Amsterdam) will defend his PhD thesis entitled "In silico Medicinal Chemistry. Investigating GPCRs: key regulators of signal transduction and cell function", in the Aula of VU University Amsterdam. [cid:06f41657-a295-4e4b-be0a-c53a0cd26ab8@umcn.nl] 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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[Gtpb] Courses Apr-Sep 2015 announced
by Pedro Fernandes 09 Feb '15

09 Feb '15

Dear GTPB audience, Please have a look at the course titles for the April to September 2015 period http://gtpb.igc.gulbenkian.pt Individual course announcements will follow, when they open for applications. Best wishes P. 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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