February 2020 - BBClist - maillist.psb.ugent.be

PhD position in Integrating of multiple -omics datasets
by Claesen Jürgen 04 Jun '24

04 Jun '24

Dear all, SCK CEN and UHasselt are looking for candidates for a PhD project with the title: "Integromics - Towards integration of big biomolecular data to enable systems biology" Description The last decades, development of high-throughput technologies such as next-generation sequencing, microarrays and mass spectrometry has led to a paradigm shift in biology and life sciences. Where previously one biomolecule (for example, a gene, or a protein) was studied as a single entity, these experimental techniques allow to study a set of biomolecules (for example, the genome or the proteome) in one go and in a limited amount of time. While, at first, experiments were analyzed independently from each other, combining information of several experimental techniques, and correlating them with environmental and/or clinical parameters, is, nowadays, of great interest. As a consequence, novel statistical and computational methodologies for the analysis of multi-omics datasets have to be developed, allowing a multi-dimensional view on complex biological processes. In this PhD project, we aim at the development of computational methods for the analysis of multi-omics datasets, that are commonly generated by the three biology units of SCK*CEN, which will improve the understanding and valorization of the data, and which will keep the biology units up to date with current developments in biology and bioinformatics. Profile and diploma As a doctorate researcher you will join the dynamic bioinformatics team at SCK CEN and CenStat (UHasselt). A successful candidate should have : * A master degree in biostatistics/applied statistics/bioinformatics/statistical bioinformatics. * You are acquainted with statistical methodologies and had exposure to computer programming in SAS/R/Winbugs/Python. * You can work independently and within a team. * You have excellent communication skills. * You are interested to develop new methodology from both theoretical and applied aspects. * You enjoy working in a multidisciplinary and multicultural environment. * You are willing to closely collaborate with biologists/biostatisticians. * You speak and write English fluently. * You have work experience with at least two different "omics" platforms. For more information contact: Dr. Claesen Jürgen (SCK-CEN), jclaesen(a)sckcen.be<https://academy.sckcen.be/en/Mailform?contactid=b22040b5-cf18-496f-a82a-3bc…> Prof. Shkedy Ziv (Hasselt University), ziv.shkedy(a)uhasselt.be<https://academy.sckcen.be/en/Mailform?contactid=51ae7733-8006-4347-b211-9a4…> Link to the project in SCK-CEN: https://academy.sckcen.be/en/Your_thesis_internship/AllTopics/Integromics--… Kind Regards, Jürgen

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NERC Bursaries for Edinburgh Genomics Courses
by TRAIN edgenomics-training 02 Mar '22

02 Mar '22

Dear All We are pleased to announce we have a number of bursaries available to cover up-to the full fees of any of our upcoming bioinformatics courses. These bursaries are available to UK based students or researchers funded by the NERC or working on research that falls under the remit of the NERC (https://nerc.ukri.org/research/portfolio/remit/) Bursaries are available for any of our courses (see below) but are available for a LIMITED TIME ONLY: They are available for any course booked BEFORE 27th MARCH. So please don't wait to sign up! Our upcoming courses: Linux for Genomics, 13th March - An introduction to working on the command line, running commands and handling data relevant to bioinformatics. https://genomics.ed.ac.uk/services/linux-genomics R for Genomics, 14-15th March - An introduction to the statistical environment R, taking you from the very basics to writing basic functions and creating beautiful figures with ggplot2 https://genomics.ed.ac.uk/services/r-genomics Introduction to Python for Biologists, 18-22 March - This introductory course gives an overview of the language with an emphasis on practical problem-solving, using examples and exercises drawn from various aspects of bioinformatics work. https://genomics.ed.ac.uk/services/introduction-python-biologists-0 Data Manipulation and Visualisation with Python, 08 - 12 April - Python has a many high-quality libraries for working with scientific data. In this workshop we will see how to leverage these libraries to efficiently work with and visualise large volumes of data. https://genomics.ed.ac.uk/services/data-manipulation-and-visualisation-pyth… Introduction to RNA-seq Data Analysis, 9-10th May - This two-day course takes you through a tried-and-tested workflow for analysing RNA-seq data, from read mapping and QC to differential expression and result visualisation. https://genomics.ed.ac.uk/services/introduction-rna-seq-data-analysis If you think you are provably eligible for one of these bursaries, sign up to your desired course through the link provided and we will be in contact regarding fees. Kind Regards Nathan Medd Training and Outreach Manager - Edinburgh Genomics G.06, Ashworth Laboratories, Charlotte Auerbach Road, The King's Buildings, The University of Edinburgh, EH9 3FL, Edinburgh, Scotland Edinburgh Genomics' Privacy Notice can be viewed at: http://genomics.ed.ac.uk/about-us/privacy-notice This email and any attachments are confidential and intended solely for the use of the recipient(s) to whom they are addressed. If you have received it in error, please destroy all copies and inform the sender. The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.

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2 phd positions @BIOBIX, Ghent University
by Tim De Meyer 30 Mar '20

30 Mar '20

Dear colleagues, please find in attach 2 vacancies for bioinformaticians / omics data analists @ the BIOBIX lab of Ghent University, focusing on allele-specific studies in big RNA-seq data (100s of samples), one in the medical (cancer) and one in the applied biological (herbivore adaptation to novel hosts as well as pesticides) fields. Please distribute within your network & to potentially interested students. Best regards, Tim De Meyer Associate Professor BIOBIX Lab. of Bioinformatics and Computational Genomics BIG N2N & CRIG Dept. Data Analysis & Mathematical Modelling Faculty of Bioscience Engineering - Ghent University - Belgium Tim.DeMeyer(a)UGent.be +3292645987 www.biobix.be <http://www.biobix.be/> https://scholar.google.be/citations?user=OrDlWKsAAAAJ

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PhD positions in Bioinformatics and Biophysics
by Sanne Abeln 29 Feb '20

29 Feb '20

Dear All, Please find information below about two PhD position in our group: 1) in Bioinformatics and Neurochemistry and 2) in Biophysics and Molecular Modelling. The PhD positions are part of a large european collaborative project, MIRIADE <https://miriade.eu/>, aiming for novel approaches in biomarker discovery for dementias. More information on the position in Bioinformatics and Neurochemistry can be found here: https://workingat.vu.nl/ad/miriade-esr2-phd-position-in-bioinformatics-and-… *closing date: 31-03-2020* More information on the position in biophysics and molecular modelling can be found here: https://workingat.vu.nl/ad/miriade-esr3-phd-position-in-biophysics-and-mole… *closing date: 31-04-2020* Candidates: - Must not already hold a PhD; - Must be within the first four years (full-time equivalent) of their research career; - Must not have resided or carried out their main activity (work, studies, etc.) within the Netherlands for more than 12 months in the three years immediately prior to their recruitment. Best wishes, Sanne -- Sanne Abeln Associate Professor Bioinformatics - VU University Amsterdam s.abeln(a)vu.nl +31 20 59 87816 www.few.vu.nl/~abeln

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Vacancy bioinformatician Princess Maxima Center for Pediatric Oncology
by Patrick Kemmeren 28 Feb '20

28 Feb '20

Dear all, We currently have an opening for a bioinformatician within my group at the Princess Maxima Center for Pediatric Oncology. Do you want to be part of the biobank bioinformatics team at the forefront of using and developing bioinformatics algorithms within the largest comprehensive childhood cancer center in Europe, please apply at:https://werkenbijprinsesmaximacentrum.nl/vacature/bioinformatician-bsc-or-msc-kemmeren-group-2/ -- Patrick Kemmeren, PhD Principal Investigator T +31 (0)88 972 90 00 | M +31 (0)6 53 11 25 53 * * *Princess Máxima Center for Pediatric Oncology* **Heidelberglaan 25 | 3584 CS Utrecht | T +31 (0)88 972 90 00 |***> Website* <https://research.prinsesmaximacentrum.nl/en/research-groups/kemmeren-group>

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SDM/IBM EARLY CAREER DATA MINING RESEARCHER AWARD
by Alfredo Cuzzocrea 28 Feb '20

28 Feb '20

SDM/IBM EARLY CAREER DATA MINING RESEARCHER AWARD About the Award: The SDM/IBM Early Career Data Mining Researcher Award for Excellence in Data Analytics seeks to recognize one individual (no runner up/ honorable mention) who has made outstanding, influential, and lasting contributions in the field of data analysis and who will be within 10 years of having received their PhD degree as of the calendar year prior to the year of the award. For example, an award winner in 2020 should have received their PhD no earlier than 2009. Nominations: A candidate may be nominated by any member of the community except members of the Award Selection Committee. An individual may nominate at most one candidate for this award. Nominations must be submitted to the Award Selection Committee Co-Chairs by email at cdomenic(a)gmu.edu and nchawla(a)nd.edu with "SDM/IBM Research Award" as the subject. A nomination application (a single PDF file) should contain the following: 1-Name/email of nominator (self-nominations are not permitted). 2-Name/email of candidate being nominated. 3-A statement by the nominator (maximum of 500 words) as to why the nominee is highly deserving of the award. Note that since the award ?is for outstanding contributions, the statement and supporting letters should address what the contributions are and why they are both outstanding and significant. The nomination should also list the names and email addresses of up to 3 persons who will provide letters supporting the nomination. 4-CV of the nominee (the CV must clearly indicate date of degree received) 5-Up to three support letters. The letters should be collected by the nominator and included in the nomination. The letter writers may not be the nominator nor Award Selection Committee members. Important Dates: .Nomination Deadline: March 30, 2020 .Results Notification: April 15, 2020 Award Selection Committee: Nitesh Chawla, University of Notre Dame (Co-Chair) Carlotta Domeniconi, George Mason University (Co-Chair) Arindam Banerjee, University of Minnesota Dimitrios Gunopulos, University of Athens, Greece Zoran Obradovic, Temple University (Steering Committee Representative) Jimeng Sun, University of Illinois Urbana-Champaign Note that members of the selection committee cannot be nominators or provide support letters. Also note that the intent is to select exactly one awardee - re-nominations for subsequent years are permissible as long as the individuals continue to maintain eligibility. The committee at its discretion may elect not to make an award in a particular year.

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ECCB2020 - Calls open: Highlights, Proceedings, Applications and Posters
by Eva Alloza 28 Feb '20

28 Feb '20

Dear Colleagues, On behalf of the ECCB2020 organising committee, we would like to invite you to submit your work to the *ECCB2020 open calls*: * Call for Highlights: https://eccb2020.info/call-for-highlights/ <https://t.co/TtF90jow4c?amp=1> * Call for Proceedings: https://eccb2020.info/call-for-proceedings/ <https://t.co/rXfN2Efe6D?amp=1> * Call for Applications: https://eccb2020.info/call-for-applications/ <https://t.co/iTRNZrb77L?amp=1> * Call for Posters: https://eccb2020.info/call-for-posters/ Best regards, -- Eva Alloza Training and Support Officer Spanish National Bioinformatics Institute (INB) mail: eva.alloza(a)bsc.es phone: +34 934017139 web: http://inb-elixir.es Barcelona Supercomputing Center (BSC-CNS) c/Jordi Girona, 31 - Torre Girona Building 08034 Barcelona (Spain) ------------------------------------------------------------------------ View this email in your browser <http://mail.eventsairmail.com/ls/click?upn=uJGsKvA4CvNznJb2JMu3nKQ5Z-2FU08S…> <http://mail.eventsairmail.com/ls/click?upn=uJGsKvA4CvNznJb2JMu3nGV2ZgR2xugF…> ALL SUBMISSIONS ARE**NOW OPEN! ECCB2020 is the perfect forum to present the latest developments in bioinformatics/computational biology. Don’t miss this opportunity! <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> *Call for Highlights* /Deadline: Thu, 26 March 2020/ Full papers that have been published since March 1st, 2019, or accepted for publication for a highlight presentation. --Submit today <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> ------------------------------------------------------------------------ <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> *Call for Proceedings* /Deadline: Thu, 26 March 2020/ Manuscripts that demonstrate both the development of new computational techniques and their application to Molecular and Systems Biology, with significant outcomes to biomedical, agricultural, and environmental questions. -- Submit today <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> ------------------------------------------------------------------------ <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> *Call for Applications* /Deadline: Thu, 26 March 2020/ Application of computational biology in industry, clinics, governmental organizations, and other fields beyond academia, some of which may well be untraditional or otherwise not often heard at academic conferences. --Submit today <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> ------------------------------------------------------------------------ <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> *Call for Posters* /Deadline: Thu, 04 June 2020/ Research posters in any aspect of Computational Biology to promote lively discussions. -- Submit today <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86Bu8lyRk-2Bb…> www.eccb20.org <http://mail.eventsairmail.com/ls/click?upn=uJGsKvA4CvNznJb2JMu3nGV2ZgR2xugF…> <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86N7WOuYfIwMj…>#ECCB2020 <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86IZ8Vkhn8oIW…> TECHNICAL SECRETARIAT Ph. + 34 93 882 38 78 eccb2020(a)bcocongresos.com <mailto:eccb2020@bcocongresos.com> www.bcocongresos.com <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86IZ8Vkhn8oIW…> View this email in your browser <http://mail.eventsairmail.com/ls/click?upn=uJGsKvA4CvNznJb2JMu3nKQ5Z-2FU08S…> http://bsc.es/disclaimer

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ISMB 2020 CompMS – Save the date & call for proposals
by Wout Bittremieux 27 Feb '20

27 Feb '20

— ISMB 2020 CompMS – Save the date & call for proposals — Dear colleagues, Please join us during the ISMB 2020 conference for the Computational Mass Spectrometry (CompMS)COSI session on July 15, 2020inMontreal, Canada. The ISMB conferenceis the world's largest bioinformatics/computational biology conference. Every year it brings together scientists from computer science, molecular biology, mathematics, statistics, and related fields and provides an intense multidisciplinary forum for disseminating the latest developments in bioinformatics/computational biology. The conference fosters fresh dialogues, collaboration and learning opportunities, and is a gathering which shapes the future of the field. At the heart of the scientific program are ISCB’s Communities of Special Interest (COSIs), enabling community involvement and bolstering ISMB’s reputation as the leading conference in the field. The CompMS COSIpromotes the efficient, high quality analysis of mass spectrometrydata through dissemination and training in existing approaches and discussion of new, innovative approaches. The CompMS initiative aims to exploit synergies between different application domains, in particular proteomicsand metabolomics. A strong scientific and technical program showcases the best international developments in bioinformatics and computational biology, making ISMB 2020 a must attend event. Date: July 15, 2020 (CompMS COSI) / July 12–16, 2020 (ISMB) Venue: Palais des congrès de Montréal, Montreal, Canada Website: https://www.iscb.org/ismb2020 Key dates April 2, 2020: Abstract submission deadline April 30, 2020: Talk/poster acceptance notifications May 14, 2020: Late poster submission deadline May 21, 2020: Late poster acceptance notifications July 12–15, 2020: ISMB conference in Montreal Call for proposals Abstract submission for ISMB 2020 is now open! Submit your abstract to ISMB to present your work at the leading bioinformatics/computational biology conference. Attend the CompMS session to learn about the latest algorithmic advances in mass spectrometry-based proteomics and metabolomics. Please remember to select the CompMS COSI as your session of interest upon submitting your abstract. Call for abstracts: https://www.iscb.org/ismb2020-submit/abstracts We look forward to seeing you in Montreal! The CompMS organizing committee. Wout Bittremieux Oliver Kohlbacher William Stafford Noble Timo Sachsenberg Olga Vitek

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vacancy for PhD student in bioinformatics available
by Ruigrok, Y.M. 26 Feb '20

26 Feb '20

We have a vacancy for a PhD student in bioinformatics available! We are looking for a highly motivated and skilled candidate with an MSc degree in exact sciences (mathematics, physics, computer science, statistics), biomedical technology or technical medicine and affinity with clinical research and data analysis. In this research project it will be your job to analyze a large and complex database of data of 2 million general practitioner patients. You will contribute to the development of technical methods through machine learning to predict the presence of intracranial aneurysms. An intracranial aneurysm is a bulging, weakened area in the wall of an artery in the brain. An aneurysm can rupture causing a brain hemorrhage (a so-called subarachnoid hemorrhage (SAH)), a type of stroke with devastating effects. This research is a collaboration between the Neurology department of the division Brain from the University Medical Center Utrecht (UMCU) and the Public Health & Primary Care Medicine department from the Leiden University Medical Center (LUMC). For more information please also see the vacancy (in Dutch) at: https://www.werkenbijumcutrecht.nl/vacatures/Paginas/oio-machine-learning-i… If you have any questions about this vacancy, please contact me at ij.m.ruigrok(a)umcutrecht.nl<mailto:ij.m.ruigrok@umcutrecht.nl>. With kind regards, Ynte Ruigrok [Universitair Medisch Centrum Utrecht] Neurologist, associate professor | Division Neurosciences, Neurology University Medical Center Utrecht | Room number G03.228 | Internal mail no G03.228 | P.O. Box 85500 | 3508 GA UTRECHT ________________________________ This message may contain confidential information and is intended exclusively for the addressee. If you receive this message unintentionally, please do not use the contents but notify the sender immediately by return e-mail. University Medical Center Utrecht is a legal person by public law and is registered at the Chamber of Commerce for Midden-Nederland under no. 30244197. P Please think of the environment before printing this email. ------------------------------------------------------------------------------ De informatie opgenomen in dit bericht kan vertrouwelijk zijn en is uitsluitend bestemd voor de geadresseerde. Indien u dit bericht onterecht ontvangt, wordt u verzocht de inhoud niet te gebruiken en de afzender direct te informeren door het bericht te retourneren. Het Universitair Medisch Centrum Utrecht is een publiekrechtelijke rechtspersoon in de zin van de W.H.W. (Wet Hoger Onderwijs en Wetenschappelijk Onderzoek) en staat geregistreerd bij de Kamer van Koophandel voor Midden-Nederland onder nr. 30244197. Denk s.v.p aan het milieu voor u deze e-mail afdrukt. ------------------------------------------------------------------------------ This message may contain confidential information and is intended exclusively for the addressee. If you receive this message unintentionally, please do not use the contents but notify the sender immediately by return e-mail. University Medical Center Utrecht is a legal person by public law and is registered at the Chamber of Commerce for Midden-Nederland under no. 30244197. Please consider the environment before printing this e-mail.

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Data Driven Innovation in the Agritech Sector - 24/25 March 2020, Lyon
by Kim DE RUYCK 26 Feb '20

26 Feb '20

[ https://elixir-europe.org/events/sme-2020-lyon | ] Join this event to discuss how phenotyping, bioinformatics and datascience is contributing to the future of agriculture! You will be immersed in a world of data-driven innovation, with a mix of high-level keynote presentations and hands-on sessions to discuss and interact with other companies, academics and ELIXIR partners. [ https://elixir-europe.org/events/sme-2020-lyon | PROGRAM and REGISTRATION ]

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