November 2019 - BBClist - maillist.psb.ugent.be

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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VITO is hiring an OMICS DATA SCIENTIST!
by Bogaerts Elien 30 Nov '19

30 Nov '19

[cid:image001.jpg@01D5A756.B53D57E0] VITO is an independent Flemish research organisation in the area of cleantech and sustainable development. We are looking for an OMICS DATA SCIENTIST to help accelerate the transition to a sustainable world. Want to know more? Visit our jobsite: https://vito.be/en/jobs/rd-professional-omics-data-scientist! [cid:image003.jpg@01D5A756.B53D57E0] Kind regards, Elien Bogaerts HR business partner VITO NV | Boeretang 200 | 2400 Mol Phone tel:+3214335308 [vito_logo]<http://vito.be/> Vision on technology for a better world [cid:image002.png@01D35939.31B2DD90]<https://www.facebook.com/VITObelgium> [cid:image003.png@01D35939.31B2DD90] <https://twitter.com/VITObelgium> [cid:image004.png@01D35939.31B2DD90] <https://www.linkedin.com/company/vito> [cid:image005.png@01D35939.31B2DD90] <https://vimeo.com/vitovideo> Indien u VITO Mol bezoekt, hou aub er dan rekening mee dat de hoofdingang voortaan enkel bereikbaar is vanuit de richting Dessel-Retie, niet vanuit richting Mol, zie vito.be/route.<http://www.vito.be/route> If you plan to visit VITO at Mol, then please note that the main entrance can only be reached coming from Dessel-Retie and no longer coming from Mol, see vito.be/en/contact/locations.<http://www.vito.be/en/contact/locations> VITO Disclaimer: http://www.vito.be/e-maildisclaimer

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Try again! Sysadmin Vacancy at the University of Edinburgh, SBS
by MEDD Nathan 28 Nov '19

28 Nov '19

Sorry the link bellow does not work: please use this one instead! https://www.vacancies.ed.ac.uk/pls/corehrrecruit/erq_jobspec_version_4.jobs…<https://www.google.com/url?q=https%3A%2F%2Fwww.vacancies.ed.ac.uk%2Fpls%2Fc…> Thanks Nathan Medd On 28/11/2019 09:57, Nathan Medd wrote: Dear all Please share this vacancy for a systems administrator here at the University of Edinburgh's School of Biological Sciences to any relevant parties. https://www.vacancies.ed.ac.uk/pls/corehrrecruit/erq_jobspec_version_4.disp… Thank you! Nathan Medd -- Training and Outreach Manager - Edinburgh Genomics ======================================================== 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. ======================================================== -- Training and Outreach Manager - Edinburgh Genomics ======================================================== 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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Bioinformatics research scientist in Bordeaux, France - Single Cell RNAseq of innate immune cells
by Nikolski Macha 28 Nov '19

28 Nov '19

Dear colleagues, A post-doctoral position (18 months, extendable) is available to work jointly in the ImmunoConcept (UMR 5164) and the Bordeaux Bioinformatics Center in Bordeaux, France, under the supervision of Dr. Maya Saleh and Dr. Macha Nikolski. The research project consists in developing methods and analyzing human samples by single cell RNA sequencing for mapping of the innate immune cells associated with the response to immunotherapies and the functional microbiome linked to the control of cancers. Cover letter, CV and references contacts may be directed to Maya Saleh and Macha Nikolski, msaleh(a)immuconcept.org <mailto:msaleh@immuconcept.org> and macha.nikolski(a)u-bordeaux.fr <mailto:macha.nikolski@u-bordeaux.fr>. Best regards, Macha Nikolski -- Head of Bordeaux Bioinformatics Center Research Director IBGC / CNRS CBiB - Université Bordeaux 146, rue Léo Saignat, 33076 Bordeaux www : http://www.labri.fr/perso/macha/ <http://www.labri.fr/perso/macha/> tel : +33 (0)5 57 57 12 47

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"Making microscopy data FAIR: Why? What? How?" 10 December 2019, Delft
by Celia van Gelder 28 Nov '19

28 Nov '19

On behalf of Marta Teperek: --------------------- "Making microscopy data FAIR: Why? What? How?" by Katy Wolstencroft from the Leiden Institute of Advanced Computer Science and Bernd Rieger from TU Delft. Abstract Why would you want to share microscopy data? There are multiple reasons for this. First, storing and finding large image databases from a heterogeneous group of scientists can be very challenging, especially if they work at multiple locations. Second, to make research more efficient: if microscopy data was more findable and accessible, this could facilitate a broad range of scientists to make ground-breaking discoveries. So what do you need to this happen and how would you do it? The platform Wolstencroft and Rieger have in mind will not only provide coordinated access to cutting-edge imaging technologies but also solutions and training for FAIR data. They like also to discuss the challenges encountered and suggestions for other communities which would like to make their data more FAIR (Findable, Accessible, Interoperable, Re-usable). Date and location: * Tuesday 10 December, 16.00 - 17.30 * Hall 10, Pulse, TU Delft Read more and register: https://www.eventbrite.com/e/making-microscopy-data-findable-accessible-inte roperable-and-re-usable-why-what-how-tickets-77976663299 <https://urldefense.proofpoint.com/v2/url?u=https-3A__www.eventbrite.com_e_m aking-2Dmicroscopy-2Ddata-2Dfindable-2Daccessible-2Dinteroperable-2Dand-2Dre -2Dusable-2Dwhy-2Dwhat-2Dhow-2Dtickets-2D77976663299&d=DwMFAg&c=XYzUhXBD2cD- CornpT4QE19xOJBbRy-TBPLK0X9U2o8&r=hKqBgYpLFT3VvRo617g6QTQcQhJ57CCknXTWyYLImu 4&m=Gc8XUfkmsyU35ut6ErwEWkervuyvtcxEm93S76HQi7E&s=Yn_0o1jwr87mQve3IbvukSmtAI wi4qjlhWTpcvn3zJ4&e=> Best wishes, Marta, on behalf of all the organisers Marta Teperek, PhD TU Delft Library | Research Data Services | Data Stewardship Coordinator M +31 (0) 63 40 81 427 | m.teperek(a)tudelft.nl <mailto:m.teperek@tudelft.nl> | @martateperek <https://urldefense.proofpoint.com/v2/url?u=https-3A__twitter.com_martateper ek&d=DwMFAg&c=XYzUhXBD2cD-CornpT4QE19xOJBbRy-TBPLK0X9U2o8&r=hKqBgYpLFT3VvRo6 17g6QTQcQhJ57CCknXTWyYLImu4&m=Gc8XUfkmsyU35ut6ErwEWkervuyvtcxEm93S76HQi7E&s= 2JVgGCKBIueToxzMsHYbU8hMtp8AitLPhzSfqWOSzJU&e=> My calendar is <http://webmail.tudelft.nl/owa/calendar/M.Teperek@tudelft.nl/Calendar/calend ar.html> available online

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PhD Position Utrecht : Machine learning, genome, transcriptome, neurological disease
by Kenna, K.P. 25 Nov '19

25 Nov '19

Dear all, We are looking to a fill a 4year PhD position exploring new strategies to interpret large scale whole genome sequencing of patients afflicted by amyotrophic lateral sclerosis. Project Title: Machine learning to integrate genome, transcriptome and patient outcome in neurological disease. Brief description below with extended details in the attachment. Please feel free to forward my contact details to any interested parties. Many thanks! Kevin Kenna Description: Work to decode the genetics of amyotrophic lateral sclerosis (ALS), a devastating neurological disease that strikes 1 in 300 people. You will contribute to analyses of one of the largest genetic datasets in the world and combine the state of the art in machine learning, computational genetics and multi-omic profiling of human tissue. Kevin Kenna, PhD | assistant professor | University Medical Center Utrecht | UMC Utrecht Brain Center | Department of Neurology | room Str.5.227 | Universiteitsweg 100, 3584 CG Utrecht, The Netherlands | T +31 (0)88 75 68877 ------------------------------------------------------------------------------ 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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VIB Applied Bioinformatics Conference 2020 - deadline abstract 2-12-2019
by Alexander Botzki 25 Nov '19

25 Nov '19

Dear All, I would like to let you know that the deadline for the abstracts (2/12/2019) for our VIB Applied Bioinformatics Conference 2020 is approaching fast. More information and the submission details could be found here: https://www.vibconferences.be/events/applied-bioinformatics-in-life-science… Thanks a lot for your consideration. Best regards, Alex Alexander Botzki - Head of VIB Bioinformatics Core | Training Coordinator ELIXIR-BE VIB Bioinformatics Core Rijvisschestraat 126, 9052 GENT, Belgium | +32 9 248 16 00 www.bits.vib.be<http://www.bits.vib.be/> | @vibbioinfocore | https://corefacilities.vib.be<https://corefacilities.vib.be/<https://corefacilities.vib.be%3Chttps/corefacilities.vib.be/>> Alexander Botzki - Head of VIB Bioinformatics Core | Training Coordinator ELIXIR-BE VIB Bioinformatics Core Rijvisschestraat 126, 9052 GENT, Belgium | +32 9 248 16 00 www.bits.vib.be<http://www.bits.vib.be/> | @vibbioinfocore | https://corefacilities.vib.be<https://corefacilities.vib.be/> [signatureFooter (002)]

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postdoc: Integrative Network Analysis for Gene Discovery in Wheat
by Michiel Van Bel 22 Nov '19

22 Nov '19

For a joint project of the VIB Center for Plant Systems Biology and BASF Agricultural Solutions Innovation Center Gent, we are looking for a postdoctoral researcher who will develop and implement computational pipelines to build and compare different biological networks for gene function analysis in cereals. This 3-year project, starting on 1 March 2020, is fully funded by BASF and VLAIO (Flanders Innovation & Entrepreneurship). The successful applicant will be part of the Comparative Network Biology lab led by Klaas Vandepoele in VIB, but will also closely work together with BASF data scientists and program leaders. Job description * Collect and integrate public and private crop expression datasets * Develop computational pipelines to build and compare cross-species gene co-expression and regulatory networks to identify key transcription factors (TF) * Perform data analysis of DAP-seq high-thought experiments to identify TF binding sites and build TF regulatory networks * Perform/assistant data analysis on Y2H and build protein-protein interaction networks * Develop pipelines and methodologies to compare and integrate multiple biological networks * Integrative network analysis for gene function prediction and trait-associated gene identification * Closely work with both data scientists, biologists and wet-lab scientists in both VIB and BASF * Reporting of results through publications in peer-reviewed international journals. * Attending and presenting your results at international scientific events. Profile * PhD in Bioinformatics, Computational biology or similar. * Good programming (Python, R) and Linux skills are a must * Familiar with reporting in Jupyter notebook, bitbucket and git system for code sharing and sustainable data analysis * Strong ability and experience in high-throughput biological network and NGS data analysis * Knowledge in plant/crop genetics and molecular biology is a plus * You are enthusiastic about scientific research, computational biology, and want to learn more about advanced biological concepts. * You have good writing and communication skills with both data scientists and biologists * You are proficient in English. How to apply? Submit your application online to Jobsoid ( [ https://vibvzw.jobsoid.com/j/23730/post-doctoral-researcher-integrative-net… | https://vibvzw.jobsoid.com/j/23730/post-doctoral-researcher-integrative-net… ] ) by sending your letter of motivation, a detailed CV and contact info of 2 references (including e-mail addresses and phone numbers). Application deadline: 31/12/2019 or until position has been filled. Michiel Van Bel - Postdoctoral fellow Applied Bioinformatics And Biostatistics VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark-Zwijnaarde 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 36 95 [ http://www.psb.ugent.be/ | www.psb.ugent.be ] Genome editing, cutting-edge technology for a sustainable agriculture

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Phd in Madrid
by Stephane Rombauts 22 Nov '19

22 Nov '19

>From Krzysztof Wabnik group leader at CBGP - Centro de Biotecnología y Genómica de Plantas in Madrid, Spain Do you know somebody who wants to do PhD in programming synthetic eukaryotic microbiomes? Join me in the application for the La Caixa INPhINIT fellowship. Contact me before 20.12.19: [ mailto:k.wabnik@upm.es | k.wabnik(a)upm.es ] @PlantDynamics @CBGP_Madrid 👨‍🔬 🦠 [ https://drive.google.com/file/d/1ME8dW_6_CUSvIWGFkw_vzzf1omLPaILa/view?fbcl… | https://drive.google.com/file/d/1ME8dW_6_CUSvIWGFkw_vzzf1omLPaILa/view?fbcl… ] [ https://obrasociallacaixa.org/en/investigacion-y-becas/becas-de-la-caixa/do… | https://obrasociallacaixa.org/en/investigacion-y-becas/becas-de-la-caixa/do… ] Stephane Rombauts - Senior staff scientist Bioinformatics VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark-Zwijnaarde 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 38 21 [ http://www.psb.ugent.be/ | www.psb.ugent.be ] Genome editing, cutting-edge technology for a sustainable agriculture

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PhD and postdoc position
by steven.maere＠psb.vib-ugent.be 21 Nov '19

21 Nov '19

Dear all, Jeroni Galmes (University of the Balearic Islands) asked me to spread the word that he’s looking for one PhD student and one postdoc to work on Rubisco evolution. Kind regards, Steven Maere _________________________________ Prof. Dr. Ir. Steven Maere Evolutionary Systems Biology lab VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark 71 B-9052 Gent, Belgium tel +32 9 3313805 http://www.psb.ugent.be/esb/ _________________________________ >

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