December 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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Phd & PostDoc position on Spatial Transcriptomics around Alzheimer's Disease
by Mark Fiers 24 Dec '20

24 Dec '20

Dear all. We have a Postdoc and PhD position in Leuven, Belgium on the use of Spatial Transcriptomics in both mouse & human applied to Alzheimer's Disease! Postdoc: https://app.jobsoid.com/App/#/Jobs/32532/Info <https://app.jobsoid.com/App/#/Jobs/32532/Info> PhD: https://app.jobsoid.com/App/#/Jobs/32541/Info <https://app.jobsoid.com/App/#/Jobs/32541/Info> For more information - please let me know - or check our recent Cell paper: https://pubmed.ncbi.nlm.nih.gov/32702314/ <https://pubmed.ncbi.nlm.nih.gov/32702314/> Bart de Strooper Mark Fiers

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BSC: Life Sciences vacancy
by BSC Human Resources 23 Dec '20

23 Dec '20

Dear all, We would like to inform you about a new job opportunitiy offered by Barcelona Supercomputing Center: - Postdoctoral researcher - Sequence-based protein coevolution (R2). Deadline: 16 February, 2021 Link here <https://www.bsc.es/join-us/job-opportunities/42720lscbr2> We would appreciate that you share the information with your contacts. Sincerely, /Human Resources/* Barcelona Supercomputing Center – Centro Nacional de Supercomputación* Tel. +34- 934137745 <mailto:anais.delastre@bsc.es>www.bsc.es <http://www.bsc.es/> http://bsc.es/disclaimer

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Doctoral Research Fellowship in machine learning for computational biology & gene regulation
by Anthony Mathelier 18 Dec '20

18 Dec '20

Dear all, Please spread to anyone who would be interested: We are looking for a PhD fellow with background in machine learning / deep learning models development ideally applied to high-throughput genomics to work with us on approaches to define cis-regulatory signatures useful for breast cancer subtype identification and to develop deep learning models to decipher the gene regulatory networks active in the identified cis-regulatory signatures. More info and application at https://www.jobbnorge.no/en/available-jobs/job/197793/doctoral-research-fel… Best AM -- Anthony Mathelier, PhD Group Leader - Computational Biology & Gene Regulation Group Centre for Molecular Medicine Norway (NCMM) Adjunct Researcher - Dept. of Medical Genetics, Oslo University Hospital http://mathelierlab.com anthony.mathelier(a)ncmm.uio.no (+47) 22840561

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BSC: Life Sciences vacancy
by BSC Human Resources 17 Dec '20

17 Dec '20

Dear all, We would like to inform you about a new job opportunitiy offered by Barcelona Supercomputing Center: - Postdoctoral researcher in high-throughput transcriptomics (R2). Deadline: 28 February, 2021 Link here <https://www.bsc.es/join-us/job-opportunities/35919lstfglr2> We would appreciate that you share the information with your contacts. Sincerely, /Human Resources/* Barcelona Supercomputing Center – Centro Nacional de Supercomputación* Tel. +34- 934137745 <mailto:anais.delastre@bsc.es>www.bsc.es <http://www.bsc.es/> http://bsc.es/disclaimer

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PhD position in computational single-cell cancer biology at VU/NKI Amsterdam
by Evert Bosdriesz 16 Dec '20

16 Dec '20

Dear all, We have a for a PhD student to work on computational methods for exciting new single cell technologies. The project will be co-supervised by Evert Bosdriesz (VU) and Lodewyk Wessels (NKI) https://workingat.vu.nl/ad/phd-position-in-computational-single-cell-cancer… Best, Evert PhD position in computational single-cell cancer biology Are you about to graduate from a quantitative MSc degree? Do you want to use your skills to develop novel computational methods to understand cancer cells at the single cell level? Do you want to work in a diverse team of scientists at the VU and The Netherlands Cancer Institute? Please apply at Vrije Universiteit Amsterdam. Job description: Technologies to measure the activity of many different signaling proteins at single cell resolution are revolutionizing cancer research. They give us new insights in cellular signal transduction, how this is aberrated in cancer, affected by anti-cancer drugs, and reveals the role of cell-to-cell variation. However, computational methods to analyze these data are lagging behind the technological developments. In this project, we will develop and apply computational methods to identify how differences between cells affect how they respond to drug treatment. To this end we will combine “snapshot” quantifications of many proteins simultaneously with live cell imaging data, and use these to build single cell statistical and mechanistic models of drug response. These models will be used to understand how cells respond and become resistant to anti-cancer drugs, which will help in designing more effective drug combinations. Research groups: This project will be jointly supervised by Dr. Evert Bosdriesz (https://www.evertbosdriesz.org) Assistant Professor in the Integrative Bioinformatics group at the Vrije Universiteit Amsterdam and Prof. Lodewyk Wessels, who heads the Computational Cancer Biology group at the Netherlands Cancer Institute (https://ccb.nki.nl) The successful candidate will be employed at the VU and will spend at least two days per week at the NKI. Requirements: We are seeking a highly motivated PhD candidate with: • A degree in a quantitative discipline such as bioinformatics, computer science, physics or a related field • Experience in statistics, machine learning and/or pattern recognition • Proficiency in bioinformatics programming languages (e.g. R, Python) • Good cross-disciplinary collaborative and communication skills • Experience in analysing high-throughput molecular data is a plus • Experience in (cancer) biology and is a plus Interested? Please apply via the link above until January 24th, 2021 and upload the following: • Your CV including at least two references • A cover letter (CL) including a motivation for this PhD position and explaining how you fulfill the requirements for this position • BSc and MSc academic transcripts containing all your grades at university level ---- Assistant Professor Bioinformatics - VU Amsterdam www.evertbosdriesz.org | e.bosdriesz(a)vu.nl

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