July 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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BSC: Life Sciences vacancies
by BSC Human Resources 29 Jul '20

29 Jul '20

Dear all, We would like to inform you about a new job opportunitiy offered by BSC: - Bioinformatics Data Management Specialist (RE2). Deadline: 30 September, 2020 Link here <https://www.bsc.es/join-us/job-opportunities/22720lsinbre2> 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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BSC: Life Sciences vacancies
by BSC Human Resources 28 Jul '20

28 Jul '20

Dear all, We would like to inform you about a new job opportunitiy offered by BSC: - Junior Research Engineer - Development of epidemiology web apps (RE1). Deadline: 30 September, 2020 Link here <https://www.bsc.es/join-us/job-opportunities/21820lscbre1> - Research Engineer - Development of data science web apps for epidemiology (RE2). Deadline: 30 September, 2020 Link here <https://www.bsc.es/join-us/job-opportunities/21920lscbre2> 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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Vacancy for Scientifc Programmer at Rijk Zwaan
by Michiel Wels 16 Jul '20

16 Jul '20

Dear all, We currently hava a vacancy available (fulltime position, permanent contract) for a Scientific Programmer in the bioinformatics group at Rijk Zwaan. Interested? Please visit the vacancy website at: https://www.rijkzwaancareers.com/index.php/en/vacancy/scientific-programmer Best Regards, Michiel Wels Met vriendelijke groeten / Kind regards, Michiel Wels | Teamleader Bioinformatics | Bioinformatics Direct +31 174 79 42 94 | m.wels(a)rijkzwaan.nl Rijk Zwaan Breeding B.V. Burgemeester Crezéelaan 40 | PO Box 40 | 2678 ZG De Lier | The Netherlands T +31 174 53 23 00 | F +31 174 51 21 66 info(a)rijkzwaan.com | www.rijkzwaan.com Chamber of commerce Haaglanden 24126474 0000 You can find the disclaimer that applies to emails of Rijk Zwaan at: http://www.rijkzwaan.com/edisclaimer The registration number of Rijk Zwaan companies can be found at: http://www.rijkzwaan.com/registrationnumbers

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computational biology postdoc position in Ghent
by steven.maere＠psb.vib-ugent.be 14 Jul '20

14 Jul '20

Dear all, I’m looking for a talented postdoc to work on a challenging project in collaboration with Inari Agriculture in Ghent, see https://jobso.id/cswb . We offer a 3-year position starting and hope to start in September 2020. Please feel free to share with whomever might be interested. 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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Vacancy teacher Bioinformatics Hogeschool Leiden
by Blanckenburg, Bo 14 Jul '20

14 Jul '20

Dear all, As I’ll move on to another position within Leiden Hogeschool, there is an opportunity for an enthusiastic Bioinformatician who’d like to share her or his knowledge with the new generation, while still conducting research: https://www.hsleiden.nl/over-hl/werken-bij/vacatures/vacature-docent-onderz… Please feel free to apply or share this link in your organization. Kind regards, Bo Blanckenburg Ir. Bo Blanckenburg Docent en coordinator Bioinformatica +31 (0) 648133872 Kamer G3.176 Werkzaam op ma, di, do, vr. Faculteit Science & Technology Zernikedreef 11 Postbus 382, 2300 AJ Leiden Op deze e-mail zijn de voorwaarden van toepassing als vermeld op: The following conditions apply to this e-mail: http://www.hsleiden.nl/disclaimer-email

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BSC: Life Sciences vacancy
by BSC Human Resources 13 Jul '20

13 Jul '20

Dear all, We would like to inform you about a new job opportunitiy offered by BSC: - Postdoctoral researcher in cancer germline genetics (R2) Deadline: 31 August, 2020 Link here <https://www.bsc.es/join-us/job-opportunities/19520lscbr2> 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 XOMICS DATA ANALYSES AND INTEGRATION IN PRECISION HEALTH
by Gokhan Ertaylan 13 Jul '20

13 Jul '20

We are looking for a highly motivated candidate for the Ph.D. position in XOMICS DATA ANALYSES AND INTEGRATION IN PRECISION HEALTH ( https://vito.be/en/jobs/phd-position-xomics-data-analyses-and-integration-p… ) as advertised below. Please feel free to forward it to interested parties. The position is part of a strong collaboration with VITO and the University of Hasselt, where the candidate will have the opportunity to experience working in both Institutions. *Deadline: 21/08/2020 *(The position will be open until a matching candidate is being selected regardless of the deadline) Gökhan Ertaylan, PhD Principal Investigator - Health VITO NV | Boeretang 200 | 2400 Mol Phone tel:+3214335270 Vision on technology for a better world DESCRIPTION Our established healthcare system is no longer sustainable due to the aging population demographics and the transformation of many fatal disorders into chronic diseases. Preventive healthcare is rising to the challenge of providing early diagnosis and assistance to the risk group populations, effectively allowing individuals to live healthy instead of living with chronic diseases. Within the “I am Frontier <https://iammyhealth.eu/en/i-am-frontier>” cohort, we are following 30 healthy participants on a monthly basis, which we use to generate different omics data sets including (but not limited to) genomics (Whole Genome Sequencing), epigenetics (Methylation), clinical biomarkers, microbiome, proteomics and metabolomics. Moreover, we collect information about physiological parameters (heart rate, sleep patterns …) and lifestyle (activity, food intake, stress, ...) via questionnaires and wearables. This data, used in combination with data from a range of disease, profiles allow us to calculate individual risk profiles for a range of diseases. The aim of this bioinformatics project is to develop new approaches to data integration, analysis, and visualization in high-dimensional cross -omics datasets. Beginning with genomics, epigenetics, proteomics, metabolomics, and microbiome data generated on samples from the I am cohort, the Ph.D. candidate will develop methods to discover the relationships across these datasets, identify relevant patterns in the data and relate these to available public databases. Moreover, those data can also be correlated to a wide range of clinical parameters as well as data obtained using activity trackers. We are looking for a highly motivated and scientifically excellent candidate in genomics/bioinformatics background with a problem-solving attitude to work in an international, collegial environment. Strong communication skills complemented with innovative and analytical thinking are important assets. Collaboration with University of Hasselt Registration deadline: 21/08/2020 QUALIFICATION You will work in a multidisciplinary environment under the supervision of senior scientists experience in Bioinformatics, Computational Biology and Data science, and under the guidance of a university promotor. - Applicants should hold a MSc degree in bioinformatics, biological disciplines (e.g. biomedical sciences, medicine, bioengineering science or equivalent) or computer science. Master students that obtain such a degree later this academic year can also apply. - Candidates with a biomedical background are expected to demonstrate basic programming experience (e.g. R,Linux bash, Python). - Candidates with a computational background should demonstrate basic biology knowledge. - A strong interest and motivation in omics data analysis is required. - Candidates should be team players and have strong analytical problem-solving skills (creative, critical, and open-minded). - Good oral and written communication skills in English. Application Procedure: We look forward to receiving a motivation letter (max. 1 page), a short CV (max. 3 pages), a transcript from the MSc degree, and three names of referees. OFFER We offer: - a 4-year PhD-research project (candidates will be encouraged to apply for FWO grants in 2020). - a competitive enumeration during the PhD period - participation in an exciting project on personalized and preventive health care. - a career development opportunity with access to data derived from cutting edge technologies and analysis platforms - to become a member of a dynamic and multi-disciplinary research team. - to embed in a research context with different top-research teams with a broad range of expertise.

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PHD POSITION GENOMICS IN HEALTH
by Gokhan Ertaylan 13 Jul '20

13 Jul '20

We are looking for a highly motivated candidate for the Ph.D. position in GENOMICS IN HEALTH (https://vito.be/en/jobs/phd-position-genomics-health ) as advertised below. Please feel free to forward it to interested parties. The position is part of a strong collaboration with VITO and the University of Hasselt, where the candidate will have the opportunity to experience working in both Institutions. *Deadline: 21/08/2020 *(The position will be open until a matching candidate is being selected regardless of the deadline) Gökhan Ertaylan, PhD Principal Investigator - Health VITO NV | Boeretang 200 | 2400 Mol Phone tel:+3214335270 Vision on technology for a better world DESCRIPTION Our established healthcare system is no longer sustainable due to the aging population demographics and the transformation of many fatal disorders into chronic diseases. Preventive healthcare is rising to the challenge of providing early diagnosis and assistance to the risk group populations, effectively allowing individuals to live healthy instead of living with chronic diseases. In this research project, we evaluate the dynamics, surrogacy and strengths of several omic technologies to serve as a basis for risk profiles for chronic diseases. For this purpose, within the “I am Frontier” cohort, we are following 30 healthy participants on a monthly basis, which we use to generate different omics data sets including(but not limited to) genomics (Whole Genome Sequencing), epigenetics(Methylation), clinical biomarkers, microbiome, proteomics, and metabolomics. Moreover, we collect information about physiological parameters (heart-rate, sleep patterns …) and lifestyle (activity, food intake, stress, ...) via questionnaires and wearables. This data, used in combination with open science data from a range of diseases, allow us to profile individual risks for the onset of a disease.. The aim of this bioinformatics research project is to put the genomic information layer central to investigate and develop new approaches for utilizing genome data interactions between molecular intermediates, like, e.g., genome–metabolome, genome-proteome and genome-epigenome, that are relevant for the clinical outcome. The data of the “I am Frontier” cohort can be augmented by publicly available information from different repositories like the Cancer Genome Atlas, 1000 genomes project, etc. Hence affinity to creating genomics and other omics processing pipelines and workflows is crucial for the success of this project. An interesting secondary research objective is to evaluate the surrogacy and redundancy in the genomic data when contrasted to other molecular layers. This could be of importance when considering issues related to GDPR. We are looking for a highly motivated and scientifically excellent candidate in the genomics/bioinformatics background with a problem-solving attitude to work in an international, collegial environment. Strong communication skills complemented with innovative analytical thinking are important assets. This project is a strategical collaboration with VITO and the University of Hasselt and the candidate will be a member of both institutions. Collaboration with University of Hasselt Registration deadline: 21/08/2020 QUALIFICATION You will work in a multidisciplinary environment under the supervision of senior scientists with experience in Bioinformatics, Computational Biology and Data Science, and under the guidance of your university promotor from the University of Hasselt. - Applicants should hold an MSc degree in bioinformatics, biological disciplines (e.g. biomedical sciences, medicine, bioengineering science or equivalent) or computer science. Master students that obtain such a degree later this academic year can also apply. - Candidates with a biomedical background are expected to demonstrate basic programming experience (e.g. R, Linux bash, Python). - Candidates with a computational background should demonstrate basic biology knowledge. - Developing genomic and cross-omics workflows for processing the “I am Frontier” cohort data and auxiliary data resources. - A strong interest and motivation in genomics data analysis are required. - Candidates should be team players and have strong analytical problem-solving skills (creative, critical, and open-minded). - Good oral and written communication skills in English. Application Procedure: We look forward to receiving a motivation letter (max. 1 page), short CV (max. 3 pages), a transcript from the MSc degree and three names of referees. OFFER We offer: - a 4-year PhD-research project (candidates will be encouraged to apply for FWO grants in 2021). - a competitive enumeration during the PhD period - participation in an exciting project on personalized and preventive health care. - a career development opportunity with access to data derived from cutting edge technologies and analysis platforms - to become a member of a dynamic and multi-disciplinary research team. - to embed in a research context with different top-research teams with a broad range of expertise.

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