Showing posts with label Python. Show all posts

Monday, 25 March 2013

Vacancy: Researcher in Informatics / Geoinformatics

Location	Enschede
Function types	Research, Development, Innovation
Scientific fields	Natural Sciences
Hours	38.0 hours per week
Salary	€ 2403 - € 2542
Education	University Graduate
Job number	568396

Job description

For the faculty of Geo-Information Science and Earth Observation (ITC), University of Twente, Enschede, The Netherlands we are looking for 1 researcher to work on the:
Development of data analysis modules within a Web-based Spatial Decision Support System (SDSS).
This is one of the 5 researcher positions for 18 months, financed by the European Community, that are available within the European Marie Curie Initial Training Network “CHANGES” . For more information on the other 4 positions see www.changes-itn.eu. The CHANGES network will develop an advanced understanding of how global changes (related to environmental and climate change as well as socio-economical change) will affect the temporal and spatial patterns of hydro-meteorological hazards and associated risks in Europe; how these changes can be assessed, modelled, and incorporated in sustainable risk management strategies, focusing on spatial planning, emergency preparedness and risk communication.
One of the main components of the project is the development of a Web-based Spatial Decision Support System (SDSS)to analyze the effect of risk reduction planning alternatives on reducing the risk now and in the future, and support decision makers in selecting the best alternatives.

Requirements

- MSc in informatics/ computer sciences/ geoinformatics
- Good programming skills
- Less than 4 years research experience after receiving MSc
- Willingness to travel as the selected researchers will be meeting frequently and will spend about 30% of their time with one of the other project partners in Europe.
- Able to work in a team, as the development of the SDSS is a team-effort.
- Strong object oriented programming background (e.g. C++, Python)
- Strong experience in working with open source GIS software and their built-in functionalities
- Experiences in working with relational database such as Postgres and PostGIS with SQL.
- Good knowledge in risk assessment and web programming

Tasks:
- Responsible for the development of data analysis modules which would finally lead to Risk Assessment (RA) module of the SDSS (most probably to be based on Open Source GIS software ILWIS)
- Development of interactive real-time components for risk calculation and generation of vulnerability curves
- Explore the GIS processing modules of ILWIS (most probably to link and run on the web)
- Development of the interface for RA module
- Need to closely work together with other ESRs in development team

For information on the Marie Curie Initial Training Network Programme and Early Stage Researchers you can consult the website: ec.europa.eu/research/mariecurieactions/index_en.htm.

For detailed information on the position you can consult: Dr. C.J. van Westen, mailto: c.j.vanwesten@utwente.nl or mrs. dr. M.F. Noomen, mailto: m.f.noomen@utwente.nl.
For information about University Twente, faculty ITC see www.itc.nl.

Conditions of employment

Employment: The duration for the position is from 1 July 2013 until 31 December 2014. The appointment will be given under Dutch law and in reference to the UT regulations. Salary and conditions will be in accordance with the Collective Labour Agreements of the Dutch Universities.

Location: The work is carried out in the University of Twente in Enschede.

Organisation

The University of Twente. We stand for life sciences and technology. High tech and human touch. Education and research that matter. New technology which drives change, innovation and progress in society. The University of Twente is the only campus university in the Netherlands; divided over six faculties we provide more than fifty educational programmes. The University of Twente has a strong focus on personal development and talented researchers are given scope for carrying out pioneering research.
The Faculty of Geo-Information Science and Earth Observation (ITC) of the University of Twente provides international postgraduate education, research and project services in the field of geo-information science and earth observation using remote sensing and GIS. The aim of ITC's activities is the international exchange of knowledge, focusing on capacity building and institutional development in developing countries and emerging economies.

More information and original publication here: http://www.academictransfer.com/employer/UT/vacancy/17841/lang/en/

Thursday, 16 August 2012

VACANCY: Postdoc determining radiation dose distribution for radiotherapy

Job Erasmus MC - Postdoc for the department of Radiotherapy - Mathematical Optimization of Cancer Treatment

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Postdoc for the department of Radiotherapy - Mathematical Optimization of Cancer Treatment

Specifications - (explanation)

Location	Rotterdam, 3015 CE, The Netherlands
Function types	Postdoc positions, Research, Development, Innovation
Scientific fields	Health
Hours	36.0 hours per week
Education	Doctorate
Job number	27.03.12.TDdH
Translations	en

Apply for this job within 31 days

Job description

Approximately 50% of cancer patients is treated with radiotherapy. Success of a radiation treatment is largely determined by the quality of the delivered dose distribution. Doses should be very high in the tumor and as low as possible in surrounding healthy tissues, especially in vital radiation sensitive organs. Development of algorithms and procedures for design of individualized irradiation strategies (treatment plans) is a key research line of the department. Optimization of the patient’s dose distribution is a complex, non-convex and discrete mathematical problem with multiple objectives and constraints, and a patient anatomy that may change during the fractionated therapy. Not only the quality of the final dose distribution is important, but also optimization time, speed of daily dose delivery and required human interaction and workload. The selected candidate will participate in these investigations.

Requirements

PhD in operations research, numerical mathematics, or other relevant field;
Excellent programming skills (Python, C++, Matlab) for prototyping;
Ambitious and eager to take initiative;
Creative and excellent analytical skills;
Ability to work in a multi-disciplinary team.

Conditions of employment

We offer a full-time position for a period of 3 years in an exciting working environment, aiming at improvement of patient care. The salary will depend on relevant experience and the job conditions are according to the Collective Bargaining Agreement for University Medical Centers (CAO UMC).

Contract type: Temporary, 3 years

Organisation

Erasmus MC

Erasmus MC inspires and is challenging. You create your own opportunities in this University Medical Center. Whether it concerns learning and work or work and learning/continued learning. Each and every day our enthusiastic staff devote themselves to excellent, dedicated patient care, pioneering medical research and valued education. A conscious choice for work that matters, both nationally and internationally, at the heart of our multicultural home base ofRotterdam. Where attention to individual staff member comes naturally. Working from the heart. Together with people, for people: ‘patient-centered care’!

Department

Radiotherapy

The Erasmus MC-Daniel den Hoed Cancer Center encompasses one of the largest radiation oncology departments in Europe treating 5000 patients per year. The departement has a wide-ranged and internationally renowned research program. Physics is of major importance in the program and a large part of the 50 employees of the Medical Physics division is involved in research projects. The department is equipped with state-of-the-art technologies and an extensive R&D software framework. Apart from computer optimization, image-guided and adaptive treatment, robotic treatment, stereotactic treatment, and proton therapy are among the main research lines. The department participates in the Holland Particle Therapy Center (HollandPTC) project. Research is embedded in multi-disciplinary teams, consisting of radiation oncologists, (medical) physicists, radiation technologists, mathematicians, and computer scientists.

Additional information

For more information, please contact Prof.dr. B.J.M. Heijmen, head of physics, telephone (+31) (0) 10 7041304, e-mail: b.heijmen@erasmusmc.nl, Ir. S. Breedveld, project leader, telephone (+31) (0) 10 7042693, e-mail: s.breedveld@erasmusmc.nl, or Drs. M.J. de Bruin, head of operations, telephone (+31) (0) 10 7041480, e-mail: m.j.debruin@erasmusmc.nl. More information on the R&D program can be found at: www.ncbi.nlm.nih.gov/pubmed?term=heijmen%20b*.

More information about employer Erasmus MC (University Medical Center Rotterdam) on AcademicTransfer. Direct link to this job opening: www.academictransfer.com/14749

Tuesday, 3 July 2012

VACANCY: Postdocs PhDs: Computational Analysis of NGS data

06-21-2012

Vacancy number 21

PROJECT OUTLINE

Genomic alterations are major determinant of responses to (targeted) therapies in cancer. In fact, the best positive and negative predictors of responses to targeted therapies are alterations in kinases or their direct downstream effectors. To gain insight into resistance mechanisms to therapy and thus better tailor treatment, we are approaching this problem from two different angles. First we have transplanted tumors from mouse models of breast cancer and treated these tumors with a range of (targeted) therapies. Matched pre- and post treatment pairs of resistant and sensitive tumors have been full exon sequenced and are available for analysis. The goal is to detect genomic alterations associated with response to therapy. Second, we have acquired large panels of human tumors, on which we are currently performing kinase exon sequencing. More specifically, we are performing sequencing on 1) 400 samples from the NEO-ALTTO study to find alterations associated with resistance to HER2 targeted therapies; 2) at least 200 colorectal samples and 300 breast cancers (triple negatives and invasive lobular carcinomas) to detect alterations frequently occurring in these patient populations. A very strong feature of all these datasets is that matched controls are available to ensure high accuracy in variant calling. The successful candidates will work closely with the biological groups to develop computational approaches for the detection of mutations and copy number alterations associated with specific cancer subtypes as well as therapy response in human and mouse model-derived tumors.

CANDIDATE REQUIREMENTS – EDUCATION AND EXPERIENCE

We are seeking highly motivated Postdoc and PhD candidates with a degree in bioinformatics or a mathematical discipline with a strong cancer biological interest. Applicants should either have strong modeling/applied statistics skills or strong documented experience in analyzing high-throughput sequencing data. In addition, we strongly value experience in one or more of the following: sequence analysis, machine learning, applied statistics and R, computer science and expression analysis. The candidate also needs to be proficient in a programming language such as Java, Perl or Python, and be comfortable with Linux systems. Fluency in spoken and written English is a strong requirement.

LOCATION

The project will employ the complementary expertise and tools of three groups participating in the Cancer Systems Biology Center (csbc.nki.nl) at the Netherlands Cancer Institute, Amsterdam: Rene Bernards (Molecular Carcinogenesis), Jos Jonkers (Mouse Models for Breast Cancer) and Lodewyk Wessels (Computational Biology). The positions are primarily embedded within the Bioinformatics and Statistics Group (Wessels) (bioinformatics.nki.nl) at the Netherlands Cancer Institute, Amsterdam.

EMPLOYMENT CONDITIONS

The successful candidate will be employed by the Netherlands Cancer Institute. Postdocs will be appointed for a period of 3 years. The gross salary per month will be from € 3.200,- to € 4.095,- according to the FWG-function group 55 or 60, depending on proven qualities and previous experience. PhDs will be employed by the Netherlands Cancer Institute for a period of 4 years. The gross salary per month will be from € 2407,- to € 2964,- according to the PhD scales, depending on proven qualities and previous experience. The terms of employment will be in accordance with the CAO Ziekenhuizen (Collective Labour Agreement for Hospitals).

WANT MORE INFORMATION?

Please contact Dr. Lodewyk Wessels, tel. +31 20 512 7987 or e-mail: l.wessels@nki.nl. Also see bioinformatics.nki.nl and csbc.nki.nl for further information.

INTERESTED?

Your application letter (including your resume, a list of publications and the names and addresses of at least two persons that can be approached for references) can be attached before January 15, 2012 to the application form on our website (see link below). After dispatch of the form you will receive a reaction as soon as possible.

http://www.nki.nl/Research/Career/Vacancies/Default/Postdoc_PhDs_Computational_Analysis_of_NGS_data_2011_157.htm

Looks like they made a mistake in the letter. Expiration date cant be right

Introduction of the ‘European Blue Card’

As from 19 June 2011 the Netherlands has a new purpose of stay: the European Blue Card. The European Blue Card is a separate purpose of stay in addition to the existing National Highly Skilled Migrant Programme. The EU Blue Card Council Directive is intended for highly skilled foreign nationals who do not have EU, EEA or Swiss nationality, and who wish to work in one of the member states of the EU. The Directive is also meant to make it easier to settle in another EU member state. A residence permit will always be required in that other member state, however. To obtain this residence permit the employee must comply with the conditions applicable in that member state.

The conditions for residence in the Netherlands as an EU Blue Card holder are stricter than those for residence as a Highly Skilled Migrant. The employee must have a contract for highly qualified employment for at least one year, earning at least EUR 60,000 gross (in 2011). The employee must have completed a course of higher education lasting at least three years. The employee must prove this by having his diploma assessed by Nuffic. For a regulated profession, a competent authority will take decisions about the admission to that profession.

Advantages
One of the advantages of the EU Blue Card is that it is easier for an EU Blue Card holder and his family members to settle in another EU member state at a later date. After eighteen months foreign nationals who have an EU Blue Card are exempted from the provisional residence permit (MVV) requirement, if they want to work in another EU member State. In this second member state the employee must submit an application for a residence permit as a holder of an EU Blue Card. Each member state may implement the directive in slightly different ways. If someone holds a Blue Card in the Netherlands, this does not mean that the requirements are also met in other member states.

Another advantage is that after having stayed lawfully with the EU Blue Card holder in the Netherlands for two years, the family members may apply for a residence permit for ‘continued residence’. For other purposes of stay this is only possible after having stayed lawfully in the Netherlands for three years. The family members must have resided legally and continuously within the territory of an EU member state for at least five years, however. An employee who has stayed legally in the Netherlands as an EU Blue Card holder for two years may apply for the status of ‘long-term resident as a non-EU member country national’. He must have resided legally and continuously within EU territory for five years and must comply with the other conditions for this purpose of stay.

Highly skilled migrants from outside of the EU

A highly skilled migrant is a migrant who comes to the Netherlands to be employed, and has a gross annual income of at least €47,565, or €34,881 if he/she is under thirty. This income requirement does not apply if the employee enters service for certain functions in an educational or research institution. For information on the specific functions to which this clause applies, you can inquire at the IND office for labour and highly skilled migrants. When a foreign national has been granted residence in the Netherlands as a highly skilled migrant, the employer of the highly skilled migrant is not required to be in possession of a work permit for that foreign national.

Professional soccer players, ministers of religion, teachers of religion and prostitutes are not eligible for a residency as highly skilled migrant.

Important!
The amounts stated above will be indexed every year as of 1 January.