Description

A Faculty Research Assistant position is available in a newly established

statistical/quantitative genetics group in the Department of Animal and

Avian Sciences at the University of Maryland, College Park

(http://ansc.umd.edu). Ultimately, the group seeks to understand the genetic

basis of complex traits and diseases, shaped by selection, mutation, and

genetic drift, using statistical and computational approaches. In

particular, the group focuses on developing statistical approaches and

computing tools for the identification of genetic variants for complex

traits and diseases in animals and humans. Detecting selective sweeps and

studying the population history of animals and humans using whole genome

sequence data will also be of interest.

Candidates should have a Ph.D. in genetics, statistics, bioinformatics,

computational biology, computer science, or a related field. Knowledge of

statistical genetics, population genetics, complex trait mapping and/or

next-generation sequencing is a plus. Proficiency in programming in R and

one from Fortran, C/C++, and Java is highly desired. Preference will be

given to candidates with a strong publication record, evidence of

substantial research productivity, and ability to successfully communicate

scientific information.

Salary is highly competitive and commensurate with qualifications. Fringe

benefits are offered.

Applicants can ask for more information through email, lima@umd.edu, or

apply officially through eTerp at https://ejobs.umd.edu, with the position

number 119407. Candidates should upload CV and cover letter with a brief

description of previous research experience and contact information of

three professional references.

• WEBSITE: http://www.umd.edu
• DEPT SITE: http://ansc.umd.edu/faculty/Ma/

Description

The Quantitative Biomedical Research Center is newly established at UT Southwestern Medical Center (UTSW). It aims to foster collaborations involving quantitative methods and technologies in any aspect of biomedical research, particularly for understanding disease etiologies and developing treatment and prevention strategies. Currently, the center has four faculty members, several staff members, postdocs and student research assistants. We are actively recruiting new members to join this new and dynamic group.

Position Title: Postdoctoral Fellow

Duties & Responsibilities: The new postdoc will work on one or more of several interesting topics, including: developing comprehensive predictive models for clinical outcomes, integrated analysis of genetic, genomic and epigenetic data, developing clinical databases. At UTSW, there are many opportunities for postdocs to collaborate with outstanding biomedical investigators and work on exciting research projects. UT Southwestern provides a dynamic, collaborative, and integrative research and training environment with state-of-the-art facilities.

Position Qualifications: Candidates should have a doctoral degree in biostatistics, computer sciences, bioinformatics, electrical engineering, physics or a related field.

ContactEmail: Yang.Xie@UTSouthwestern.edu

Application Deadline: until filled

 UT Southwestern is an Equal Opportunity, Affirmative Action Employer

To apply

Application Address: Dr. Yang Xie (Yang.Xie@ UTSouthwestern.edu) 

WEBSITE: http://www.utsouthwestern.edu

DEPT SITE: http://qbrc.swmed.edu

Description

The Brkanac laboratory invites applications from highly motivated candidates for a postdoctoral position. We are interested in a discovery of rare highly penetrant variants responsible for familial forms of complex neuropsychiatric diseases using next generation sequencing and bioinformatics approaches. The applicants must hold a Ph.D. level degree in life sciences or computer science with some relevant research experience in both areas and at least one first-authored publication in a peer-reviewed journal. The position requires programming skills, knowledge of bioinformatics including analysis of next generation sequencing data and experience in molecular genetics/genomics. The successful candidate will be self-motivated, keen to acquire new knowledge and skills and eager to produce scientific publications.

The University of Washington is an excellent environment for training in genomics.

Seattle is a desirable to live, vibrant major metropolitan area. To inquire please send a CV, a statement of research interest including description of experience in genomics and bioinformatics and contact information of three references to zbrkanac@uw.edu.

Requirements:

• Ph.D. computer or life sciences or science with some relevant research experience in both areas and at least one first-authored publication in a peer-reviewed journal.

• Background in bioinformatics, molecular biology and genomics .
• Knowledge of bioinformatics tools and genomics databases (dbSNP, UCSC) including data uploads.

• Previous experience with next generation sequencing or GWAS data.

• Experience using Linux operating systems.

• Experience in Perl, Python programming.

• Strong organizational and record keeping skills to record experiment results and analyze data.
• Effective written communication skills to publish results.

To apply

Please send inquires to zbrkanac@uw.edu.

WEBSITE: http://www.uwpsychiatry.org/ResultsDetail.aspx?EmployeeID=741001332

DEPT SITE: http://www.uwpsychiatry.org/ResultsDetail.aspx?EmployeeID=741001332

Center for non-coding RNA in Technology and Health (RTH), http://rth.dk, address non-coding RNAs in (inflammatory) diseases through a multi-disciplinary research approach spanning bioinformatics, high-throughput data, molecular biology and genetics. The center has an open PhD position in Bioinformatics and we are looking for a person to join our team from September, or soon thereafter. The position is for three years.

Background 

Non-coding RNAs (ncRNAs) have been established as a highly abundant class of genes which play numerous important roles in the cell and in disease. These ncRNAs often contain RNA structure either for the entire sequence or sometimes as minor "domains". In RTH we have developed a range of computational tools for the analysis of both structured RNAs and high-throughput data.

Job description 

Within RTH material has been collected for a range of diseases and will be combined with in silico generated information of structured RNA and a range of information such as expression and (protein and RNA) binding generated from predictions and experiments. A key goal of the project is to filter and rank selected candidates for detailed molecular functional analysis with respect to the disease samples. Pipelines for expression analysis, data integration and statistical analysis will be developed within the project.

Qualification requirements 

The applicant should hold professional as well as personal skills and qualifications as stated below:

• A master degree in bioinformatics, computational biology, computer science or similar.
• Very strong experience with script languages such as Perl or Python (or similar).
• Strong experience with the linux/unix environment, command lines and shell scripting.
• Experience with statistical analysis.
• Differential expression analysis (with background correction / multiple testing).
• Possess good interpersonal skills.
• Be excellent in English, writing and speech.

In addition to the above, weight will be given to applicants meeting one or more of the following requirements:

• General knowledge about RNA structure folding algorithms.
• C or C++.

Terms of employment 

The PhD fellowships are to be completed in accordance with the Ministerial order on the PhD programme at the universities (PhD order) the Ministry of Science, Technology and Innovation and the Regulations and guidelines for the conferment of the PhD degree by the Faculty. The terms of employment are stated in the agreement between The Danish Confederation of Professional Associations and the Ministry of Finance. The basic annual salary for PhD students starts at DKK 300.000 (approx. Euro 40.500). In addition, the successful candidate will enter a pension fund scheme as well as paid holidays after one year. Operating costs such as course fees, project expenses, travel and stays abroad, etc. are subsidized by the project.

Place of employment 

RTH is mainly located on the Frederiksberg campus, close to the center of Copenhagen. We are an interdisciplinary center with national as well as international collaborators and visits to the partners are organized when necessary. Our research environment is highly international and stimulating. We frequently organize seminars, workshops, PhD summer schools with international speakers and have retreats with our international collaborators.

Application procedure 

Apply by clicking "Apply online" below. Applications - in English - must include:

• Cover Letter applying including your motivation, background and why your skills match the requirements. Max 1 page.
• CV incl. education, research experience, programming skills and other skills relevant for the position.
• Diploma and transcripts of records (B.Sc. and M.Sc.). If the M.Sc. degree is from a foreign university, it must be documented that it is on a level equivalent with a Danish M.Sc.
• Other information for consideration, e.g. list of publications (if any).
• Personal Recommendations.
• A maximum of 3 relevant scientific works (e.g. peer reviewed papers) which the applicant wishes to be included in the assessment.
• If the applicant has another nationality than Danish and does not have English/

American as native language, a TOEFL(+TSE) (minimum score 560 pts. (paper based) or 83 pts. (internet based)) or IELTS (minimum score 6.0 pts.) official certificate is mandatory. If you have not passed this at the time of application, you must include documentation that you have signed up for the test including a statement of the expected date for result.

Application deadline 

The applications must be received latest by Sunday, September 8th, 2013.

Application received after the closing time will not be considered.

Questions 

For further information about the

• scientific content, please contact: Professor Jan Gorodkin, e-mail: gorodkin@rth.dk, phone +45 353 34704, +45 353 33578 (direct).
• application procedure and formalities, please contact: Administrative Officer, Marie-Louise Rosenlund, e-mail: mln@sund.ku.dk, phone: +45 353 32898.

Deadline: 2013-09-08

Employer: Faculty of Health Sciences, University of Copenhagen.

Apply online

Founded in 1479, the University of Copenhagen is the oldest university in Denmark. With 37,000 students and 9,000 employees, it is among the largest universities in Scandinavia and one of the highest ranking in Europe. The University consists of six faculties, which cover Health and Medical Sciences, Humanities, Law, Science, Social Sciences and Theology. 

Frist: 08-09-2013 

Arbejdsgiver: Det Sundhedsvidenskabelige Fakultet

Read more

Fully-funded 3 year position, starting as soon as possible

The opportunity

Recent breakthroughs in sequencing technologies are transforming biosciences. Increasingly, individual laboratories perform de novo genome and transcriptome sequencing efforts. But due to the relatively short length of current reads, assembly remains challenging. The problem is particularly acute with plant genomes because of their large size, polyploidy, and massive gene expansions and contractions.

The successful applicant will contribute to on-going efforts in the lab to exploit orthologous sequences in closely related species to identify split and incomplete genes in draft genome and transcriptome assemblies.

The project is part of a larger collaboration between the Dessimoz Lab at UCL and Bayer CropScience NV (Ghent, Belgium), leading agronomical company, for the development of new methods and resources to better characterise evolutionary and functional relationships between model plant genomes and agronomically-relevant crop genomes. This project will enable more effective crop biotechnology, which is key to ensure food security and sustainable agriculture.

The successful applicant will be provided with strong mentorship and be given ample scientific training opportunities. She or he will based at UCL in the Bloomsbury area of London, but will have the opportunity to do short-term visits to the collaborator in Ghent.

The successful applicant will receive a tax-free stipend of currently £15,726 per annum. There will be additional opportunities to be sponsored for attending international conferences. The PhD study fees will be covered by the project (UK/EU rates).

Profile Sought

1. Strong (first or upper second class) undergraduate or postgraduate degree in quantitative discipline (bioinformatics, computer science, statistics, mathematics, or related subjects)
2. High degree of self-motivation
3. Good ability to work independently and as part of a team
4. Effective written and oral communication skills
5. Demonstrated programming skills
6. Ideally, prior experience in computational biology research

Applicants must be either UK/EU/Swiss nationals or resident in the UK for three years prior to starting the PhD.

How to apply

To apply, please send the following documents as single PDF by email to Dr Christophe Dessimoz (c.dessimoz at ucl.ac.uk):

1. a covering letter highlighting your reasons for applying and your suitability for this studentship
2. a copy of your CV
3. the names and contact details of 2-3 references
4. if available, links to your Bachelor or Master thesis, publications, code projects (e.g. GitHub repo) are appreciated

To ensure full consideration, applications should be received by 16 Sep 2013 at 5pm UK time.

• For informal enquiries, please contact Dr Dessimoz to this above address.

Interview Dates	28-29 August 2013, EMBL Grenoble
	28-30 August 2013, EMBL-EBI Hinxton
	28-30 August 2013, EMBL Hamburg
	29-30 August 2013, EMBL Monterotondo
	02-04 September 2013, EMBL Heidelberg

Spring Recruitment 2014

Call for applications for the Spring Recruitment 2014 is now open. Please apply here.

Information to applicants: The EMBL does not charge a fee at any stage of the recruitment process (application, interview meeting, processing, training or any other fees). The EMBL does not concern itself with information on bank accounts.

Application opens	12 August 2013 CET (GMT +1)
Registration Deadline	11 November 2013, 23:59 CET (GMT +1)  via the Online Application Form.
Submission Deadline	18 November 2013, 23:59 CET (GMT +1)
Reference Deadline	20 November 2013, 23:59 CET (GMT +1)
Interview Dates	Will be published closer to the time.
	Full details about the interview procedure will be sent only to invited candidates.

Reference Requirements

You can submit your application irrespective of the fact if your referees have completed the online reference form or not, as the submission does not impede referees access to the application.

Referees must submit their online references by latest 20 November 2013, 23:59 CET (GMT +1). We strongly suggest that you complete the 'general info' and 'references' part of the online application first in order to give your referees enough time to complete the reference online. Furthermore please make sure to contact your referees before completing this part in order to find out if they are available and willing to provide a reference. It is applicant's responsibility to ensure that references reach us on time.

As stated within the online application form we only accept references provided through institutional email accounts.

Only in cases where the referee does not have one, i.e. only holds a 'hotmail', 'gmail' etc. account, we ask you to:

1. Complete the form with the available email address.
2. Inform your referee NOT to complete the online form.
3. Ask your referee to send a reference letter on institutional headed paper as a PDF document topredocs@embl.de
4. Ask your referee to include your application ID number (5 digits) in the reference letter.

Read more @ EMBL

Description

Postdoctoral Associate in Machine Learning or Computational Biology

(http://www.dbmi.pitt.edu)

Elegibility: US Nationals only for NLM funded Postdoctoral Fellowship, and Any nationality for the other position.  Specialization in Machine Learning or computational biology with strong emphasis on computational aspects.

Employer: University of Pittsburgh Department of Biomedical Informatics

Faculty/Group: Madhavi Ganapathiraju, http://tonks.dbmi.pitt.edu/

Location:Pittsburgh, PA, United States

Type:Postdoctoral Associate

Ideal candidates would have ability to carry out independent research and a strong publication record. 

There is one slot for NLM funded Postdoctoral Research Associate position and one slot for NIH funded project for Machine learning & Computational Biology research.

Requirements:

- Post-graduate degree (MD or PhD) and training in Machine Learning or Computational Biology

- Ability to independently perform research in one of the above areas of biomedical informatics with mentoring from a faculty member.

- Ability to write and publish journal articles.

The University of Pittsburgh is an affirmative action, equal opportunity employer.

To apply

Apply online athttp://apply.dbmi.pitt.edu

and send CV tomadhavi+phds2@pitt.edu (yes +phds2 is part of the email address).

WEBSITE: http://www.dbmi.pitt.edu

DEPT SITE: http://www.dbmi.pitt.edu/madhavi

Description

A post-doctoral position is available in the group of Prof. Gaurav Pandey (http://www.mountsinai.org/profiles/gaurav-pandey) at the Mount Sinai School of Medicine in New York City. The group focuses on developing and applying machine learning methods to build network and predictive models of biological processes from large genomic data sets. Some of the specific areas my group is currently focusing on are the modeling of the immune response system, prediction of breast cancer phenotypes, and the discovery of novel therapeutics, especially synergistic drug pairs. These are important but quite difficult problems that need constant computational innovations, thus making the problems very interesting from a computer science perspective as well.

Our group is a part of the newly formed Institute of Genomics and Multiscale Biology (http://multiscale.mssm.edu) at Mt Sinai. The Institute aims to revolutionize the field of genomic medicine by bringing to the table skills from very unorthodox disciplines (for biology), such as computer science, statistics, physics and high-performance computing. The faculty members of the institute, experts in all these areas, analyze very large genomic data sets to build accurate predictive models of biological processes and complex diseases, such as cancer, type-2 diabetes and Alzheimer’s disease. Being positioned within a prominent medical center such as Mount Sinai makes it feasible to bring the predictions and therapeutic discoveries from these models to the patients’ bedside, thus placing the institute in a very unique position.

The selected candidate will be able to contribute to the ongoing projects in the group and the Institute, as well as define his/her own projects.

To apply

Candidates should have a recent PhD degree in a computationally-oriented field, and discipline and high motivation to pursue independent research in computational biology. Applicants are expected to have a solid background in programming and computational techniques, with a working knowledge of molecular biology and genetics. To apply, send a CV, a research statement and three reference letters to gaurav.pandey@mssm.edu.

WEBSITE: http://www.mssm.edu

DEPT SITE: http://multiscale.mssm.edu

Description:

A postdoc position is available (starting in the fall of 2013) in the field of computational biology, in particular, algorithm development for predicting 3D protein complex structures (aka protein docking).  The main project is funded by the National Science Foundation, entitled “Dimension Reduction and Optimization Methods for Flexible Refinement of Protein Docking”. 

The postdoc will join the Shen group (http://ttic.uchicago.edu/~yshen) at the Toyota Technological Institute at Chicago (http://www.ttic.edu), an academic institute dedicated to advanced research and higher education in computer science on the campus of the University of Chicago.  The group is interested in topics such as protein docking, protein engineering, drug design, systems and synthetic biology, and bioinformatics.  Central to these ends are the development and application of computational methods in molecular modeling, network simulation, optimization, machine learning, graph theory, and system and control theory.

Preferred qualifications include:

1. Ph.D. programs completed or to be completed in computer science, applied mathematics, operation research, computational biology, biophysics, engineering, or other related fields;

2. Strong background and track record in algorithm development in one or more following areas: optimization, dimensionality reduction, machine learning, and statistics;

3. Linux programming experience in implementing algorithms (required) and databases & webservers (plus) in one or more following languages: C/C++, shell scripting, Perl, Python, SQL, XML, PHP, and Java;

4. Experience in protein modeling (not required but a plus) such as free energy calculation, scoring function training, conformational search, and molecular dynamics.

The position will remain open until filled.  Applications by September 15, 2013 will likely receive more attention.  Please send a cover letter, CV, and names of 3 references to Prof. Yang Shen (yangshen@ttic.edu).   

• WEBSITE: http://www.ttic.edu
• DEPT SITE: http://ttic.uchicago.edu/~yshen

Description

A researcher position under the supervision of Dr. Claudio Donati is available in the Computational Metagenomics unit, Computational Biology Centre of the Research and Innovation Centre.

The successful candidate will be responsible for the development and implementation of methods and algorithms for the integration and analysis of data from different sources (genomic sequences, metagenomics, metatranscriptomics) to describe the interactions between the host, its life style and the microbial flora defined both at the taxonomic and functional level

Tasks:

-Set up of a computational pipeline for the metabolic reconstruction from metagenomic data;

-Design, installation and administration of appropriate databases of metabolic pathways;

-Development of computational methods of analysis of metagenomic and metatranscriptomic data;

-Development or adaptation of software tools and scripts to meet project needs;

-Support to the community of users

Language: English (B1) or higher. Preference will be given to candidates who are able to draft their own research papers in advanced English.

IT: Good knowledge of the Unix operating system. Working knowledge of at least one modern programming language (C, C++, Java, Python, etc). Experience with scientific computing software (MATLAB, R, etc) desirable. Experience with High Performance Computing environment is a plus

Title: PhD in a quantitative discipline such as Mathematics, Physics or Computer Science or in Biology with a strong quantitative and computational background, or at least five years of documented experience in Bioinformatics, Genomics or Computational Biology

Experience: Five years experience in the following fields:

-Experience with sequence data analysis tools;

-Experience with the analysis of systems biology data;

-Experience with methods of Next Generation Sequencing Data analysis

Must possess strong organizational skills and an affinity for problem solving. Excellent written and verbal communications skills, and the ability to work both independently and collaboratively are strongly preferred

Supervision: Claudio Donati

To apply

More details and application can be found online at

http://www.fmach.it/eng/General-Services/Work-with-us

Deadline for application: September 30th, 2013.