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    BACKGROUND

    Computercraft seeks a highly-motivated individual who will apply his or her expertise to develop viral genome resources at the National Center for Biotechnology Information (NCBI). The successful candidate will analyze viral sequence data, curate genome datasets, annotate reference sequences, manage content within viral sequence databases, and assist development of specialized tools and resources used in sequence data retrieval, analysis and display.

    This is an exciting opportunity to contribute to publicly available viral genome resources while using state-of-the art computational tools and databases. The successful candidate will work onsite at the National Institutes of Health in Bethesda, Maryland. For more information about NCBI viral genome resources, please see: www.ncbi.nlm.nih.gov/genome/viruses/

    RESPONSIBILITIES

    • Analyze and review viral nucleotide and protein sequences using specialized databases, bioinformatics software, and literature
    • Produce publicly available reference genomes containing the most accurate annotation and metadata descriptors possible
    • Collaborate with external experts to ensure that genome records contain accurate information and that viral genome resources address community needs
    • Conduct database quality control by manual and electronic methods and work with computer scientists to improve internal processing software
    • Apply background in biology to the design and implementation of web based resources that solve public health and research science needs

    REQUIREMENTS

    • Ph.D. in virology, molecular biology, or related field
    • Experience with sequence analysis and bioinformatics software
    • Hands-on laboratory experience
    • Excellent verbal and written communication skills
    • Strong problem-solving and organizational skills
    • Ability to work as part of a team and collaborate with other scientists
    • Genuine interest in maintaining public database resources
    • Postdoctoral experience in applied virology and/or genomics helpful but not required

    LOCALE

    Bethesda, MD

    HOW TO APPLY

    To apply for this position or learn about other Computercraft job opportunities, please visit the Careers section of our website: www.computercraft-usa.com

    Submitter

    BACKGROUND

    Two undergraduate payed, research opportunities are available in Oncinfo Lab starting in June 2017 and ending July 2017. These are part of the NSF-supported REU program.

    The successful candidates will contribute to development and application of cutting edge computational methods to analyze RNA-seq and other expression data from large cohorts. They will contribute to highly collaborative studies which are designed to infer biological information from gene networks by modeling data using Bayesian networks, co-expression networks, and so on. The results are expected to be published in highly ranked journals.

    Dr. Habil Zare is the founder of Oncinfo Lab which has active collaborations with the British Columbia Cancer Agency, an outstanding research reputation in oncology throughout the world. Also, Oncinfo Lab collaborates with R&D departments of top pharmaceutical companies such as Pfizer and Novartis. See oncinfo.org for more details. Texas State University is located in Greater Austin Area, Texas. It is an Emerging Research University aiming to become a National Research University in the future.

    RESPONSIBILITIES

    Writing code, running experiments, literature review, writing papers and preparing posters.

    REQUIREMENTS

    • ONLY US citizens or permanent residents can apply.
    • Applicants should be undergraduate students.
    • They should have completed data structures, computer algorithms classes, or their equivalence.
    • Good knowledge of at least one programming language is required (knowing R is a plus).
    • Women, minorities, first generation, and two-year college students are encouraged to apply.

    PREFERENCES

    Strong candidates have some background in biology and computer programing. However, exceptionally capable candidates with little background who are highly motivated for learning new concepts and techniques will be considered. Ability for critical thinking and independent learning, writing code, and excellent written and oral communication skills are essential.

    Other preferred qualifications: A record in publishing scientific papers, familiarity with machine learning, mathematics, computational biology, bioinformatics, statistics, R, prior research experience in a related field, or experience in multidisciplinary research can increase chance of acceptance.

    LOCALE

    Greater Austin Area, TX, USA

    COMPENSATION

    Stipend: $4,500 for 9 weeks
    Travel reimbursement of up to $600
    Free on-campus housing
    Meal allowance: $100 per week

    HOW TO APPLY
    Interested candidates are encouraged to first email a current CV to Dr. Habil Zare at their earliest convenience. While the position is open until filled, late communication can decrease chance of acceptance. Also, the candidate should apply to the Department of Computer Science at Texas State University before the university deadline, March 1, 2017.

    Visit cs.txstate.edu/~h_z14/ for the PI's contact information,
    Visit reuiot.cs.txstate.edu/ for a short description of the past proposed project.

    DEADLINE

    March 1 2017, but contact as soon as possible to increase your chance of acceptance.

    POLICY

    Texas State University is an Equal Opportunity and Affirmative Action Employer and encourages applications from women, minority, and international candidates.

    BACKGROUND

    The Sanger Institute is a charitably funded research centre focused on understanding the role of genetics in health and disease. We use state of the art large-scale genomic approaches to drive world-leading projects to uncover the basis of genetic and infectious disease. Our goal is to provide results that can be translated into diagnostics, treatments or therapies that reduce global health burdens. The Institute is located near Cambridge, UK on the stunning Wellcome Genome Campus. This growing and dynamic site is the British hub of genomic science. It hosts the European Bioinformatics Institute (EBI), Open Targets, a Biodata Innovation Centre and will soon host Genomics England Limited's 100,000 Genomes Sequencing Centre. The Campus is also home to the Wellcome Genome Campus Courses, Conferences and Public Engagement (CCPE) programme. The CCPE programme delivers training and engagement focussed around genomics, its applications, and implications. Its vision is to inspire a range of audiences both on the Campus and beyond it, and make the world of genomics open and accessible to all. To help researchers to develop their skills and networks, the Institute hosts a range of scientific seminars with internal and invited speakers, scientific group meetings and skills development workshops. In addition the Campus is home to the Wellcome Trust Advanced Course and Scientific Conferences programme and the Wellcome Trust Conference Centre. Our Benefits include: Defined Contribution Pension Scheme, Group Income Protection, Healthcare scheme, Childcare Vouchers, Workplace Nursery and 25 days Annual Leave, increasing by one day per year up to a maximum of 30, plus Bank Holidays. We also have a gym, two cafes, dining facilities, and a free campus bus service. Our thriving Sports and Social Club provides many opportunities to meet with people working across the campus. Wellcome Trust Sanger Institute welcomes applications from all candidates irrespective of age, disability, gender, gender identity, sexual orientation, race, religion or belief, or marital or civil partnership status.

    RESPONSIBILITIES

    We are seeking a software developer to join the Human Genetics Informatics (HGI) team at the Wellcome Trust Sanger Institute. HGI is an agile development team responsible for providing efficient access to cutting-edge analysis methods to human genetics faculty groups at the Sanger Institute. Skilled developers are encouraged to apply regardless of prior job experience, as the focus is on coding and core computer science skills rather than on work experience. Recent graduates or current students in their final year are especially encouraged to apply, although it is essential that any candidate has substantial development experience outside of coursework (e.g. active participation in open source projects or the pursuit of personal coding projects). An interest in scientific research and a strong intellectual curiosity are also necessities, although a formal education in genetics is not required. Our team's focus is the development and operation of scientific analysis workflows and tools for genetic data analysis, as well as developing the infrastructure necessary to manage the efficient operation of those workflows. This role will involve working as part of the HGI team to deliver working systems that produce analytical outputs for human genetics faculty research groups within the Sanger. Team members will be expected to produce quality code; to be able to work both independently and closely with colleagues to develop, debug, and optimize their code; and to be comfortable communicating directly with scientific researchers regarding requirements. As part of the HGI team, the successful applicant would have access to Sanger's world-class computational resources, including a 15000+ core computational cluster, an OpenStack private cloud environment, and many petabytes of high-speed distributed filesystems and object stores. The choice of development language depends on the task at hand, so as a small team we are flexible in terms of what languages we use. The ideal applicant would be comfortable with independently learning the basics of a new language in a matter of days, and to become productive in it within a week or two. Our philosophy is that development skills are independent of language and that programming languages shouldn't generally need to be formally taught. That said, a successful applicant will likely have developed expertise in at least a few languages as a side-effect of previous development projects, and should be able to demonstrate skill in at least one scripting/interpreted and one compiled language.

    REQUIREMENTS

    • Degree in Computer Science or in a related quantitative field (e.g. Mathematics, Physics, Bioinformatics) coupled with substantial experience in software development (although not necessarily in a work context)
    • Knowledge of core computer science concepts (e.g. object oriented design, memory management, algorithm implementation) and practices (e.g. version control, agile development, extreme programming)
    • Skill in a combination of interpreted and compiled languages (e.g. C, Go, Haskell, Java, Perl, Python, R, Ruby, Scala)
    • Experience producing useful code (not necessarily in the context of employment - personal projects or contributions to open-source projects would be equally applicable)
    • Critical thinking skills and a familiarity with statistics (e.g. statistical distributions, significance tests, inference)
    • Knowledge of Linux/POSIX based operating systems, libraries, and tools
    • Good communication skills
    • Attention to detail
    • An interest in scientific research and a strong intellectual curiosity

    PREFERENCES

    • Experience in genetics, bioinformatics, or a related field
    • Experience in development of free open-source software
    • Experience in an academic software development environment
    • Experience with user interface design, especially using modern web-based technologies (e.g. "HTML5")
    • Experience working with hypermedia-driven REST APIs
    • Knowledge of advanced computer science concepts and algorithmic techniques (e.g. agent-based computing, artificial intelligence, dynamic programming, game theory, Gibbs sampling, hidden Markov models, information theory, and machine learning)
    • Experience with relational and non-relational databases (e.g. MongoDB, CouchDB, Titan, OrientDB, Cassandra, MySQL/MariaDB, PostgreSQL)
    • Experience with virtualisation/containerisation technologies (e.g. CernVM, Docker, LXC, OpenStack)

    COMPENSATION

    Salary up to £39729 plus excellent benefits. A market supplement of £1,465 per annum (non-pensionable) may also be available; this is dependent on skills and experience and is offered in recognition of the current market value of certain skills and technologies. Market supplements are subject to periodic review.

    HOW TO APPLY

    Click on the link jobs.sanger.ac.uk/wd/p[...]97364

    DEADLINE

    15th February 2017

    BACKGROUND

    Organisation:
    The Faculty of Mathematics and Natural Sciences is home to a kaleidoscopic range of disciplines and research strengths. Our teaching and research programmes range from nanomaterials to engineering, from pharmacy to ecology, and from computer science to astronomy. Our researchers investigate fundamental key questions while collaborating with partners from industry, the medical world and other social sectors. Frontline research groups explore new fields such as synthetic biology and sustainable energy use.

    The Faculty place a high priority on the international dimension of teaching and research and has a long history of stimulating, initiating and carrying out multidisciplinary and internationally oriented research. The Faculty has 40 Bachelor's and Master's degree programmes, 35 of which are English-taught, attracting students from all over the world.

    Job Description:
    The University of Groningen initiated the prestigious Rosalind Franklin Fellowship programme to promote the advancement of talented international researchers at the highest levels of the institution. The ambitious programme has been running at the Groningen Faculty of Mathematics and Natural Sciences since 2002 and at the University as a whole since 2007.

    The Rosalind Franklin Fellowship programme is aimed at women in industry, academia or research institutes who have a PhD and would like a career as full professor in a European top research university. The Fellowship is only awarded to outstanding researchers.

    Successful candidates will be expected to establish an independent, largely externally funded research programme in collaboration with colleagues at our Faculty and elsewhere. They will also be expected to participate in and contribute to the development of the teaching programme of their discipline.

    The University of Groningen has 13 tenure track positions available in this programme, currently co-funded by the European Union. We invite ambitious female academics to apply for these positions.

    Under European jurisdiction it is lawful to specifically recruit underrepresented groups.

    Five RFF Positions:
    In the next round of Rosalind Franklin Fellowships, the Faculty of Mathematics and Natural Sciences has five Rosalind Franklin Fellowships to offer in the disciplines:
    • Fundamental Computer Science (Data Management, Theory of Computing, Algorithms, Networks, Security)
    • Fundamental Mathematics (Algebra, Geometry, Analysis), Mathematical Data Analysis, Complex Systems
    • Mechanical Engineering (field of dynamics and vibrations, optomechatronics, or other fields relevant for advanced instrumentation)
    • Artificial Intelligence (logic, neuromorphic computing, cognitive modelling or robotics)
    • Bioinformatics (complex biological systems, genome analyses, metagenomics and microbiology, host-microbe biology, new computational algorithms and methods)

    REQUIREMENTS

    Qualifications:
    • PhD degree for at least 3 years on reference date 1 February 2017
    • Exemplary research record demonstrated by publications in international top journals and/or in peer-reviewed books
    • Proof of independence and international recognition
    • Experience in various working environments in different countries
    • Successful in acquiring external funding for research projects
    • Teaching experience or proven inclination for teaching demonstrated by tutoring/mentoring of individuals or small groups
    • Demonstrable organizational qualities and communication skills
    • A well-founded and motivated application with an innovative research plan for the first five years and a challenging outlook for the future which takes into account the international research landscape in their field of specialization
    • Must not have resided or carried out your main activity (work, studies, etc.) in the Netherlands for more than 12 months in the 3 years immediately prior to the reference date of 1 February 2017
    Please check whether you are eligible to apply by doing the eligibility check: www.rug.nl/abou[...]tion/

    Additional Requirements:
    In addition to the University's general requirements for the fellowships, the Faculty of Mathematics and Natural Sciences has the following additional requirements:
    • At least two years of postdoctoral experience, preferably in various research institutions (Dutch applicants should have at least two years of postdoctoral experience outside The Netherlands)
    • Experience in supervising research projects
    • The candidate must have the potential to develop into a leader who guides and inspires
    • The proposed research should be complementary and of added value to the research areas currently represented within the Faculty.

    TERMS & COMPENSATION

    Conditions of Employment:
    The University of Groningen offers a starting salary for the Rosalind Franklin Fellow/assistant professor, dependent on qualifications and relevant work experience, of a minimum of € 3,427 gross per month (salary scale 11 Dutch Universities) up to a maximum of € 5,330 gross per month (salary scale 12) for a full time position.

    The salaries include an 8% holiday allowance, an 8.3% end-of-year bonus and participation in an employee pension scheme. The conditions of employment comply with the Collective Labour Agreement for the University of Groningen.

    The appointment of a Rosalind Franklin Fellow/assistant professor will be on a temporary basis for a maximum of 6 years. After 5 years of employment, there will be an assessment of performance based on established criteria including research and teaching qualifications. If the outcome of the assessment is positive, the assistant professor will be promoted to the rank of associate professor with tenure. At the end of a further 4-7 year period, there will be another assessment aimed at promotion to full professor.

    Please visit our webpage for more information about conditions of employment: www.rug.nl/abou[...]yment

    HOW TO APPLY

    You may apply for this position until 31 January / before 1 February 2017 Dutch local time by means of the application form (click on "Apply" below on the advertisement on the university website).

    Applicants should submit:
    1. A full curriculum vitae including a complete list of publications (file 1)
    2. A letter of motivation (file 2)
    3. A 3-5 page statement of research accomplishments and future research goals (file 3)
    4. A list of five selected `best papers' (preferably including copies) (file 4)
    5. The names and contact information (including email address) of 3 referees (file 5)
    The application files should be sent electronically in PDF format.

    Applications with missing credentials will not be taken into consideration.

    Unsolicited marketing is not appreciated.

    Information:
    For information you can contact:
    • Ms Dr Y.E.F.M. Jeuken, y.e.f.m.jeuken[at]rug.nl (please do not use for applications)
    Additional Information:
    • Please check whether you are eligible to apply by doing the eligibility check
    • Please visit our webpage for more information about conditions of employment

    RESPONSIBILITIES

    Several Ph. D. and Master student fellowship positions in bioinformatics, computational biology and molecular biology are available in the University of Hawaii Cancer Center, Graduate program at the Department of Tropical Medicine, Medical Microbiology and Pharmacology, the University of Hawaii John A. Burns School of Medicine. The students will work on one of the following projects: Integrative analysis of high-throughput "omics" data, including next- (NGS) and third-generation sequencing, genomics, transcriptomics, proteomics, epigenomics, metabolomics and metagenomics data as well as medical record data and identify diagnostic, predictive and prognosis biomarkers for cancer, development of novel methods to process NGS data, and construction of data bases to manage biomedical data. The students who work in the wet lab will mainly discover novel biomarkers utilizing high-throughput "omics methods" such as NGS, proteomics and metabolomics using cancer liquid and tissue samples, validate the findings from bioinformatics application results, and further understand their mechanisms.

    REQUIREMENTS

    The qualified applicants should hold a Bachelor or Master degree in any biology and (or) computer/statistics related majors. For bioinformatics and computational biology program, students with both biology and computer/statistics related backgrounds are preferred, but not required. For molecular biology program, computer/statistics background is not required.

    COMPENSATION

    Tuition will be fully waived and competitive stipend will be offered for good students.

    HOW TO APPLY

    If interested, please send your resume with names of three referees to:

    Youping Deng, PhD
    Professor
    Director of Bioinformatics Core
    University of Hawaii John A. Burns School of Medicine
    Biosciences Building, Suite 325B
    651 Ilalo Street
    Honolulu, Hawaii 96813

    Email: dengy[at]hawaii.edu

    POLICY

    The University of Hawaii is an equal opportunity/affirmative action institution and is committed to a policy of nondiscrimination on the basis of race, sex, gender identity and expression, age, religion, color, national origin, ancestry, citizenship, disability, genetic information, marital status, breastfeeding, income assignment for child support, arrest and court record (except as permissible under State law), sexual orientation, domestic or sexual violence victim status, national guard absence, or status as a covered veteran.

    Employment is contingent on satisfying employment eligibility verification requirements of the Immigration Reform and Control Act of 1986; reference checks of previous employers; and for certain positions, criminal history record checks.

    In accordance with the Jeanne Clery Disclosure of Campus Security Policy and Campus Crime Statistics Act, annual campus crime statistics for the University of Hawaii may be viewed at: ope.ed.gov/security/, or a paper copy may be obtained upon request from the respective UH Campus Security or Administrative Services Office.

     

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