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    BACKGROUND

    We are looking for a highly motivated bioinformatician/research fellow to join the Gastrointestinal Cancer Genetics group, led by Dr. Claire Palles (www.birmingham.ac.uk/staf[...].aspx).

    RESPONSIBILITIES

    This two year position is funded by a project grant from Bowel Cancer UK www.bowelcanceruk.org.uk/rese[...]ects/. The overall aims are to identify the genetic causes of colorectal cancer (CRC) in the under-50s, determine the molecular features of cancers in these patients compared with older patients and stratify patients based on these data to further disease gene discovery and targeted therapy.

    The appointee will primarily be required to analyse data already generated on young patients recruited to a UK research study called CORGI (the identification and characterisation of inherited predispositions to colorectal tumours study) or recruited to studies led by our collaborators. Our dataset represents the largest collection of whole genome sequences from CRC cases diagnosed under age of 50. There will also be the opportunity to perform wet lab experiments limited to DNA extraction from tumour blocks and generation of somatic mutation and DNA methylation data using tumours from patients where we have sequenced the germline. We will compare tumour data to data from the MRC Stratification in Colorectal Cancer project (S-CORT).

    Applicants with bioinformatics experience should include a CV (including full publication list), a cover letter (including research interests and aspirations) and the contact information for two referees.

    The position is financed for 2 years.

    REQUIREMENTS

    Essential qualifications:
    • 2:1 or equivalent science based bachelors with honours degree
    • PhD in a human genetics, cancer biology or other relevant topic
    • Publication in scientific journals, including at least one first or joint first author publication
    Essential experience:
    • Understanding of and experience of basic molecular biology techniques
    • Demonstrable understanding of genetics and aspects of cancer biology
    • Demonstrable ability of being up to date with latest methods and key field advances
    • Contributions to scientific papers and reports
    • Planning research and working effectively to meet deadlines
    • Good oral and written communication and presentation skills
    • Experience in Unix based analysis
    • Knowledge of genetic public datasets
    • Commitment to high standards, including record keeping and laboratory management
    • Ability to work with a high degree of independence, to learn rapidly and to master diverse molecular biology techniques and analysis methods

    TERMS

    Full Time, Fixed Term until July 2020

    LOCALE

    University of Birmingham, Birmingham, UK
    College of Medicine and Dental Sciences
    Institute of Cancer and Genomic Sciences

    COMPENSATION

    Starting salary is normally in the range Full time starting salary is normally in the range £29,799 to £38,832. With potential progression once in post to £41,212 a year.

    HOW TO APPLY

    Please visit atsv7.wcn.co.uk/sear[...]xNw==

    DEADLINE

    13 July 2018

    POLICY

    To download the details of this position and submit an electronic application online please click on the Apply Online button below, please quote the appropriate Job Ref in all enquiries, alternatively information can be obtained from www.hr.bham.ac.uk

    Valuing excellence; sustaining investment

    BACKGROUND

    The Central Biotechnology Services (CBS) are seeking to appoint an individual with proven expertise in bioinformatics to join the College of Biomedical and Life Sciences Core Bioinformatics Team under the line management of the Lead for that function. This is a joint endeavour with Central Biotechnology Services (CBS) which is an ISO 9001:2015 certified Technology Facility that provides genomics and bioinformatics, proteins and diagnostics and cell analysis/imaging platforms, services, training and expertise to local researchers and external organisations.

    RESPONSIBILITIES

    The successful applicant will be responsible for delivering wide-ranging and excellent outputs in bioinformatics for a range of College research groups, for CBS projects and for teaching. The post holder will provide expert professional expertise, project management, extended analyses, Masters Level teaching and short courses in bioinformatics with the teaching and training responsibilities being 0.3 full-time equivalent (FTE).

    Job Purpose:
    To provide expert professional expertise, project management, extended analyses, Masters Level teaching and short courses in bioinformatics.

    Key Duties:
    • Actively contribute to the overall research performance, teaching, training, innovation and engagement activities of the College and inspire others to do the same.
    • Take responsibility for the delivery of critical bioinformatics inputs on a range of research projects in the College evidenced by the production of measurable outputs, including key inputs into grant applications, publishing in leading academic journals, presenting at conferences and contributing to postgraduate research supervision.
    • To be an active member of the College Core Bioinformatics Team and take responsibility for all CBS requirements for internal research and external contract work.
    • Independently contribute to module development as the Module Lead for two core modules in computing and bioinformatics within the Masters Bioinformatics Programme.
    • Deliver teaching for the above modules and use varied approaches for teaching, learning, assessment and feedback to inspire students to fulfil their potential.
    • Actively contribute to other activities required for the effective delivery of the Masters Bioinformatics Programme.
    • Be responsible for co-ordinating and delivering a range of bioinformatics training options for staff and PhD students to enable colleagues to better engage with their data, use specialised software and develop core bioinformatics skills.
    • Achieve an overall 0.3FTE contribution to teaching and teaching management (Centre for Medical Education activity).
    • Effectively deliver on project management tasks associated with the role for the successful planning and organisation of the work and the implementation of procedures required to ensure accurate and timely outputs.
    • Contribute to the establishment of analysis infrastructure within the College, including writing analysis pipelines enabling massively parallel compute.
    • Be closely involved in the drafting of research manuscripts for publication and to take a leading role on data analysis aspects.
    • Develop and maintain research and teaching networks through regularly attending national and international conferences and participating in relevant local meetings and seminars.
    • Develop approaches that enable the efficient processing, analysis, storage, backup and access of data. You will use commercial software and your own pipelines to normalise and analyse data and achieve publication quality data to enable biologically relevant conclusions to be made.
    • Contribute to the strategic development of bioinformatics and genomics and initiatives within the College.
    • Provide bioinformatics advice to staff and students as a key member of the Data Clinic and otherwise as appropriate. This will encompass scientific background, technical and technological considerations, experimental design, troubleshooting and other aspects.

    HOW TO APPLY

    Please visit krb-sjobs.brassring.com/TGne[...]_5460

    DEADLINE

    30 June 2018

    BACKGROUND

    The Tufts Medical Center (TMC) and the Clinical and Translational Sciences Institute (CTSI) seek a senior Software Architect (SA) for a new scientific software development initiative. The SA will develop architecture-level documentation for complex issues in analytics, informatics, big data management and workflow control.

    RESPONSIBILITIES

    • Utilize best practices and methodologies to create visual and narrative representation of proposed system functionality and its UI/UX.
    • Develop product specifications using design patterns, UML and other modeling methods to document system, tool, and library integration and feasibility.

    REQUIREMENTS

    • BS/MS/PhD in Computer or Information Science
    • 5 years proven experience as a Software Architect
    • Good knowledge of design patterns, UML and other modeling methods
    • Experience supporting at least one full application design
    • Experience in at least one software development stack
    • Basic understanding of big data technologies and trends
    • Basic understanding of UI/UX design concepts
    • Basic understanding of software quality assurance principles
    • Ability and experience as a short-term independent contractor with own resources

    TERMS

    At the end of the project, Contractor will have delivered the following to Tufts CTSI:
    1. Software UI/UX storyboards
    2. Software architecture documents

    Services shall commence on July 1, 2018 and shall be completed no later than December 30, 2018.

    COMPENSATION

    Total hours not-to-exceed 750 for engagement unless increased by mutual agreement. Payments will be for time and materials, only.

    Invoices will be submitted on a monthly basis. Payment will be issued between 45 and 60 days of submission of invoice, the Tufts Medical Center standard accounts payable period.

    HOW TO APPLY

    I. Responses to this opportunity should be addressed to William Harvey, MD, MSc, FACR, Director of Clinical Informatics Integration, and sent via email to cgarabedian1[at]tuftsmedicalcenter.org.
    II. Include the following with your response
    a. Detailed description of services to be provided
    b. Hourly rate on a time and materials basis
    c. Brief biography and or Curriculum Vitae
    d. References

    POLICY

    If selected for this opportunity, contractor will sign a standard Tufts Medical Center consulting agreement and a Business Associate Agreement.

    BACKGROUND

    The Tufts Medical Center (TMC) and the Clinical and Translational Sciences Institute (CTSI) is seeking to engage a Computational Biologist (CB) for a new scientific software development initiative. The CB will assess, recommend and document bioinformatics and pathway analytics workflows.

    RESPONSIBILITIES

    Utilize best practices and methodologies to assess bioinformatics use cases and create visual and narrative representations of pathway analytics workflows.

    REQUIREMENTS

    • PhD in Bioinformatics or Cheminformatics
    • 5 years proven experience as a Bioinformaticist and/or Computational Biologist
    • Deep knowledge of biomarker discovery and drug development activities using pathway concepts and omic datasets
    • Advanced knowledge of pathway analytics computational tools and methods
    • Advanced knowledge of pathway analytics representational standards and methods including BioPax and related ontologies, nomenclatures and metadata concepts
    • Must have strong communication and time management skills
    • Ability to ensure high-quality on-time delivery of system documents and deliverables
    • Ability and experience as a short-term independent contractor with own resources

    TERMS

    At the end of the project, Contractor will have delivered the following to Tufts CTSI:
    1. Pathway analytic workflows and supporting documentation

    Services shall commence on July 1, 2018 and shall be completed no later than December 30, 2018.

    COMPENSATION

    Total hours not-to-exceed 250 for engagement unless increased by mutual agreement. Payments will be for time and materials, only.

    Invoices will be submitted on a monthly basis. Payment will be issued between 45 and 60 days of submission of invoice, the Tufts Medical Center standard accounts payable period.

    HOW TO APPLY

    I. Responses to this opportunity should be addressed to William Harvey, MD, MSc, FACR, Director of Clinical Informatics Integration, and sent via email to cgarabedian1[at]tuftsmedicalcenter.org.
    II. Include the following with your response
    a. Detailed description of services to be provided
    b. Hourly rate on a time and materials basis
    c. Brief biography and or Curriculum Vitae
    d. References

    POLICY

    If selected for this opportunity, contractor will sign a standard Tufts Medical Center consulting agreement and a Business Associate Agreement.

    BACKGROUND

    Research Analytics is a global team of computational scientists, operating across six R&D sites within the Celgene Research and Early Development division. We pursue innovative computational research towards Celgene objectives, across domains ranging from bioinformatics, computational biology to machine learning, systems biology and mathematical modeling.

    Current areas of investigation include application and development of novel computational approaches to unravel the mechanism of action of Celgene's pipeline compounds and identify therapeutic targets, methods for integrative analysis of omics data, predictive approaches to patient stratification, and mathematical models of intra- and inter-cellular processes. In addition, we are involved in a range of academic collaborations aimed at understanding disease at molecular and systems level.

    To join our team at the Celgene Institute for Translational Research Europe (CITRE) in Seville, Spain, we are looking for a Research Scientist, Computational Biology & Epigenetics. The successful candidate will work closely with Celgene's global Research Analytics and Epigenetic Biology teams to advance our research and development of novel therapeutic agents related to epigenetic mechanisms. Also, we encourage our scientists to identify and explore innovative ways for computational research to impact projects and guide Celgene decision making.

    The position presents a unique opportunity to experience research in an industry setting and to contribute to helping patients with unmet medical need, while maintaining a link to academic research (publication is encouraged).

    RESPONSIBILITIES

    Responsibilities include, but are not limited to:
    • Performing computational biology analysis for exploration and interpretation of high-throughput data, including NGS
    • Developing and implementing state-of-the-art approaches for integration of multiple genomic data types to produce a robust understanding of disease, and help identification of therapeutic targets
    • Contributing to experimental design, planning and prioritization in multi-disciplinary teams
    • Presentation and reporting of methods, results and conclusions to a publishable standard
    • Participating in wider group endeavors concerning the elucidation of disease biology, compound mechanisms of action, drug resistance and prediction of target indications.

    REQUIREMENTS

    • PhD in computational biology / bioinformatics, statistics, computer science or related fields, from a recognized higher-education establishment
    • Prior experience (3+ years) of analysis, integration and interpretation of epigenomic and other high-throughput data (e.g. Histone & TF ChIP, DNA methylation, chromatin accessibility & conformation, proteomics and expression data), supported by high-quality publications
    • Expertise in Linux, statistical programming and data manipulation, using e.g. R/Bioconductor, Matlab, Python, plus good knowledge of contemporary database structures
    • Experience with version control and high-performance computing, including cloud computing and/or big data analytics platforms would be advantageous
    • Collaborative spirit, proven ability to contribute beyond personal projects
    • Ability to understand and communicate the output of computational research to multi-disciplinary scientific teams
    • Verbal and written English language fluency. Proficiency in Spanish would be advantageous

    TERMS

    The position advertised is fixed-term (24 months) and based in Seville, Spain, reporting to the Sr. Principal Scientist, Research Analytics at CITRE.

    HOW TO APPLY

    Those interested in the position described should submit full CV and cover letter addressed to Virginia Garcia (vgarcia[at]celgene.com).

    BACKGROUND

    The Wellcome Sanger Institute is seeking for a highly motivated researcher with strong skills in computational functional genomics to fill a postdoctoral fellow position, in collaboration with Open Targets. The aim of the fellow is to develop new algorithms and computational tools for the analysis of large-scale cancer pharmacogenomics and functional-genomics datasets to identify new oncology therapeutic targets and markers of gene-essentiality/drug-response.

    Postdoctoral Fellows are typically in their first or second postdoctoral position as part of a period of early career research training. The Cancer Dependency Map is a collaborative initiative involving the Wellcome Sanger Institute and the Broad Institute of Harvard and MIT. By leveraging the expertise and infrastructure available at both organisations, we aim to identify genetic dependencies and vulnerabilities that could be exploited therapeutically in every cancer cell, to advance personalized cancer treatments. Open Targets is a pioneering public-private partnership between Biogen, Celgene, EMBL-EBI, GlaxoSmithKline (GSK), Takeda, and the Wellcome Sanger Institute and is located on the Wellcome Genome Campus in Hinxton, near Cambridge, UK. Open Targets brings together expertise from six complementary institutions to systematically identify and prioritise targets from which safe and effective medicines can be developed, to help others find good targets, and to get those targets adopted into drug discovery pipelines. We currently focus on oncology, immunology and neurodegeneration through an R&D framework that can be applied to all aspects of human disease. We believe that evidence generated in the most human relevant systems showing which targets are causing disease will have a significant impact on the successful development of new medicines. To build a good therapeutic hypothesis we need to find not only which targets are involved, but also how we might alter complex disease mechanisms.

    RESPONSIBILITIES

    To achieve this, the successful candidate will design methods to transform raw data into interpretable and predictive models via systematic statistical inference and unsupervised machine learning. This will encompass integrating data generated in house from large scale in-vitro drug/genome-editing screens with the multi-modal characterization of the underlying models and that of cancer patients (from publicly available resources) in order to: (i) optimize/identify the most clinically relevant molecular determinants of gene-essentiality/drug-response; (ii) prioritize potential new targets/therapeutic-markers on the basis of unmeet clinical needs and translational potential.

    The selected candidate will join the Cancer Dependency Map Analytics team and will actively interact with the international Cancer Dependency Map consortium, whose goal is to identify vulnerabilities and dependencies that could be exploited therapeutically in every cancer cell to advance personalized cancer treatments. The groups involved in this initiative have already characterized up to 1,000 cancer cell lines using high throughput genomic, transcriptomic, and proteomic techniques, as well as applied large scale drug panels to assess cell-line specific sensitivities. Work is currently ongoing to identify genes that inhibit cell growth when knocked out using CRISPR/Cas9 – these could then be used as targets for therapies.

    The successful candidate will perform original research to globally advance the state of the field with novel methods, data resources and results (applying methods and models to uncover new insight into cancer dependencies).

    This position offers the opportunity to work at one of the world's leading genomic centres at the forefront of genomic research. The successful candidate will have access to Sanger's computational resources, including a 15000+ core computational cluster, the largest in life science research in Europe, and multiple petabytes of high-speed cluster file systems.

    We are part of a dynamic and collaborative environment at the Genome Campus and, although we seek someone who can work independently, the selected candidate will have the opportunity to interact with researchers across many Programmes at the Institute.

    This PDF post is currently being advertised alongside a Postdoctoral Fellow – Modeling Gene Essentiality in Cancer (ref 83076) in Cellular Genetics

    REQUIREMENTS

    • Motivation to understand what makes a gene a good therapeutic target in cancer, interest in science, ability to get things done
    • PhD in a relevant subject area (Physics, Mathematics, Computer Science, Engineering, Statistics, Computational Biology, Bioinformatics, Molecular Biology)
    • Ability to devise novel computational methods
    • Basic knowledge of statistics, combinatorics
    • Full working proficiency in a scripting language (e.g. R, Python, Perl), and UNIX/Linux
    • Ability to work independently, organise workload, and communicate ideas and results
    • Strong publishing record

    PREFERENCES

    • Basic Knowledge of genomics, molecular biology, and cancer genetics
    • Basic Knowledge of machine learning, information theory
    • Previous experience with genetic screens
    • Previous experience with high throughput biological assay analysis
    • Previous experience in creating finished software
    • Full working proficiency in a compiled language (e.g. C, C++, D, Julia, Fortran)
    • Previous experience with implementing--omics data analysis pipelines on a cluster
    • Proven independent working style, problem solving, data analysis and generation of novel ideas

    TERMS

    Fixed term for 3 years

    LOCALE

    Cambridge, Hinxton

    Our Campus: Set over 125 acres, the stunning and dynamic Wellcome Genome Campus is the biggest aggregate concentration of people in the world working on the common theme of Genomes and BioData. It brings together a diverse and exceptional scientific community, committed to delivering life-changing science with the reach, scale and imagination to pursue some of humanity's greatest challenges.

    COMPENSATION

    Salary £31,503 to £39,492 (dependant on experience) plus excellent benefits

    Our Benefits: Our employees have access to a comprehensive range of benefits and facilities including:
    • Group Defined Contribution Pension Scheme and Life Assurance
    • Group Income Protection
    • Private Health Insurance
    • 25 days annual leave, increasing by one day a year to a maximum of 30
    • Family friendly environment including options for flexible and part-time working, a childcare voucher scheme, Campus Nursery and Summer holiday club
    • Two days paid Employee Volunteering Leave a year
    • Employee Discount Scheme
    • Campus Gym, tennis courts, cricket pitch and sports hall plus a range of dining facilities
    • Active Campus Sports and Social Club
    • Free Campus Bus Service

    HOW TO APPLY

    Clicking on the following link: jobs.sanger.ac.uk/wd/p[...]9705#

    DEADLINE

    Please include a covering letter and CV with your application. Closing date for applications: 24th June 2018.

    POLICY

    Genome Research Limited is an Equal Opportunity employer. As part of our commitment to equality, diversity and inclusion and promoting equality in careers in science, we hold an Athena SWAN Bronze Award and have an active Equality, Diversity and Inclusion programme of activity. We will consider all applicants without discrimination on grounds of disability, sexual orientation, pregnancy or maternity leave status, race or national or ethnic origin, age, religion or belief, gender identity or re-assignment, marital or civil partnership status, protected veteran status (if applicable) or any other characteristic protected by law. We are open to a range of flexible working options including part-time or full-time employment as well as flexible hours due to caring or other commitments.

    BACKGROUND

    Applications are sought for a senior Data Scientist/Bioinformatician to join an international translational research programme in skin ageing using an integrated Omics-Environment-Lifestyle approach. The post will be based in the Bioinformatics Unit, Centre of Molecular Oncology, Barts Cancer Institute, within the Barts and The London School of Medicine and Dentistry, Queen Mary University of London. This project is in close collaboration with Chanel Beauty, Research and Innovation in France and the University of Kyoto in Japan.

    RESPONSIBILITIES

    The successful applicant for this post will analyse a unique cohort with over 20 years follow-up to translate data into actionable knowledge about skin aging. The successful candidate will build a health informatics/bioinformatics platform to enable -omics data analysis and integration with clinical attributes, behavioural medicine and epidemiology data. The proposed health informatics/bioinformatics platform could be the basis of a future model for community-based health promotion and monitoring.

    REQUIREMENTS

    Essential requirements for this post include a MSc and PhD degree in Computer Science/Data Science/Computational Biology/Bioinformatics or a relevant discipline, and substantial experience in relational database design and implementation. The successful applicant also needs to be proficient in -omics data analysis (at least three years' experience in GWAS and/or NGS) as well as web application development. Experience of data management within a health environment and knowledge on contemporary data science technologies are desirable. Knowledge of French and Japanese languages will be an advantage. Programmatically this post requires expertise in relational database management systems including MySQL, scripting language including Perl, Python and R, and database-oriented web application development technologies. Experience of additional languages, e.g. Java or C, would be highly desirable. Familiarity with Linux network/server administration will be an advantage. Knowledge of Research Governance, data Protection Act and Good Clinical Practice is highly desirable. The post-holder will be required to work flexibly with various members in the Bioinformatics team at the collaborating teams in Paris and Kyoto. A demonstrated ability to communicate well and working within a team are therefore essential.

    TERMS

    The post is a fulltime, fixed-term position for 2 years.

    COMPENSATION

    Starting salary will be in the Grade 6 range £45,577 - £50,881 per annum dependent on experience and inclusive of London Allowance (Grade 6). Benefits include 30 days annual leave, a defined benefit pension scheme and an interest free season ticket loan.

    HOW TO APPLY

    To apply, please visit the Human Resources website on www.hr.qmul.ac.uk/vacancies and search for reference QMUL15054 or go directly to webapps2.is.qmul.ac.uk/jobs[...]15054

    Informal enquiries about this post, including arrangements to visit the Institute/Centre, can be made to Professor Claude Chelala (c.chelala[at]qmul.ac.uk).

    Details about Barts Cancer Institute can be found at www.bci.qmul.ac.uk.

    Application enquiries can be directed to p.charles[at]qmul.ac.uk

    Reference: QMUL15054

    DEADLINE

    The closing date is 15 June 2018 and interviews are likely to be held shortly thereafter.

    POLICY

    Valuing Diversity & Committed to Equality

    The Barts Cancer Institute requires that applicants invited for interview will need to provide all certificates to confirm their qualifications (specified in the Job Description).

    Candidates must be able to demonstrate their eligibility to work in the UK in accordance with the Immigration, Asylum and Nationality Act 2006. Where required this may include entry clearance or continued leave to remain under the Points Based Immigration Scheme.

    BACKGROUND

    The Molecular Oncology Initiative (MOI) is a part of the larger precision medicine strategic plan for the University of California San Francisco. The overall goal of the MOI is to facilitate and promote the use of genomic testing to advance precision treatment of adult and pediatric malignancies treated at UCSF. The Professional Researcher for the UCSF HDFCCC (Helen Diller Family Comprehensive Cancer Center) MOI will be responsible for hands-on management of data associated with the initiative as well as managing all programmatic aspects of the initiative. The data in question is primarily related to the results of genomic analysis and the associated patient clinical data. A key aspect of the MOI is to organize weekly or bi-weekly molecular tumor boards which are attended by clinicians, pathologists and staff and where individual patients are discussed in the context of molecular testing results. The role of Professional Researcher is a unique opportunity to play an integral role in the implementation and optimization of an NGS-based, large gene panel molecular diagnostic assay in the clinic, as well as facilitate molecular oncology research and innovation on the genomic and clinical datasets generated by this assay.

    RESPONSIBILITIES

    • Collaborate with PIs at the cancer center to perform data analysis with the goal of publishing manuscripts related to genomic testing (UCSF500 and other assays)
    • Develop new tools for integration of genomic testing with data extracted from the EMR
    • Work with other PIs to evaluate possible new assays to be added to the UCSF500 as part of UCSF's expanding efforts in precision medicine. Will involve independent research and ability to evaluate emerging literature critically.
    • Facilitate the curation, integration, management, and sharing of genomic and clinical data (and associated IRB-approved protocols and registries) associated with the UCSF500 molecular diagnostic panel.
    • Manage UCSF's participation in genomic/clinical data sharing initiatives including AACR Project GENIE.
    • In collaboration with the Clinical Cancer Genetics Lab and meeting coordinator, run the bi-weekly UCSF Molecular Tumor Board, including setting and communicating the agenda, handling meeting logistics, transcription and curation of molecular tumor board recommendations.
    • Plan and facilitate monthly Molecular Oncology Initiative Steering Committee meetings, including setting agenda, presenting program updates, transcribing meeting minutes, and sending follow-up action items.
    • Facilitate ongoing, and identify new collaboration opportunities both within UCSF (e.g. ICHS) and with external partners.
    • In collaboration with key stakeholders, identify and facilitate funding opportunities for the initiative.
    • Represent the Molecular Oncology Initiative as needed (e.g. at monthly Precision Medicine Initiative Committee meetings).

    REQUIREMENTS

    • M.D., Ph.D., or equivalent degree in molecular oncology, cancer genomics, or related field
    • 4+ years of experience related to cancer genomics in a clinical or research setting
    • Experience with project management, grant writing, and manuscript preparation
    • Significant initiative and motivation with the ability to work independently
    • Demonstrated ability to perform independent research
    • Demonstrated ability to critically evaluate emerging literature
    • Strong verbal and written communication skills
    • Excellent people and management skills to interact with colleagues, collaborators, and key stakeholders in the initiative
    • Proficiency in PowerPoint, Excel, Word

    LOCALE

    San Francisco – UCSF Mission Bay

    HOW TO APPLY

    Please apply online at aprecruit.ucsf.edu/apply/JPF01954.

    DEADLINE

    Initial review date June 22, 2018

    POLICY

    UC San Francisco seeks candidates whose experience, teaching, research, or community service has prepared them to contribute to our commitment to diversity and excellence. The University of California is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age or protected veteran status.

    BACKGROUND

    The Molecular Oncology Initiative (MOI) is a part of the larger precision medicine strategic plan for the University of California San Francisco. The overall goal of the MOI is to facilitate and promote the use of genomic testing to advance precision treatment of adult and pediatric malignancies treated at UCSF. The Program Manager for the UCSF HDFCCC (Helen Diller Family Comprehensive Cancer Center) MOI will be responsible for hands-on management of data associated with the initiative as well as managing all programmatic aspects of the initiative. The data in question is primarily related to the results of genomic analysis and the associated patient clinical data. A key aspect of the MOI is to organize weekly or bi-weekly molecular tumor boards which are attended by clinicians, pathologists and staff and where individual patients are discussed in the context of molecular testing results. The role of Project Manager is a unique opportunity to play an integral role in the implementation and optimization of an NGS-based, large gene panel molecular diagnostic assay in the clinic, as well as facilitate molecular oncology research and innovation on the genomic and clinical datasets generated by this assay.

    RESPONSIBILITIES

    • Facilitate the curation, integration, management, and sharing of genomic and clinical data (and associated IRB-approved protocols and registries) associated with the UCSF500 molecular diagnostic panel.
    • Manage UCSF's participation in genomic/clinical data sharing initiatives including AACR Project GENIE.
    • In collaboration with the Clinical Cancer Genetics Lab and meeting coordinator, run the bi-weekly UCSF Molecular Tumor Board, including setting and communicating the agenda, handling meeting logistics, transcription and curation of molecular tumor board recommendations.
    • Plan and facilitate monthly Molecular Oncology Initiative Steering Committee meetings, including setting agenda, presenting program updates, transcribing meeting minutes, and sending follow-up action items.
    • Facilitate ongoing, and identify new collaboration opportunities both within UCSF (e.g. ICHS) and with external partners.
    • In collaboration with key stakeholders, identify and facilitate funding opportunities for the initiative.
    • Represent the Molecular Oncology Initiative as needed (e.g. at monthly Precision Medicine Initiative Committee meetings).

    REQUIREMENTS

    • M.D., Ph.D., or equivalent degree in molecular oncology, cancer genomics, or related field
    • 4+ years of experience related cancer genomics in a clinical or research setting
    • Experience with project management, grant writing, and manuscript preparation
    • Significant initiative and motivation with the ability to work independently
    • Strong verbal and written communication skills
    • Excellent people and management skills to interact with colleagues, collaborators, and key stakeholders in the initiative
    • Proficiency in PowerPoint, Excel, Word

    LOCALE

    UCSF - Mission Bay Campus

    HOW TO APPLY

    Please apply online at aprecruit.ucsf.edu/apply/JPF01953.

    DEADLINE

    Initial review date June 22, 2018

    POLICY

    UC San Francisco seeks candidates whose experience, teaching, research, or community service has prepared them to contribute to our commitment to diversity and excellence. The University of California is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age or protected veteran status.
    Opportunity: Python Developer @ Genomics England -- London, UK
    Submitted by Eugene Mc Daid; posted on Friday, June 01, 2018

    Submitter

    BACKGROUND

    Genomics/Bioinformatics – Central London – Permanent!

    Paramount are working in partnership with Genomics England to expand their team in order to deliver success with the 100,000 Genomes Project. This is a challenging and fast moving project with the aim to carry out whole genome sequencing on 100,000 participants.

    Currently the team are looking for a talented Python Developer who will be responsible for developing and maintaining software systems for the quality control, processing and interpretation of genetic data. This role would suit a Software Developer with strong Python skills from a commercial background who has an interest in getting involved in Genomics and Bioinformatics. No previous Genomics and Bioinformatics experience is needed!

    RESPONSIBILITIES

    Your main responsibilities as a Python Developer will involve:
    • Developing and operating computational pipelines, working on complex projects and custom tasks that span a wide variety of analysis problems
    • Developing and applying state-of-the-art approaches to 100,000 whole genome sequencing in the areas of QA, WGS analysis in cancer and rare diseases, sequence alignment/variant calling
    • Assisting with deploying, maintaining and troubleshooting computational pipelines for WGS processing and analysis
    • Liaising with internal colleagues as needed to ensure provision and smooth running of computational pipelines for data processing and analysis

    REQUIREMENTS

    The ideal Python Developer should meet the following requirements:
    • Educated at degree level in computer science of software engineering
    • 2-3 years' experience in a Python Software engineering environment (commercial) with designing and developing systems interconnected with APIs (REST, RPC)
    • Strong skills in Python and ideally Bash and Java
    • Experience with databases such as Postgres, SQLAlchemy, Mongodb in end-to-end software life cycle
    • Proficiency in collaborative development tools such as Github, Confluence and JIRA

    ABOUT US

    Genomics England works with key partners to collect, transport, store, quality check and sequence the samples from participants. The aim for this project is to create a new genomic medicine service for the NHS – transforming the way people are cared for. Patients may be offered a diagnosis where there wasn't one before. In time, there is the potential of new and more effective treatments. You will be working as part of a team of 4 people, and will contribute to the largest national Genome sequencing effort of its kind.

    HOW TO APPLY

    If you're interested in learning more and applying for this position, please contact Anna on +44 (0) 121 616 3469 with a cover letter and up-to-date CV. I'd be happy to discuss the details with you.
    Look forward to hearing from you.

    Keywords: Python Developer, Python, Software Engineer, Python Engineer, Java, C++, Perl, pipelines, NGS, WGS, API, REST, RPC, Bioinformatics, commercial, Django, Postgres, SQL, Mongodb, Github, JIRA, Rabbit MQ, Confluence, Docker, Genomics, UK, London, United Kingdom

    Submitter

    BACKGROUND

    100,000 Genomes Project – Bioinformatics – Cambridge!

    Paramount are working in partnership with Genomics England to expand their team in order to deliver success with the 100,000 Genomes Project. This is a challenging and fast moving project with the aim to carry out whole genome sequencing on 100,000 participants.

    A fantastic new opportunity has become available for a Bioinformatician to join their offices in Hinxton to support the R&D lab with development and demonstration activities of Genomics England through the comprehensive analysis of large sequence data sets from a variety of platforms.

    RESPONSIBILITIES

    Your main responsibilities as a Bioinformatician will be:
    • Performing computational analyses for a range of D & D projects
    • Comparing tools and pipelines for NGS analysis
    • Informing on the design and implementation of new features for sequencing data analysis

    REQUIREMENTS

    The ideal Bioinformatician should meet the following requirements:
    • MSc or PhD in Bioinformatics or related discipline
    • Solid skills set in Bioinformatics and experience of working as a Computational Biologist
    • Practical knowledge of NGS algorithms and available resources for cancer bioinformatics
    • Experience of comparing NGS data sets
    • Strong programming skills (Python, R)
    • Basic statistical skills

    COMPENSATION

    You'll be able to work in their office in Cambridge and in return you will receive competitive salary and have the opportunity to work within a successful company in a fantastic location.

    ABOUT US

    Genomics England works with key partners to collect, transport, store, quality check and sequence the samples from participants. The aim for this project is to create a new genomic medicine service for the NHS – transforming the way people are cared for. Patients may be offered a diagnosis where there wasn't one before. In time, there is the potential of new and more effective treatments.

    HOW TO APPLY

    If you'd like to know more and are interested in applying, please contact Anna on alauterjung[at]pararecruit.com or +44 (0) 121 616 3469 with an up-to-date CV. Look forward to hearing from you!

    Keywords: Bioinformatician, Computational Biologist, Bioinformatics, Pipeline, Software, Python, Coding, Linux, Git, Postgres, MongoDB, NGS, WGS, Whole genome sequencing, PhD, MSc, variant calling, Postdoc, Database, UK, London

    RESPONSIBILITIES

    The Bioinformatician works with internal and external collaborators to analyze and interpret high-throughput experiments including microarrays, mRNA-seq, microRNA-seq, DNA-seq and functional validation experiments. The Bioinformatician responsibilities will include statistical design of experiments, analysis and reporting, and assembly of figures for manuscript preparation. You will be part of a highly motivated, multi-disciplinary team all driven by a passion to improve our understanding of the molecular mechanisms that drive complex, chronic diseases and response to treatment.

    REQUIREMENTS

    Qualifications:
    • (Experience) 3 to 5 years of related experience post-graduation required
    • (Education/Licensing) Ph.D. in Bioinformatics/Statistics/Math or related field
    Required Knowledge, Skills And Abilities:
    1. Work experience in at least one scripting language such as R or Python
    2. Work experience with Linux, shell scripting and HPC environment
    3. Previous experience in the field of immunology is a plus
    4. Ability to work effectively independently and collaboratively within a team. Must be highly motivated, responsible, dependable and a self-starter. Must demonstrate a strong desire to learn and to advance research.
    5. Professional and effective oral and written communication skills; and good interpersonal skills with the ability to work and communicate with various individuals within and external to the University. Must be able to clearly relay information to the PI and other researchers and prepare written documents for grant submissions, manuscripts, publications, etc. as needed.
    6. Strong organization skills; ability to multi-task, prioritize and meet deadlines. Must demonstrate attention to detail and accuracy, time management skills, and follow-through.
    7. Must demonstrate flexibility and ability to work under pressure; must be able and willing to conform to shifting priorities, demands and timeline.

    HOW TO APPLY

    Qualified applicants should send their CV to Slim Fourati at slim.fourati[at]case.edu

    Further details: case.edu/acad[...]ology

    POLICY

    In employment, as in education, Case Western Reserve University is committed to Equal Opportunity and Diversity. Women, veterans, members of underrepresented minority groups, and individuals with disabilities are encouraged to apply.

    RESPONSIBILITIES

    The major focus of our group is on integrating multi-dimensional biological data into computer-aided drug design. We are seeking a postdoctoral fellow who will study drug-oriented interactomes by combining high-level "omics" data, such as genomics, transcriptomics, proteomics, metabolomics, glycomics, and genome-wide association studies with molecular and atomic-level modeling of medically relevant biomolecules and interactions among them. The main goals are to support the development of novel and safe pharmaceuticals with the enhanced selectivity profiles, and to expand the current opportunity space for polypharmacology.

    Job Duties:
    75% Pursue an independent research project to investigate drug-oriented interactomes by combining high-level "omics" data with molecular and atomic-level modeling and machine learning.
    15% Assist with training and supervision of graduate and undergraduate students.
    10% Assist with general lab maintenance (software packages, websites, webservers, publicly available datasets, etc.)

    REQUIREMENTS

    PhD in (Computational) Biology/Chemistry/Biochemistry, Genomics/Genetics, Computer Science, Bioinformatics or related field; or Ph.D. and one year post-doctoral experience in a computational biology, genomics, biophysics or bioinformatics laboratory. Three years' experience in the development of scientific codes for genomics and/or computational biology, working with high-throughput biological data (RNA-seq, ChIP-seq, CLIP-seq, microarray, GWAS/SNP-chip, Hi-C, Y2H, phage display, etc.), machine learning including deep learning and data mining.

    COMPENSATION

    Benefits – LSU offers outstanding benefits to eligible employees and their dependents including health, life, dental, and vision insurance; flexible spending accounts; retirement options; annual and sick leave; 14 paid holidays; wellness benefits; tuition exemption; training and development opportunities; employee discounts and more!

    HOW TO APPLY

    Questions or concerns can be directed to the LSU Human Resources Management Office at 225-578-8200 or emailed HR[at]lsu.edu.

    Quick link at ad URL: lsu.wd1.myworkdayjobs.com/LSU/[...]23433

    POLICY

    LSU is committed to diversity and is an equal opportunity/equal access employer.

    Background Check – An offer of employment is contingent on a satisfactory pre-employment background check.

    BACKGROUND

    Intomics, located in Copenhagen, is a leading company in discovering biology and disease mechanisms from biomedical big data. Through innovative, integrative analyses and network biology approaches, Intomics helps clients in the pharmaceutical industry develop tomorrow's medicines better, faster, and cheaper. Intomics is growing, and we are therefore expanding our team of project managers.

    RESPONSIBILITIES

    • As Senior Bioinformatics Project Manager, you will help to bridge Intomics' commercial relationships with its scientific approaches. You will be working closely with our sales department, be responsible for the scientific projects that you are handling with our clients, and be managing a small team of bioinformatics experts.
    • Your responsibilities will include to scope, manage and coordinate projects, set the team for each project, as well as to be a central point of contact between clients and our in-house team of bioinformatics experts. An important aspect is to facilitate clear communication between people with very different backgrounds (biologists, clinical researchers, bio-statisticians, R&D management, etc.) and our highly specialized team of experts.
    • You will be reporting to the Head of Bioinformatics, and there will be some traveling activities (20-30 days annually).

    REQUIREMENTS

    You have a Ph.D. in bioinformatics or similar, relevant scientific field and 5+ years of experience in managing bioinformatics projects. Previous experience with network biology is preferred, and a solid understanding of the biological insights that bioinformatics and systems biology approaches can reveal is essential. Hands-on experience with bioinformatics, programming, and an in-depth knowledge of molecular biology will be a plus, but we don't expect you to cover all areas of expertise.

    PREFERENCES

    The preferred candidate possesses the following qualities:
    • Strong project management and communication skills
    • Proven experience with network biology and/or large-scale data analysis
    • Experience with managing projects in an industry setting
    • Positive, committed and energetic
    • Able to work efficiently in a busy, dynamic and global environment
    • Able to communicate in English at a high level, both orally and in writing

    COMPENSATION

    The salary package will reflect the skill level and experience of the right candidate.

    TERMS

    Full-time

    LOCALE

    Copenhagen, Denmark

    HOW TO APPLY

    Please send your motivated application, CV and references (in pdf-format) to applications[at]intomics.com with "Application-8812 Senior bioinformatics project manager" in the subject field no later than June 29th, 2018. Applications will be considered on a continuous basis.

    All relevant interested candidates irrespective of age, gender, race or religion are encouraged to apply.

    Enquiries about the position can be made to the CEO, Thomas S. Jensen, tel: +45 88807979.

    Read more at www.intomics.com

    DESCRIPTION

    The Max Planck Institute for the Physics of Complex Systems (MPI-PKS) and the Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG) in Dresden invite applications for a

    Max Planck Research Group Leader (W2)
    on
    Systems Biology of Organoid Self-organisation at the Center for Systems Biology Dresden

    Recent advances in biology allow the in vitro differentiation of stem cells into organ-like tissues which provide model systems for the formation of organs such as brains, liver, and pancreas. Such systems open new opportunities to unravel the physical laws of collective cell behaviour and provoke novel theories about how cells form tissues. We will establish a Max Planck Research Group at the Center for Systems Biology Dresden that develops theoretical and computational approaches to investigate how organ-like morphologies and function emerge from the properties and interactions of many cells.

    Specific examples of theoretical or computational research questions include:
    • How do precise gene expression patterns arise robustly from heterogeneous stem cell populations?
    • How do cells communicate and make decisions during organoid formation?
    • How does shape emerge by mechano-chemical processes?
    • How do networks for transport and secretion form and what determines their geometry?
    We seek outstanding scientists early in their career with a strong track record in the theoretical study of cells and tissues and the motivation to establish a Max-Planck Research group at the Center for Systems Biology Dresden. Funds for postdocs and PhD students will be available and office space will be provided. Successful candidates will develop an independent research program in an interactive and cross-disciplinary environment. Cutting-edge projects that cross discipline boundaries are encouraged. The Center for Systems Biology Dresden, the MPI-PKS and the MPI-CBG provide a collaborative research environment with the aim to understand how cells form tissues.

    TERMS

    The initial appointment of the group leader is for 5 years with the possibility of extension after international review.

    COMPENSATION

    The salary is based on remuneration group W2 Federal Civil Service Remuneration Act.

    HOW TO APPLY

    Applications should include:
    • A cover letter explaining your motivation to apply for this position
    • A Curriculum Vitae including publication list
    • A statement of scientific achievements
    • A two page summary of your future research plans
    • Up to three of your most important papers
    Application documents should be merged into a single pdf and sent electronically to mprgl-organoid[at]pks.mpg.de. Please also arrange for three academic references to be sent to the same email address.

    Alternatively, the documents can also be sent through ordinary mail to:

    Max Planck Institute for the Physics of Complex Systems
    Visitors Program MPRGL-organoid
    Nöthnitzer Str. 38, 01187 Dresden, Germany

    DEADLINE

    The deadline for applications including references is August 1, 2018.

    Successful applicants should be prepared to join a selection symposium held in Dresden, Germany on October 5, 2018.

    Scientific inquiries can be sent to Frank Jülicher (julicher[at]pks.mpg.de) or Gene Myers (myers[at]mpi-cbg.de). For further information about the Center for Systems Biology Dresden and the Institutes see www.csbdresden.de, www.pks.mpg.de, www.mpi-cbg.de.

    POLICY

    The Max-Planck Society is committed to increasing the number of individuals with disabilities in its workforce and therefore encourages applications from such qualified individuals. Furthermore, the Max Planck Society seeks to increase the number of women in those areas where they are underrepresented and therefore explicitly encourages women to apply.
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