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About the role We have an exciting opportunity to join the Rare Genetic Disorders Research Group led by Prof. Stephan Sanders in the Department of Paediatrics at the University of Oxford as a Data Manager. The group aims to identify, understand, and develop therapies for rare genetic disorders. The group is primarily computational but partners with multiple international labs (including Harvard, Yale, UC San Francisco [UCSF], and the New York Genome Center) to co-design experiments and generate novel datasets, including exome/genome sequencing of hundreds of thousands of individuals, large-scale single-cell data from primary human tissues, spatial transcriptomic data, and experimental genomic screens. The Data Manager’s role will be to organize and facilitate access to the group’s data and software resources, working closely with all members of the group and our external collaborators. These data are stored on a mixture of cloud platforms (e.g., AWS), local high-performance clusters, and protected research environments (e.g., Genomic England). You will report to Stephan Sanders and join a team of three postdocs/staff scientists, three PhD students, and three research assistants hosted at the sites at Oxford and UCSF. You will be expected to provide guidance and assistance to researchers and students in the group and help in the preparation of scientific publications and presentations. You will be working in a growing department within the Medical Sciences Division. The Department of Paediatrics is a world leader in child health research and hosts internationally renowned research programmes in neurological diseases, drug development, haematology, and immunology, neuroimaging. The group led by Prof. Stephan Sanders is based in the recently formed Institute of Developmental and Regenerative Medicine (IDRM) in a brand-new building at the Old Road/Churchill Campus. The group specializes in neurodevelopmental disorders, including epilepsy and autism spectrum disorder. Over the past decade, this group’s work has helped identify hundreds of genes associated with these disorders (Fu et al. Nature Genetics 2022) and has used the genomic data to advance our understanding of the role of noncoding variants identified in whole-genome sequencing (An et al. Science 2018), the role of splicing variants (Jagnathan et al. Cell 2019), and the role of genes associated with neurodevelopmental delay in the developing human brain (Satterstrom et al. Cell 2020). Detailed analysis of mutations in the gene SCN2A, a common cause of childhood seizures and developmental delay, has provided insight into genotype-phenotype relationships (Ben-Shalom et al. Biol. Psych 2017), functional mechanisms (Spratt et al. Neuron 2019), regulatory processes (Liang et al. Genome Medicine 2021), ultimately leading to a potential therapy (Tamura et al. BioRxiv 2022). By focusing on human phenotypes, gene regulatory processes, and the role of sex as a modifier, we aim to advance therapies for all rare genetic disorders. This position is offered full-time on a fixed-term contract, initially for two years, with the possibility to extend provided further external funding is available. This role meets the criteria for a UK Skilled Worker visa. Career Development: The post holder will receive training through interaction with researchers in this group and our collaborators. They will be encouraged to attend training and research skill courses provided by the University of Oxford. About the applicant This position will suit someone with meticulous attention to detail who enjoys designing and implementing logical and organized data structures. The group and this position are highly collaborative, so excellent communication and interpersonal skills are essential. Applicants will need to hold a relevant (e.g., computational, data analysis, science) Bachelor’s degree (or equivalent) and be able to demonstrate substantial experience in data management. They will need to have demonstrated proficiency in computer programming (Python preferred) and working with high-performance and/or cloud environments. Application Process You will be required to upload a CV and Supporting Statement as part of your online application. The Supporting Statement should include a cover letter and should also clearly describe how you meet each of the selection criteria listed in the job description. Click here for information and advice on writing an effective Supporting Statement. To discuss the post in more detail, please contact Stephan Sanders, the group leader, using he contact details below. Only online applications received before 12.00 midday on Friday 24 November will be considered. Interviews will be held as soon as possible thereafter.
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_________________________________________________________________________ Job description and selection criteria Job title Data Manager Division Medical Sciences Department Paediatrics Location Sanders Research Group, Institute of Developmental & Regenerative Medicine (IDRM), Old Road Campus, Oxford Grade and salary Grade 7: £36,024 - £44,263 per annum (with a discretionary range to £48,350 per annum) Hours Full time Contract type Fixed-term for two years Reporting to Prof Stephan Sanders Vacancy reference 166408 Additional information This role meets the criteria for a UK Skilled Worker visa The role The Sanders Group, led by Prof. Stephan Sanders, works on identifying the causes of rare genetic disorders and developing genetic therapies with a focus on data science and genomics. The team of undergraduate, graduate, and postdoctoral scientists spans both Oxford University and the University of California, San Francisco (UCSF). Research activities include: • • • • • • Identifying the genes underlying neurodevelopmental delay and autism Assessing the role of noncoding genetic variants to genetic disorders Understanding the neurobiology of neurodevelopmental disorders Understanding the mechanism underlying sex-bias in neurodevelopmental disorders Improving the clinical diagnosis of genetic disorders Developing therapies for genetic disorders, including antisense oligonucleotides (ASOs) and CRISPR-based approaches As a primarily computational lab, the lab has access to numerous datasets of varying scales on university computer clusters and cloud-based services (AWS and Google). The data manager role will be to manage these data assets and deploy data processing and analysis pipelines on the genomic data as part of the research projects. The data manager will report directly to Prof. Sanders and work as an integral part of the lab team to help facilitate research. Responsibilities • To manage the lab data assets, including helping lab members to access them, ensuring logical data structures and appropriate metadata, and cataloguing the location of key datafiles and key analysis tools in the lab codebase and information base. • To run data processing and data analysis pipelines on genomic data, including exome sequencing, whole-genome sequencing, RNA-seq, ChIP-seq, and single cell RNA/ATACseq. • To monitor and manage the use of servers and cloud-resources to ensure cost-efficiency. Provide advice and documentation to lab members and collaborators on using these resources in an appropriate manner. • Develop or tailor methodologies, techniques, and protocols for data processing and analysis in collaboration with members of the research team. • Act as a source of information and advice to other members of the group on data access and methodologies, techniques, and protocols and to document these in the laboratory codebase and information base. • Liaising with other project teams, external sites, and data repositories to receive, share, and/or deposit data. • Generate reports on the labs data storage and compute expenditure. • Work in managed computational research environments (e.g., Genomics England Research Portal, DNA Nexus) and help guide other members of the laboratory and collaborators in using these environments. Department of Paediatrics, Data Manager, Job Description 2 • Identify and troubleshoot technical or scientific problems, working collaboratively with members of the research team. • Contribute to manuscripts, presentations, and other means of disseminating results. • Attend scientific seminars, meetings, and training, as appropriate, and represent the research group at external meetings/seminars, either with other members of the group or alone. • Manage own administrative activities. This involves small scale project management, to coordinate multiple aspects of work to meet deadlines. Selection criteria Essential • A relevant degree (Bachelors) or equivalent plus substantial relevant professional experience. • Meticulous attention to detail and the ability to collate and structure data in a logical and organized manner. • Knowledge and experience in developing, establishing, managing, and maintaining processes and systems for the storage and sharing of lab data. • Proficiency in working with high-performance computing clusters and/or cloud-computing resources. • Proficiency in the use of command line interfaces. • Proficiency in the use of programming languages (e.g., Python, R). • Ability to collaborate with colleagues and advise other researchers both in-person and remotely. • Demonstrable ability to organise and prioritise work efficiently whilst delivering results to the required standard and to an agreed schedule. • Excellent communication skills, including the ability to document code and provide written descriptions of methods and techniques. Desirable • Experience with working in managed computational research environments (e.g., Nextflow, DNA Nexus, Terra). • Experience with developing pipelines for data analysis. • Experience of database design and management database, including query/report writing and data verification. • Experience of actively collaborating in the development of research articles for publication. • Familiarity with biological data, including genetics, neuroscience, or therapeutics. Department of Paediatrics, Data Manager, Job Description 3 Pre-employment screening Standard checks If you are offered the post, the offer will be subject to standard pre-employment checks. You will be asked to provide: proof of your right-to-work in the UK; proof of your identity; and (if we haven’t done so already) we will contact the referees you have nominated. You will also be asked to complete a health declaration so that you can tell us about any health conditions or disabilities for which you may need us to make appropriate adjustments. Please read the candidate notes on the University’s pre-employment screening procedures at: https://www.jobs.ox.ac.uk/pre-employment-checks Additional security pre-employment checks This job includes duties that will require additional security pre-employment checks: • A satisfactory enhanced Disclosure and Barring Service check due to working with sensitive data. About the University of Oxford Welcome to the University of Oxford. We aim to lead the world in research and education for the benefit of society both in the UK and globally. Oxford’s researchers engage with academic, commercial and cultural partners across the world to stimulate high-quality research and enable innovation through a broad range of social, policy and economic impacts. We believe our strengths lie both in empowering individuals and teams to address fundamental questions of global significance, while providing all our staff with a welcoming and inclusive workplace that enables everyone to develop and do their best work. Recognising that diversity is our strength, vital for innovation and creativity, we aspire to build a truly diverse community which values and respects every individual’s unique contribution. While we have long traditions of scholarship, we are also forward-looking, creative and cuttingedge. Oxford is one of Europe's most entrepreneurial universities and we rank first in the UK for university spin-outs, and in recent years we have spun out 15-20 new companies every year. We are also recognised as leaders in support for social enterprise. Join us and you will find a unique, democratic and international community, a great range of staff benefits and access to a vibrant array of cultural activities in the beautiful city of Oxford. For more information, please visit www.ox.ac.uk/about/organisation. Department of Paediatrics The Department of Paediatrics is a world leader in child health research and hosts internationally renowned research programmes in drug development, gastroenterology, haematology, HIV, immunology, neuroimaging, neuromuscular diseases and vaccinology. Our work spans from early proof-of concept fundamental science, all the way up to its application in clinical settings. We continue to shape the landscape of medical science through positively impacting the lives of millions of children from our global research programmes, academic resources, and commitment Department of Paediatrics, Data Manager, Job Description 4 to success. Our broad research base positions the department in a pivotal role and subsequently a world leader in child health. With research facilitates in the UK and abroad, we work on a global scale, building a paediatric network in the medical science community. We are committed to inform and inspire external audiences worldwide through our public engagement and outreach activities. In 2021, we successfully administered a grant value of £130,895,28 obtained through 168 projects. Our strong relationship with funding bodies have also been a contributor to the successes and milestones in children’s health research. With strong support from the Wellcome Trust, NIH, Cancer Research UK, UKRI, MDUK, Bill & Melinda Gates Foundation, Academy of Medical Sciences and the NIHR, we have employed 360+ staff, researchers, and students. These figures continue to grow as we expand our activities to overcome the multitude of challenges within children’s research health. For more information please visit: http://www.paediatrics.ox.ac.uk/ The Department of Paediatrics holds a silver Athena Swan award to recognise advancement of gender equality: representation, progression and success for all. Medical Sciences Division We are an internationally recognized centre of excellence for biomedical and clinical research and teaching, and the largest academic division in the University of Oxford. World-leading programmes, housed in state-of-the-art facilities, cover the full range of scientific endeavour from the molecule to the population. With our NHS partners we also foster the highest possible standards in patient care. For more information please visit: http://www.medsci.ox.ac.uk/ Department of Paediatrics, Data Manager, Job Description 5 How to apply Applications are made through our e-recruitment system and you will find all the information you need about how to apply on our Jobs website https://www.jobs.ox.ac.uk/how-to-apply. Your application will be judged solely on the basis of how you demonstrate that you meet the selection criteria stated in the job description. As part of your application you will be asked to provide details of two referees and indicate whether we can contact them now. You will be asked to upload a CV and a supporting statement. The supporting statement must explain how you meet each of the selection criteria for the post using examples of your skills and experience. This may include experience gained in employment, education, or during career breaks (such as time out to care for dependants) Please upload all documents as PDF files with your name and the document type in the filename. All applications must be received by midday UK time on the closing date stated in the online advertisement. Information for priority candidates A priority candidate is a University employee who is seeking redeployment because they have been advised that they are at risk of redundancy, or on grounds of ill-health/disability. Priority candidates are issued with a redeployment letter by their employing department(s). If you are a priority candidate, please ensure that you attach your redeployment letter to your application (or email it to the contact address on the advert if the application form used for the vacancy does not allow attachments). If you need help Application FAQs, including technical https://staff.web.ox.ac.uk/recruitment-support-faqs troubleshooting advice is available at: Non-technical questions about this job should be addressed to the recruiting department directly at recruitment@paediatrics.ox.ac.uk or using the contact details in the online advertisement. To return to the online application at any stage, please go to: www.recruit.ox.ac.uk. Please note that you will receive an automated email from our e-recruitment system to confirm receipt of your application. Please check your spam/junk mail if you do not receive this email. 6 Important information for candidates Data Privacy Please note that any personal data submitted to the University as part of the job application process will be processed in accordance with the GDPR and related UK data protection legislation. For further information, please see the University’s Privacy Notice for Job Applicants at: https://compliance.admin.ox.ac.uk/job-applicant-privacy-policy. The University’s Policy on Data Protection is available at: https://compliance.admin.ox.ac.uk/data-protection-policy. The University’s policy on retirement The University operates an Employer Justified Retirement Age (EJRA) for very senior research posts at grade RSIV/D35 and clinical equivalents E62 and E82, which with effect from 1 October 2023 will be 30 September before the 70th birthday. The justification for this is explained at: https://hr.admin.ox.ac.uk/the-ejra. For existing employees on these grades, any employment beyond the retirement age is subject to approval through the procedures: https://hr.admin.ox.ac.uk/the-ejra. There is no normal or fixed age at which staff in posts at other grades have to retire. Staff at these grades may elect to retire in accordance with the rules of the applicable pension scheme, as may be amended from time to time. Equality of opportunity Entry into employment with the University and progression within employment will be determined only by personal merit and the application of criteria which are related to the duties of each particular post and the relevant salary structure. In all cases, ability to perform the job will be the primary consideration. No applicant or member of staff shall be discriminated against because of age, disability, gender reassignment, marriage or civil partnership, pregnancy or maternity, race, religion or belief, sex, or sexual orientation. 7 Benefits of working at the University Employee benefits University employees enjoy 38 days’ paid holiday, generous pension schemes, travel discounts, and a variety of professional development opportunities. Our range of other employee benefits and discounts also includes free entry to the Botanic Gardens and University colleges, and discounts at University museums. See https://hr.admin.ox.ac.uk/staff-benefits University Club and sports facilities Membership of the University Club is free for all University staff. The University Club offers social, sporting, and hospitality facilities. Staff can also use the University Sports Centre on Iffley Road at discounted rates, including a fitness centre, powerlifting room, and swimming pool. See www.club.ox.ac.uk and https://www.sport.ox.ac.uk/. Information for staff new to Oxford If you are relocating to Oxfordshire from overseas or elsewhere in the UK, the University's Welcome Service website includes practical information about settling in the area, including advice on relocation, accommodation, and local schools. See https://welcome.ox.ac.uk/ There is also a visa loan scheme to cover the costs of UK visa applications for staff and their dependents. See https://staffimmigration.admin.ox.ac.uk/visa-loan-scheme Family-friendly benefits With one of the most generous family leave schemes in the Higher Education sector, and a range of flexible working options, Oxford aims to be a family-friendly employer. We also subscribe to the Work+Family Space, a service that provides practical advice and support for employees who have caring responsibilities. The service offers a free telephone advice line, and the ability to book emergency back-up care for children, adult dependents and elderly relatives. See https://hr.admin.ox.ac.uk/my-family-care Childcare The University has excellent childcare services, including five University nurseries as well as Universitysupported places at many other private nurseries. For full details, including how to apply and the costs, see https://childcare.admin.ox.ac.uk/ Disabled staff We are committed to supporting members of staff with disabilities or long-term health conditions. For further details, including information about how to make contact, in confidence, with the University’s Staff Disability Advisor, see https://edu.admin.ox.ac.uk/disability-support Staff networks The University has a number of staff networks including the Oxford Research Staff Society, BME staff network, LGBT+ staff network and a disabled staff network. You can find more information at https://edu.admin.ox.ac.uk/networks The University of Oxford Newcomers' Club The University of Oxford Newcomers' Club is an organisation run by volunteers that aims to assist the partners of new staff settle into Oxford, and provides them with an opportunity to meet people and make connections in the local area. See www.newcomers.ox.ac.uk. 8
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**About the role** We have an exciting opportunity to join the Rare Genetic Disorders Research Group led by Prof. Stephan Sanders in the Department of Paediatrics at the University of Oxford as a Data Manager. The group aims to identify, understand, and develop therapies for rare genetic disorders. The group is primarily computational but partners with multiple international labs (including Harvard, Yale, UC San Francisco [UCSF], and the New York Genome Center) to co-design experiments and generate novel datasets, including exome/genome sequencing of hundreds of thousands of individuals, large-scale single-cell data from primary human tissues, spatial transcriptomic data, and experimental genomic screens. The Data Manager’s role will be to organize and facilitate access to the group’s data and software resources, working closely with all members of the group and our external collaborators. These data are stored on a mixture of cloud platforms (e.g., AWS), local high-performance clusters, and protected research environments (e.g., Genomic England). You will report to Stephan Sanders and join a team of three postdocs/staff scientists, three PhD students, and three research assistants hosted at the sites at Oxford and UCSF. You will be expected to provide guidance and assistance to researchers and students in the group and help in the preparation of scientific publications and presentations. You will be working in a growing department within the Medical Sciences Division. The Department of Paediatrics is a world leader in child health research and hosts internationally renowned research programmes in neurological diseases, drug development, haematology, and immunology, neuroimaging. The group led by Prof. Stephan Sanders is based in the recently formed Institute of Developmental and Regenerative Medicine (IDRM) in a brand- new building at the Old Road/Churchill Campus. The group specializes in neurodevelopmental disorders, including epilepsy and autism spectrum disorder. Over the past decade, this group’s work has helped identify hundreds of genes associated with these disorders (Fu _et al. Nature Genetics_ 2022) and has used the genomic data to advance our understanding of the role of noncoding variants identified in whole-genome sequencing (An _et al. Science_ 2018), the role of splicing variants (Jagnathan _et al. Cell_ 2019), and the role of genes associated with neurodevelopmental delay in the developing human brain (Satterstrom _et al. Cell_ 2020). Detailed analysis of mutations in the gene _SCN2A_ , a common cause of childhood seizures and developmental delay, has provided insight into genotype-phenotype relationships (Ben-Shalom _et al. Biol. Psych_ 2017), functional mechanisms (Spratt _et al. Neuron_ 2019), regulatory processes (Liang _et al. Genome Medicine_ 2021), ultimately leading to a potential therapy (Tamura _et al. BioRxiv_ 2022). By focusing on human phenotypes, gene regulatory processes, and the role of sex as a modifier, we aim to advance therapies for all rare genetic disorders. This position is offered full-time on a fixed-term contract, initially for two years, with the possibility to extend provided further external funding is available. This role meets the criteria for a UK Skilled Worker visa. Career Development: The post holder will receive training through interaction with researchers in this group and our collaborators. They will be encouraged to attend training and research skill courses provided by the University of Oxford. **About the applicant** This position will suit someone with meticulous attention to detail who enjoys designing and implementing logical and organized data structures. The group and this position are highly collaborative, so excellent communication and interpersonal skills are essential. Applicants will need to hold a relevant (e.g., computational, data analysis, science) Bachelor’s degree (or equivalent) and be able to demonstrate substantial experience in data management. They will need to have demonstrated proficiency in computer programming (Python preferred) and working with high-performance and/or cloud environments. **Application Process** You will be required to upload a CV and Supporting Statement as part of your online application. The Supporting Statement should include a cover letter and should also clearly describe how you meet each of the selection criteria listed in the job description. Click here for information and advice on writing an effective Supporting Statement. To discuss the post in more detail, please contact Stephan Sanders, the group leader, using he contact details below. Only online applications received before 12.00 midday on Friday 24 November will be considered. Interviews will be held as soon as possible thereafter.
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