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Any queries please contact the Graduate Administrator, Lindsay Abbott by emailing sci-phd@stemcells.cam.ac.uk, or telephoning +44 (0)1223 760288.

Other PhD opportunities

The following PhD studentships are now available:

  1. BBSRC iCASE 4-Year PhD studentship - Astra Zeneca (Lee-Fellows)
  2. BBSRC iCASE 4-Year PhD studentship - Microsoft (Smith-Dunn)  - re-advertised

BBSRC iCASE 4-Year PhD studentship (Lee-Fellows)

Collaborative PhD Studentship with Astra Zeneca

Elucidating cellular behaviours and potential oncogenicity utilising in vitro organoid culture system

 

Project Description

Department name: Cambridge Stem Cell Institute, University of Cambridge
Supervisors: Primary: Dr Joo-Hyeon Lee (University of Cambridge) and Dr Mick Fellows (AstraZeneca)

Assessment of cell transformation (i.e. the acquisition of malignant characteristics in morphology, growth control or function) has proven problematic to model in vitro.  The soft agar cell transformation assay has been validated, but only in a limited number of immortalised or mixed population embryonic cells and the specificity of the assay has been questioned.  Furthermore, the genetic basis of cell transformation in this model has not been fully delineated (Harvey et al 2015, Creton et al 2012).  The use of genetically and phenotypically stable organoids derived from single human stem cells (Schwank et al 2013) should provide a better model for cell proliferation and transformation. 

Organoids have the advantage of 3D morphology, being able to be derived from several major organs and can be engineered to demonstrate proliferative effects by introducing a cell type specific ki67 fluorescent protein to tag.  Organoid stability is also dependent on several growth factors and inhibitors e.g. EGF, Wnt, BMP inhibitor, TGFb inhibitor.  Growth following withdrawal of these factors, which are known pathways implicated in cancer genesis, will be indicative of cell phenotypic and/or transformative changes.  It is also proposed that this model could be used to investigate mechanisms of pro-oncogenicity and also the potential off-target effect of genome editing by CRISPR/Cas9, for which there is currently an unmet need for in vitro assays to assess concerns around inappropriate editing in oncogenes. 

The project will develop organoids from a variety of tissue sources, including organoids with the ki67 tag, and assessment of proliferative and morphological changes following withdrawal of growth factors after treatment with reference carcinogens and following transfection with specific and promiscuous guide RNA and associated Cas9 protein.  Comparative data will be generated from alternative in vitro methodologies to analyse cell transformation e.g. the soft agar assay.  Reference carcinogens will be analysed in this assay along with the potential of CRISPR/Cas9 editing to induce cell transformation (which has not been previously assessed).  The student will also use next generation sequencing technologies to identify specific genes involved in morphological changes in both cell and organoid cultures.  Success will provide new and more relevant model for understanding and assessment of morphological changes and carcinogenesis.

Eligibility and Funding

This studentship covers 4 years’ UK/EU tuition fees (see below for EU eligibility requirements) and a maintenance stipend.

BBSRC funding is only available to candidates who meet the UK residency criteria.  Funding is available for UK nationals and EU students who meet the residency requirements but, before applying, please make sure that you check your eligibility for funding, which can be found on the BBSRC website, here:
http://www.bbsrc.ac.uk/documents/studentship-eligibility-pdf/. If you need further clarification, please get in touch with us.

International students. Unless you have settled status in the UK and meet the UK residency requirements, there is no funding for international students. 

How to Apply

  1. Please complete our departmental Application Form process here*, which will include submitting your CV, providing the details of two referees, and your Degree transcripts.
  2. Please ask your referees to submit references directly to the SCI Graduate Administrator: sci-phd@stemcells.cam.ac.uk, using "BBSRCiCASE (Lee-Fellows) student reference" in the subject header. They must be signed and on headed paper but can be scanned and emailed to us. It is important for referees to mention 'Lee-Fellows' in the subject header or body of the email, as we have more than one BBSRC iCASE studentship at the moment, with the same closing date.

Application Deadline: Midnight UK time on Friday 31st March 2017.

Academic Enquiries to
: Dr. Joo-Hyeon Lee jhl62@cam.ac.ukDr Lee is happy to receive informal enquiries about this studentship.
Application Process Enquiries: 
Graduate Administrator sci-phd@stemcells.cam.ac.uk. Please mention that your enquiry relates to 'BBSRC iCASE (Smith)' in the subject header, as we have more than one BBSRC iCASE studentship.

For further details about our group and the institute, please visit:http://www.stemcells.cam.ac.uk/research/pis/lee

*Please note that for this project you DO NOT APPLY DIRECTLY TO BBSRC, but apply to us at the Wellcome Trust MRC Cambridge Stem Cell Institute, as in 'How to Apply' above*

 

References

Harvey, Howe et al. Mutagenesis. 2005 Jan;20(1):51-6. http://mutage.oxfordjournals.org/content/20/1/51.long

Creton, Aardema et al. Mutagenesis. 2012 Jan;27(1):93-101. http://mutage.oxfordjournals.org/content/27/1/93.long

Schwank, Koo et al. Cell Stem Cell . 2013 Dec 5;13(6):653–58. http://www.sciencedirect.com/science/article/pii/S1934590913004931


PLEASE NOTE: THIS STUDENTSHIP IS NOW RE-ADVERTISED WITH A CLOSING DATE OF FRIDAY 31ST MARCH.  PREVIOUS APPLICANTS NEED NOT APPLY

BBSRC iCASE 4-year PhD studentship (Smith-Dunn):

Collaborative Phd studentship with Microsoft Research

Decoding the network logic for resetting pluripotency

 

The Smith Group at the Medical Research Council-Wellcome Trust Stem Cell Institute in Cambridge in partnership with the Computational Biology Group at Microsoft Research offers an exciting interdisciplinary 4-year PhD studentship commencing October 2017.

The pluripotent ground state of embryonic stem cells (ESCs) is governed by a self-reinforcing interaction network of transcription factors (Dunn et al, Science 2014). Combinations of factors within this network can induce somatic cells to acquire pluripotency, a process called molecular reprogramming (Takahashi and Yamanaka, Cell, 2006). Experimental and computational efforts have led to circuitry mapping of the key players in maintenance of the ESC state. However, how this molecular circuitry is launched and fully connected during reprogramming remains unclear. This project is a cross-disciplinary investigation to address systematically how cells transit to the pluripotent ESC state at the molecular network level. The multi-step, heterogeneous and asynchronous nature of the reprogramming process presents technical challenges. This project is designed to overcome these challenges by using a minimal reprogramming system and integrating quantitative single-cell gene expression profiling at defined reprogramming stages with computational network synthesis and modelling. This approach will transform a temporal series of single-cell snapshots of network status into reconfiguring network trajectories. Predictions formulated from the synthesised trajectores will be tested experimentally and the results used for iterative refinement of the model set.

As part of the BBSRC doctoral training programme, this 4-year PhD contains tailored training courses in the first six months of the studentship. In addition, a key element of this project is that the student will spend three months at Microsoft Research Cambridge, under the supervision of our collaborator, Dr Sara-Jane Dunn, to develop wider training and skills. 

Eligibility & Funding

UK and EEA students who have, or are expecting to attain, at least an upper second class honours degree (or equivalent) in relevant biological subjects are invited to apply. The interdisciplinary nature of the project means that we welcome applications from students with mathematical and computing experience who are interested in using their skills to address stem cell biology questions.

International students. Unless you have settled status in the UK and meet the UK residency requirements, there is no funding for international students.

How to Apply

  1. Please complete our departmental Application Form process here*, which will include submitting your CV, providing the details of two referees, and your Degree transcripts.
  2. Please ask your referees to submit references directly to the SCI Graduate Administrator: sci-phd@stemcells.cam.ac.uk, using "BBSRCiCASE student reference (Smith)" in the subject header. t is important for referees to mention 'Smith' in the subject header or body of the email, as we have more than one BBSRC iCASE studentship at the moment, with the same closing date.They must be signed and on headed paper but can be scanned and emailed to us.

Application Deadline: 9am UK time on Friday 31st March 2017.

Academic Enquiries to
: Dr. Amy Li ml440@cam.ac.uk.
Application Process Enquiries: 
Graduate Administrator sci-phd@stemcells.cam.ac.uk. Please mention that your enquiry relates to 'BBSRC iCASE (Smith)' in the subject header, as we have more than one BBSRC iCASE studentship.

For further details about our group and the institute, please visit: /researchers/principal-investigators/pressor-austin-smith /  

*Please note that for this project you DO NOT APPLY DIRECTLY TO BBSRC, but apply to us at the Wellcome Trust MRC Cambridge Stem Cell Institute, as in 'How to Apply' above*


Closed Opportunites

The following studentship deadlines have now closed...

MRC iCASE 4-Year PhD studentship (Laurenti)

MRC logo (grey background)

Impact of Cell & Gene Therapy on the Function and Molecular Regulation of Haematopoietic Stem Cells

 

Applications are invited for a 4-year Medical Research Council Industry CASE PhD studentship, which will be jointly supervised by Dr. Laurenti at the University of Cambridge and Dr. Francis at GlaxoSmithKline (GSK), to commence in October 2017.

The Laurenti laboratory combines state-of-the-art experimental and computational methods to study the unique biological and molecular properties of human haematopoietic stem cells (HSCs). GSK is a world leading research-based pharmaceutical company. In May 2015, the first autologous ex vivo gene therapy product, developed by the Cell and Gene Therapy (CGT) platform, was recently approved by the European Medicines Agency. CGT supports numerous cell and gene therapy projects from early phase to commerical launch, and the development of innovative technologies to enable improvements to cell and gene therapy manufacture.

The principal research aim of this project is to determine to what extent the gene therapy protocol affects the biology of HSCs. The project will combine single cell transcriptomics, lentiviral transduction technology, flow cytometry and single cell functional assays in vitro and in vivo. Adult HSCs and progenitor cells will be subjected to the gene therapy protocol and changes in their fate choices and transcriptome will be determined by single cell functional assays and single cell RNA-seq. This information will provide insights into how changes in the molecular circuitry of HSC alter their function under stress conditions, and will be used to guide process improvements to increase HSC functionality after transduction.

The primary research will be carried out mostly in Dr Laurenti’s laboratory but the student will spend a minimum of 6 months at GSK during the time of the fellowship. 

We encourage applications from students with mathematical and/or bioinformatics skills.

Eligibility

How to Apply

  1. Complete our departmental Application Form*, which will include providing the details of two referees
  2. Submit your application documents which should include your Application Form, CV, and your Degree transcripts, in pdf format to: sci-phd@stemcells.cam.ac.uk
  3. Please ask your referees to submit references directly to the SCI Graduate Administrator by the application deadline: sci-phd@stemcells.cam.ac.uk, using "MRC iCASE 4-Year PhD studentship (Laurenti)in the subject header.  It is your responsibility for ensuring that both references are received by the closing date.

Application Deadline: Tuesday 14th February 2017 and shortlisted candidates will be interviewed between 27th-28th February 2017.

Informal Academic Enquiries to
: Dr Elisa Laurenti el422@cam.ac.uk
Application Process Enquiries to: 
Graduate Administrator sci-phd@stemcells.cam.ac.uk

For further details about our group and the institute, please visit: 

*Please note that for this project you DO NOT APPLY DIRECTLY TO THE MRC, but apply through the process above here at the Stem Cell Institute*.


MRC Doctoral Training Partnership (DTP)

MRC logo (grey background)

University of Cambridge MRC are offering several fully funded PhD studentships for projects commencing in October 2017.

Students can apply for studentships with SCI members, details of which can be found below and here: http://mrcdtp.medschl.cam.ac.uk/prospective-students/how-to-apply/available-projects-for-2017/.  The studentships provide an annual stipend of £17k for 3.5 years, full fees and research costs.  The duration of the studentship allows for a funded period of write-up prior to thesis submission.  In addition to excellent research facilities, students will have access to a wide variety of training and researcher development activities, many of which are offered through the Graduate School of Life Sciences and the wider University.

The closing date for applications is 1st December 2016.  Interviews will be held late January 2017.

Eligibility

How to Apply

  1. Applicants are encouraged to contact prospective supervisors for further information about specific projects before applying.
  2. Applications must be made on the University’s online portal. Click here for a link to the Graduate Admissions webpages (http://www.graduate.study.cam.ac.uk/how-do-i-apply).  
  3. Please also follow the instructions on the Cambridge MRC DTP website: http://mrcdtp.medschl.cam.ac.uk/prospective-students/how-to-apply/  The course code is MDSM22.  You can select up to two projects – please add these to the ‘Research title’ field in order of preference quoting the project ID.  In the ‘Research summary’ field provide a brief synopsis of why you have chosen your project/s. Please provide the name of the Primary Supervisor for your first choice project in the ‘Research Supervisor’ field.

You need to upload the following documents with your application:

  • CV
  • Transcripts or degree certificates
  • English language score report forms (if English is not your first language)

Note: The two referees you list on the application form will be contacted automatically for their references, so please ensure you provide their correct email addresses.

Application Deadline1st December 2016.  Interviews will be held late January 2017.
General application enquiries: please email the Higher Degrees Office at mrcdtp@medschl.cam.ac.uk

Here is the full list of stem cell-related projects available:

Tumour niche; relevance for epithelial stem cell behaviour Supervisor: Dr. Maria Alcolea
Mechanism of induced pluripotency Supervisor: Dr. Jose Silva
Translational profiling and network analysis in diffuse large B cell lymphoma. Supervisor: Dr. Daniel Hodson
Decoding the role of stem cell heterogeneity in tissue homeostasis and regeneration using the Red2cDNA system Supervisor: Dr. Bon-Kyoung Koo
Factor that influence financial decision making in Huntington’s disease Supervisor: Prof. Roger Barker
Reprogramming induced oligodendrocyte progenitors (iOPCs) Supervisor: Prof. David Rowitch
Cell cycle regulation of differentiation in the neurological cancer, neuroblastoma Supervisor: Prof. Anna Philpott
Transcriptional and epigenetic resetting of pluripotency Supervisor: Prof. Austin Smith

Elucidating heterogeneity of adult lung stem/progenitor cells and their interactions with stromal/niche cells

Supervisor: Dr Joo-Hyeon Lee
Investigating epigenetic mechanisms in regulating intestinal epithelial cellular function during health and disease using human 3D intestinal organoid culture systems Supervisor: Dr. Matthias Zilbauer
The targeting and maintenance of mammalian epigenetic states and their function in health and disease. Supervisor: Prof. Anne Ferguson-Smith
Quality control of ribosome assembly Supervisor: Prof. Alan Warren

Cambridge Cancer Centre PhD studentships

 

Cambridge Cancer Centre supports a broad programme of formal education and training designed to nurture the next generation of cancer researchers and clinicians. They will fund up to 10 PhD studentships (including clinical and non-clinical students) for 2017 with projects covering an exciting range studies, including those with several SCI Principal Investigators, listed below.

Applications are invited from UK, EU and non-EU students from non-clinical or clinical disciplines.

Twenty projects are available to choose from, of which 10 may be funded, supporting the top 10 student applicants. Applicants can select up to two projects (a first and second choice) when applying. Each of the project titles below links to a pdf giving an outline of the project. For further information you are encouraged to study the website of the Lead Investigator, and Co-Investigators where applicable. Below are the Stem Cell Institue Principal Investigator projects available.

How to Apply

Apply directly to Cambridge Cancer Centre. For further information about the studentships, funding, and application process, please visit the Cambridge Cancer Centre website: http://www.cambridgecancercentre.org.uk/studentships

Application Deadline:  For both non-clinical and clinical applicants the application deadline is 30 November 2016.

SCI Projects Available

Translational profiling and network analysis in aggressive B cell lymphomas Lead Investigator: Dr Daniel Hodson
Characterisation of disordered metabolism in the stem cell niche during leukaemia evolution Lead Investigator: Dr Brian Huntly
Cell cycle regulation of differentiation in the paediatric cancer, neuroblastoma Lead Investigator: Prof. Anna Philpott
Exploiting the p53 axis for therapy in paediatric low-grade glioma Lead Investigator: Prof. David Rowitch
Elucidation of Cell Fate Transitions in Lung Cancer Stem Cells Lead Investigator: Dr Joo-Hyeon Lee

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