Sarcoma Molecular Pathology Team

Professor Janet Shipley’s team is investigating ways to improve the treatment of patients with soft tissue sarcomas associated with poor clinical outcome.

Our current research is primarily focused on rhabdomyosarcomas and includes understanding aspects of epigenetic regulation of differentiation and the DNA damage response that may be targeted and incorporated into the treatment of these and other sarcomas.

Professor Janet Shipley

Group Leader:

Sarcoma Molecular Pathology, Computational Pathology and Integrative Genomics Professor Janet Shipley

Professor Janet Shipley is investigating ways to improve the treatment of patients with sarcomas that have a poor outcome.

Rhabdomyosarcoma (RMS)

RMS account for around 6% of all childhood cancers and are broadly divided into two main histological subgroups: alveolar and embryonal RMS. Around 70–80% of alveolar cases are associated with PAX3/FOXO1 or PAX7/FOXO1 gene fusions.

Our work has shown that fusion gene negative alveolar RMS are clinically and biologically more similar to embryonal cases than alveolar and patients with PAX3/FOXO1 positive tumours are associated with poorer outcome.

This has important implications for risk stratification that are being incorporated into the next clinical trial by the European paediatric Soft tissue sarcoma Study Group (EpSSG). In addition, we have identified a gene signature associated with poor prognosis in fusion gene negative RMS that will be prospectively validated.

To find new approaches to treat these high-risk sarcoma patients we are identifying and validating:

  • Molecular therapeutic targets and agents that are prioritised from a novel computational analyses of molecular and experimental data (in collaboration with Professor Bissan Al-Lazikani). These are then being tested in our preclinical models.
  • Epigenetic modifying enzymes that have effects on the differentiation status or DNA damage response of RMS cells. These include the histone demethylase KDM4 family that is linked to a drug discovery project (collaboration with Professor Julian Blagg) and the histone methyl transferase EZH2 which is part of the polycomb repressive complex 2 (in collaboration with Dr Zoe Walters). This research aims to discover novel strategies for differentiation therapy and ways to make sarcoma cells more sensitive to current treatments which damage DNA.

Other sarcomas

Our research investigations are extended to desmoplastic small round cell tumours, liposarcomas, Ewing sarcomas and through collaboration with Professor Chris Lord, synovial sarcomas.

We have close links with clinicians at the Royal Marsden NHS Foundation Trust (in the Children and Young People's Unit and the Sarcoma Unit), the National Cancer Research Institute (NCRI) Clinical Studies Young Onset Sarcoma Subgroup (YOSS) and the European paediatric Soft tissue sarcoma Study Group (EpSSG).

These partnerships facilitate our research and take forward research advances to potentially benefit patients.

Research Support

Support for our sarcoma research has come from:

  • Sarcoma UK
  • Children with Cancer UK
  • The Chris Lucas Trust
  • RobsARTTT
  • Great Ormond Street Hospital Charity
  • The Tom Bowdidge Foundation
  • Cancer Research UK
  • Wellcome Trust
  • Elin Rose Appeal
  • Kidscan
  • Children’s Cancer & Leukaemia Group
  • The Kelly Turner Foundation
  • Alice's Arc
  • Leah Rothwell
  • Charlie's Wish


The aim of the Sarcoma Molecular Pathology Group is to identify molecular biomarkers of high-risk sarcomas and therapeutic strategies that will improve the treatment of patients with these sarcomas.

Sarcomas are a heterogeneous group of mesenchymal tumours that frequently exhibit features of differentiating tissues such as striated skeletal muscle (rhabdomyosarcomas) and fat (liposarcoma). They may also have an undifferentiated appearance. Sarcomas account for approximately 15% of cancers in children and adolescents compared with 1% of cancer in adults and are associated with considerable morbidity and mortality.

Our current research is primarily focused on rhabdomyosarcomas and includes understanding aspects of epigenetic regulation of differentiation and the DNA damage response that may be targeted and incorporated into the treatment of these and other sarcomas.

Previously, we have identified genes involved in testicular germ cell tumour development, including those that predict occult spread and relapse. Other research has led to the identification of rearranged genes, notably those involved in synovial sarcomas, chondrosarcomas, kidney carcinomas and a myeloproliferative disorder.

We have also derived genetic-based approaches to resolve diagnostic dilemmas for the differential diagnosis of small round cell tumours, synovial sarcoma and tumours of germ cell origin. More recently, we demonstrated that the PAX3-FOXO1 fusion gene, rather than alveolar histology, is a key prognostic marker with utility to stratify treatment for rhabdomyosarcoma patients.

Recent discoveries from this group

31/08/19

Abbie Mifsud, Christopher Capel, Elin Rose and Chris Lucas


Every day, scientists from The Institute of Cancer Research, London, are working hard to improve the outlook for children with cancer.

Through vital research, we’ve started to make huge advances in understanding the biology and genetics of children’s tumours, and translated this research into diagnostic tests that can help children access targeted treatments and new drugs designed specifically for children’s cancers.

None of these discoveries would have been possible without the support of parent-led charities who, motivated by tragedy, want to make sure no other children or parents have to go through what their families suffered.

Our research into childhood cancers is transforming how these rare but devastating diseases are treated, as well as pioneering studies of cancer types not studied elsewhere in the UK.

Support our research

Making a difference in DIPG

Amanda and Ray Mifsud lost their six-year-old daughter Abbie to a DIPG brain cancer in 2011. Together they set up Abbie’s Army in November 2012 so that one day parents of children diagnosed with DIPG will not be told that there is no cure and no hope, as they were. Amanda said:

“We could never have imagined losing our beautiful daughter in the way we did…it was the cruellest way possible to DIPG brain cancer. Knowing she had no treatment available because quite simply there were none to give her, for us was a very compelling case for us to fund research.

“Over the time that we have been involved with ICR the progress really has been relentless and continuous in extending knowledge of these tumours.”

Abbie’s Army’s first funding award was to a PhD student in Professor Chris Jones’ lab at the ICR, Kathryn Taylor.

“Kathryn dedicated her thesis to Abbie which moved me beyond words. Not only that her work was part of a very influential and meaningful discovery of mutations in the ACVR1 gene in a subset of DIPG patients – inhibitors for which are now being developed further for new upcoming clinical trials. Knowing she was so touched and inspired by our story to continue her work in the US determined to find an answer, not just for us but other families too…it just means such a lot that even though Abbie cannot be here she has an impact on others."

Elin’s legacy for Ewing sarcoma

Elin Rose was diagnosed with Ewing Sarcoma, a rare bone cancer, in 2013. Her parents  Sian and Martin Waite fundraised for her in the US, which gave them precious extra time with their daughter. Although Elin succumbed to the disease in 2015, they’re continuing to raise funds for research into Ewing sarcoma.

“Why? Because who else will?” explains Martin.

“Without research there will be no cure. Supporting research as private individuals is important because there is little support at governmental level. The more niche the illness the less likely there is to be any funding or drive from any given government.”

The Elin Rose Appeal has funded the work of PhD student Antonio Romo-Morales in Professor Janet Shipley’s lab since 2016.

“We have visited the labs on a few occasions and we have always been impressed by the care and diligence of the work, the drive and passion of the staff and welcome we always receive. All of these moments are memorable and we feel a sense of great pride in what researchers have been able to achieve in our daughter's name. Our most recent visit showed some promising results and we were deeply proud of the work Antonio presented.

“I think that is what defines the ICR and sets it apart for us – the drive and passion that seems to fill everything they do. Being a very small and extremely peripheral part of that fills us with immense pride also. I speak at schools and events about the work the ICR does and I can't help but show the same level of excitement as Antonio and Janet and all the others do when they are talking about the work. This includes the Discovery Club events for donors, during which the excitement is infectious and the over-riding feeling is that these are good people doing good work that will do, deep and lasting good.”

Genetic test for children with cancer

Kevin and Karen Capel set up the charity Christopher's Smile in 2008, just a few months after the loss of their young son to medulloblastoma. Kevin and Karen’s incredible efforts, in Christopher’s memory, have been improving the outlook for children with cancer ever since. Kevin said:

“Without research into diseases such as childhood cancers, children will still be dying from these aggressive cancers in years to come, suffering not only from the disease but from the harsh side effects of the available treatments that have been used now for decades, treatments which leave their own legacy of issues, aside from the cancers themselves.

“Having seen first-hand the side effects of the “older” treatments, we felt there was a need to move forward to something with more effective and kinder treatments, and the only way to change the status quo is through research. 

“The ICR is also well respected in the research world and it is important to us to ensure our funds are put to the best possible use in terms of projects which result in making a difference for patients in the clinic.”   

Kevin and Karen have raised more than £1 million for childhood cancer research at the ICR, providing funding for four dedicated research scientists. Their support has led to the development of a new genetic test for children with cancer – helping clinicians to choose the best possible treatment regimens for each child.

“Our proudest moment working with the ICR has been the introduction of a genetic sequencing panel specifically for children into NHS England test directory. The panel was developed by the ICR, funded by Christopher’s Smile, and the result means that children with solid tumours may now be sequenced at diagnosis and relapse across England.”

Find out more about our latest childhood cancer discovers, the families we work with, and how you can support our research.

Find out more

£1.5 million for rhabdomyosarcoma

Lynn and Lynn Lucas set up the Chris Lucas Trust after their son’s tragic death from rhabdomyosarcoma – a cancer that resembles muscle tissue – in July 2000. Lynn said:

“We desperately need a cure for rhabdomyosarcoma.  We need to specifically target the areas affected in the body from rhabdomyosarcoma to enable the patient to have better outcomes. Better quality of life. The only way to find better outcomes and ultimately find a cure is by cancer research.”

The Lucases have so far raised over £1.5 million for research into rhabdomyosarcoma at the ICR and continue to fundraise through flagship events such as the Great North Bike Ride. Some of the research findings funded by the Trust are being incorporated into a brand new international clinical trial for rhabdomyosarcoma patients in the UK and other countries, which is planned to open this year.

“We were at the ICR Discovery Club event in London and thanked by the ICR for our fundraising dedication. At the event we were approached by a parent of a child that suffered from rhabdomyosarcoma she thanked us and said if we had not conducted our research many years ago her child would not be alive today. We were really touched by her sentiment.”

Incredibly grateful

At the ICR, we are incredibly grateful for the tireless work and dedication of these parents, and many others like them, who have harnessed their grief and turned it into something positive – that has already begun to change the lives of children with cancer.

Children’s Cancer Awareness Month gives us a chance to highlight the incredible research that goes on at the ICR, but we continue to work tirelessly with our parent charity partners all year round to keep making the discoveries that we hope will one day defeat children’s cancer.