Genomic Disorders and Cognitive Development
Lead Research Organisation:
University of Cambridge
Department Name: UNLISTED
Abstract
About 1 in 100 people worldwide has intellectual disability (ID), meaning that they have significant lifelong difficulties with learning, communication and independent living skills. ID often occurs alongside other physical and mental health difficulties, meaning that people with ID require high levels of support and often have poor quality of life. Currently the support that can be provided is mainly reactive and symptom-focused - tackling problems as and when they arise. This is because, until recently, we did not know the cause of ID for the majority of people, so it was not possible to predict problems at an earlier stage and provide more effective support tailored to the cause of each person’s condition.
This situation is now changing fast. New genetic testing technologies mean that it is possible to identify a specific cause in more than half of people with ID. Testing is available within the NHS, and in many global health settings. Genetic diagnosis provides new opportunities to understand each person’s ID, and use this knowledge to improve physical and mental health. To achieve this, our research aims to bridge the gaps between the molecular cause of ID and the lifelong cognitive and mental health difficulties experienced by each person.
This situation is now changing fast. New genetic testing technologies mean that it is possible to identify a specific cause in more than half of people with ID. Testing is available within the NHS, and in many global health settings. Genetic diagnosis provides new opportunities to understand each person’s ID, and use this knowledge to improve physical and mental health. To achieve this, our research aims to bridge the gaps between the molecular cause of ID and the lifelong cognitive and mental health difficulties experienced by each person.
Technical Summary
The goal of this programme is to integrate genomic medicine with cognitive neuroscience to improve our understanding of neurodevelopmental disorders, and change long-term mental health outcomes for affected individuals and their families. Toward this goal, our objectives are (1) to map the neurodevelopmental correlates of genomic variation, (2) to discover the cognitive and neural mechanisms linking genomic variation to symptoms and impairments, and (3) to investigate how genomic disorders interact with social context to influence well-being.
Each genomic disorder is extremely rare – our strategy is to investigate groups of genomic disorders defined by convergent impact on physiological processes (gene functional networks). One gene functional network which is a particular focus of the programme is synaptic vesicle cycling disorders, including Synaptotagmin 1-associated and STXBP1-associated neurodevelopmental disorders. Other current projects focus on chromatinopathy disorders and Wnt-signalling disorders.
Clinical presentations of genomic disorders within each functional network are complex and variable between individuals and within individuals over time. To understand this variability, we apply a transdiagnostic framework to investigate dimensional impairments and underlying cognitive and neural systems. To achieve this we use a variety of human cognitive neuroscience methods – behavioural questionnaires, interviews and structured observations; standardised neuropsychological assessments; bespoke cognitive tests; structural and functional neuroimaging via MRI; neurophysiology via MEG and EEG. We also analyse big datasets enabling larger-scale analyses of genotype-phenotype relationships.
We engage in interdisciplinary collaborations with functional biologists to link molecular and cellular mechanisms to patients’ neurobiology and symptoms. To achieve clinical relevance we integrate social and biological understanding of mental health - we work closely with psychologists to connect neurobiology and cognition to lived experience and relationships.
Our translational goal is to develop 4P (participatory, personalised, predictive, preventive) medicine strategies that will improve mental health and quality of life for individuals with neurodevelopmental genomic disorders and their families.
Each genomic disorder is extremely rare – our strategy is to investigate groups of genomic disorders defined by convergent impact on physiological processes (gene functional networks). One gene functional network which is a particular focus of the programme is synaptic vesicle cycling disorders, including Synaptotagmin 1-associated and STXBP1-associated neurodevelopmental disorders. Other current projects focus on chromatinopathy disorders and Wnt-signalling disorders.
Clinical presentations of genomic disorders within each functional network are complex and variable between individuals and within individuals over time. To understand this variability, we apply a transdiagnostic framework to investigate dimensional impairments and underlying cognitive and neural systems. To achieve this we use a variety of human cognitive neuroscience methods – behavioural questionnaires, interviews and structured observations; standardised neuropsychological assessments; bespoke cognitive tests; structural and functional neuroimaging via MRI; neurophysiology via MEG and EEG. We also analyse big datasets enabling larger-scale analyses of genotype-phenotype relationships.
We engage in interdisciplinary collaborations with functional biologists to link molecular and cellular mechanisms to patients’ neurobiology and symptoms. To achieve clinical relevance we integrate social and biological understanding of mental health - we work closely with psychologists to connect neurobiology and cognition to lived experience and relationships.
Our translational goal is to develop 4P (participatory, personalised, predictive, preventive) medicine strategies that will improve mental health and quality of life for individuals with neurodevelopmental genomic disorders and their families.
Organisations
- University of Cambridge (Lead Research Organisation)
- East Suffolk and North Essex NHS Foundation Trust (Collaboration)
- Florey Institute of Neuroscience and Mental Health (Collaboration)
- Wellcome Trust (Collaboration)
- IMAGINE ID (Collaboration)
- UNIVERSITY OF BIRMINGHAM (Collaboration)
- The Wellcome Trust Sanger Institute (Collaboration)
- Genomics England (Collaboration)
- UNIVERSITY OF CAMBRIDGE (Collaboration)
- KING'S COLLEGE LONDON (Collaboration)
People |
ORCID iD |
Kate Baker (Principal Investigator) |
Publications
Baker K
(2023)
Desert Island Papers.
in Brain and neuroscience advances
Brkic D
(2022)
[Formula: see text]FarmApp: a new assessment of cognitive control and memory for children and young people with neurodevelopmental difficulties.
in Child neuropsychology : a journal on normal and abnormal development in childhood and adolescence
Chi Z
(2024)
Rare neurodevelopmental conditions and parents' mental health - how and when does genetic diagnosis matter?
in Orphanet Journal of Rare Diseases
Melland H
(2022)
Expanding the genotype and phenotype spectrum of SYT1-associated neurodevelopmental disorder.
in Genetics in medicine : official journal of the American College of Medical Genetics
Related Projects
Project Reference | Relationship | Related To | Start | End | Award Value |
---|---|---|---|---|---|
MC_UU_00030/1 | 31/03/2022 | 30/03/2027 | £2,366,000 | ||
MC_UU_00030/2 | Transfer | MC_UU_00030/1 | 31/03/2022 | 30/03/2027 | £2,141,000 |
MC_UU_00030/3 | Transfer | MC_UU_00030/2 | 31/03/2022 | 30/03/2027 | £1,964,000 |
MC_UU_00030/4 | Transfer | MC_UU_00030/3 | 31/03/2022 | 30/03/2027 | £2,535,000 |
MC_UU_00030/5 | Transfer | MC_UU_00030/4 | 31/03/2022 | 30/03/2027 | £2,771,000 |
MC_UU_00030/6 | Transfer | MC_UU_00030/5 | 31/03/2022 | 30/03/2027 | £2,242,000 |
MC_UU_00030/7 | Transfer | MC_UU_00030/6 | 31/03/2022 | 30/03/2027 | £1,219,000 |
MC_UU_00030/8 | Transfer | MC_UU_00030/7 | 31/03/2022 | 30/03/2027 | £2,464,000 |
MC_UU_00030/9 | Transfer | MC_UU_00030/8 | 31/03/2022 | 30/03/2027 | £2,753,000 |
MC_UU_00030/10 | Transfer | MC_UU_00030/9 | 31/03/2022 | 30/03/2027 | £1,898,000 |
MC_UU_00030/11 | Transfer | MC_UU_00030/10 | 31/03/2022 | 30/03/2027 | £2,148,000 |
MC_UU_00030/12 | Transfer | MC_UU_00030/11 | 14/10/2021 | 30/03/2027 | £1,375,000 |
MC_UU_00030/13 | Transfer | MC_UU_00030/12 | 01/11/2021 | 30/03/2027 | £1,261,000 |
MC_UU_00030/14 | Transfer | MC_UU_00030/13 | 31/03/2022 | 30/03/2027 | £1,238,000 |
MC_UU_00030/15 | Transfer | MC_UU_00030/14 | 31/03/2022 | 30/03/2027 | £2,102,000 |
Title | ART-TRAnslations collaboration |
Description | Collaborated with visual artist Donna McLuskie within ART-TRAnslations project sponsored by LifeArc and co-ordinated by CamRare. We produced a work of art inspired by rare disease research. |
Type Of Art | Artwork |
Year Produced | 2024 |
Impact | Artwork displayed in several high profile settings during 2024, together with information about our research and its relevance to the piece. |
Description | ERI National Research Collaborative steering group membership |
Geographic Reach | National |
Policy Influence Type | Contribution to a national consultation/review |
URL | https://epilepsy-institute.org.uk/ |
Description | ERUK SAC membership |
Geographic Reach | National |
Policy Influence Type | Participation in a guidance/advisory committee |
URL | https://epilepsyresearch.org.uk/our-research/research-strategy/ |
Description | IRDIC interdisciplinary scientific committee |
Geographic Reach | Multiple continents/international |
Policy Influence Type | Participation in a guidance/advisory committee |
URL | https://irdirc.org/activities/task-forces/ |
Description | Muir Maxwell Epilepsy Centre keynote |
Geographic Reach | Local/Municipal/Regional |
Policy Influence Type | Influenced training of practitioners or researchers |
Description | UCL MSc in Developmental Neuropsychology |
Geographic Reach | Local/Municipal/Regional |
Policy Influence Type | Influenced training of practitioners or researchers |
Impact | training in toolkit for integrating genetics into research and practice |
Description | Access to Expertise, within Translational Partnership Award, administered by Cambridge Academy of Therapeutic Science |
Amount | £14,000 (GBP) |
Organisation | Wellcome Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 12/2022 |
End | 09/2023 |
Description | Cambridge Biomedical Research Centre integrative genomics theme |
Amount | £160,000 (GBP) |
Organisation | National Institute for Health Research |
Sector | Public |
Country | United Kingdom |
Start | 09/2022 |
End | 09/2027 |
Description | Cambridge Biomedical Research Centre mental health theme |
Amount | £14,740 (GBP) |
Organisation | National Institute for Health Research |
Sector | Public |
Country | United Kingdom |
Start | 09/2022 |
End | 09/2027 |
Description | Gates Cambridge PhD Scholar |
Amount | £99,526 (GBP) |
Organisation | Gates Cambridge Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 09/2023 |
End | 09/2025 |
Title | FarmApp |
Description | This cross-disciplinary project combines expertise in the genetic basis of intellectual disability and characterizing cognition and behaviour in childhood. The aim is to use standard behavioural measurements and computerised testing methods to assess underlying cognitive mechanisms in children with intellectual disability of known genetic origins. A unique feature is long-term data collection via remote data upload to assess progress in cognitive performance over weeks. |
Type Of Material | Physiological assessment or outcome measure |
Year Produced | 2020 |
Provided To Others? | Yes |
Impact | The method and new tool has been piloted in a cohort of children with ID. Initial study of feasability, validity and utility is available as a preprint and now in press at Child Neuropsychology. We are working toward making the tool accessible for other researchers. |
URL | https://ouncetech.co.uk/projects/?project-309 |
Title | BINGO cohort behavioural dataset |
Description | We have collated medical histories together with standardised questionnaires for >250 individuals with neurodevelopmental disorders of known genetic origin |
Type Of Material | Database/Collection of data |
Year Produced | 2024 |
Provided To Others? | No |
Impact | Analyses of the dataset contribute to the post-diagnostic evidence base for neurogenetic disorders, and stimulate discovery science and translational initiatives |
URL | https://www.mrc-cbu.cam.ac.uk/bingo/ |
Description | 100,000 Genomes Project |
Organisation | Genomics England |
Country | United Kingdom |
Sector | Public |
PI Contribution | Via membership of the Neurology GECip, our programme has conducted two analyses of 100K data. Analyses were carried out by two MPhil in Genomic MEdicine students, both of whom obtained distinctions for their work within this collaboration. Both projects are currently being written up for publication. |
Collaborator Contribution | Genomics England generated the hugely valuable Rare Disorders cohort, with whole genome sequencing and HPO annotations. |
Impact | MPhil thesis: Analysis of Human Phenotype Ontology (HPO) Terminologies in Synaptic Vesicle Cycling (SVC) Disorders. Sokanha Kong. Multidisciplinary - genomic medicine, clinical neuroscience. MPhil thesis: The Genomics of Cerebral Visual Impairment. Emogene Shaw. Multidisciplinary - genomic medicine, ophthalmology, clinical neuroscience. |
Start Year | 2020 |
Description | COIN project |
Organisation | King's College London |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | I am co-investigator on a project led by Charlotte Tye to investigate the impact of the COVID19 impact on individuals with rare neurogenetic disorders and their families. Funded by a project grant from Baily Thomas Charitable Trust |
Collaborator Contribution | Involvement in project design, funding applications, methods development, data analysis and outputs. |
Impact | none to date |
Start Year | 2020 |
Description | Decipher and DDD |
Organisation | The Wellcome Trust Sanger Institute |
Country | United Kingdom |
Sector | Charity/Non Profit |
PI Contribution | Phenotyping investigations of patients diagnosed within the DDD project Analysis of Decipher cohort phenotyping data |
Collaborator Contribution | Anonymised patient phenotyping and genomic data |
Impact | STXBP1 complementary analysis project - Suri et al 2017 STXBP1 phenotyping paper in preparation |
Start Year | 2013 |
Description | IMAGINE parents |
Organisation | IMAGINE ID |
Country | United Kingdom |
Sector | Charity/Non Profit |
PI Contribution | Collaborative access to IMAGINE dataset. Concepts, study design, data analysis, manuscript preparation |
Collaborator Contribution | Conceptual and statistical expertise, manuscript preparation |
Impact | Paper in preparation |
Start Year | 2018 |
Description | IMAGINE parents |
Organisation | University of Birmingham |
Department | School of Psychology Birmingham |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Collaborative access to IMAGINE dataset. Concepts, study design, data analysis, manuscript preparation |
Collaborator Contribution | Conceptual and statistical expertise, manuscript preparation |
Impact | Paper in preparation |
Start Year | 2018 |
Description | IMAGINE parents |
Organisation | University of Cambridge |
Department | Centre for Family Research |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Collaborative access to IMAGINE dataset. Concepts, study design, data analysis, manuscript preparation |
Collaborator Contribution | Conceptual and statistical expertise, manuscript preparation |
Impact | Paper in preparation |
Start Year | 2018 |
Description | SVC iPSC and organoid pilot project |
Organisation | Wellcome Trust |
Department | Wellcome - MRC Cambridge Stem Cell Institute |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | We are contributing information about SYT1 genomic variants within the SVC cohort. We are also contributing the time and expertise of Dr Tess Smith (post-doctoral research associate) who is carrying out the experimental work within this collaboration. We are also purchasing CRISPR-edited cell lines for preliminary experiments. |
Collaborator Contribution | Laboratory facilites and materials |
Impact | Preliminary work in progress |
Start Year | 2023 |
Description | Sarah Gordon SVC physiology Florey Institute |
Organisation | Florey Institute of Neuroscience and Mental Health |
Country | Australia |
Sector | Academic/University |
PI Contribution | We contribute clinical phenotyping and genomic variant information. Gordon and team carry out in vitro functional studies. We integrate this information to characterise the SVC disorders spectrum and discover mechanisms contributing to symptoms and symptom variation. Now funded via Sparks/GOSH award (PI Baker, Co-Pi Gordon) and NHMRC award (PI Gordon, co-PI Baker) |
Collaborator Contribution | Functional studies of SVC neurodevelopmental disorder variants |
Impact | Baker, Gordon et al JCI (2015) Baker, Gordon et al Brain (2018) |
Start Year | 2013 |
Description | Synapse Centre |
Organisation | East Suffolk and North Essex NHS Foundation Trust |
Country | United Kingdom |
Sector | Hospitals |
PI Contribution | I have contributed to discussions about the goals and discussions about this new centre. I have delivered a lecture to the Centre. I have submitted one funding application connected to the Centre, and intend to develop further links and concrete project proposals over the next year. |
Collaborator Contribution | The collaboration is led by Dr Ben Marlow and colleagues, who have spearheaded a vision for a translational research centre for East of England. |
Impact | Interdisciplinary research, linked to a multidisciplinary neurodisability service. |
Start Year | 2020 |
Description | BINGO website rebuild |
Form Of Engagement Activity | Engagement focused website, blog or social media channel |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | We have restructured and rewritten the content for the BINGO project website, including clear description of research project, summaries of previous publications and sign-posting to support organisations |
Year(s) Of Engagement Activity | 2023,2024 |
URL | https://www.mrc-cbu.cam.ac.uk/bingo/ |
Description | BNA Festival of Neuroscience - symposium organising |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Other audiences |
Results and Impact | Organised and chaired symposium on synaptic developmental disorders |
Year(s) Of Engagement Activity | 2023 |
URL | https://meetings.bna.org.uk/bna2023/prog/programme-day/synaptic-neurodevelopmental-disorders-genes-c... |
Description | Baker Gordon Syndrome Foundation website |
Form Of Engagement Activity | Engagement focused website, blog or social media channel |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | Members of our group have produced a research digest, animation and other content for a new family foundation website: https://www.bagosfoundation.org/ |
Year(s) Of Engagement Activity | 2024 |
URL | https://www.bagosfoundation.org/ |
Description | CALM practitioners workshop |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Professional Practitioners |
Results and Impact | I gave a genetics talk within the CALM end-of-study practitioners workshop. Received feedback on presentation which significantly contributed to preparation of publication |
Year(s) Of Engagement Activity | 2023 |
Description | Cambridge Neuroscience Interdisciplinary Seminar - SVC disorders |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Postgraduate students |
Results and Impact | Around 20 investigators and clinicians from across diverse Cambridge departments attended an online talk about SVC disorders. This stimulated new collaborations. |
Year(s) Of Engagement Activity | 2022 |
URL | https://youtu.be/TcDw4L4ysGA |
Description | Cambridge Neuroscience seminar - organisational volunteering |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Postgraduate students |
Results and Impact | 2 team members (Josefine, Tess) played a significant support role for this annual event - Communication and engagement with practitioners, industry and academics to promote Cambridge Neuroscience as a member of the Steering Committee. |
Year(s) Of Engagement Activity | 2023 |
Description | CureGRIN family conference |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | Jess and Kate attended the Gri+Meet event held at UCL in March 2024. Jess gave a great presentation about her project within BINGO. |
Year(s) Of Engagement Activity | 2024 |
URL | https://curegrin.org/ |
Description | DDX3X International conference |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | Jess Martin was invited to give a talk at this international event held in Paris. |
Year(s) Of Engagement Activity | 2023 |
URL | https://ern-ithaca.eu/news/first-international-conference-on-ddx3x-syndrome-october-20/ |
Description | ERUK Shape Network live |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | I contributed a lecture to an ERUK research training day for the SHAPE network. This included people with epilepsy and carers, who act as an advisory group for the funder. |
Year(s) Of Engagement Activity | 2022 |
URL | https://www.youtube.com/watch?v=Dpo87f7QaBI |
Description | Pint of Science Cambridge 2023 |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Public/other audiences |
Results and Impact | Presentation by Kate and Eema at Pint of Science on Rare Minds. Focused on SYT1 / SVC disorders |
Year(s) Of Engagement Activity | 2023 |
URL | https://pintofscience.co.uk/event/rare-mind |
Description | Rare Disease Day 2024 patient-led research webinar |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | Kate gave a 10 minute talk and then participated in panel discussion. Feedback indicated high level of engagement and raising of awareness about mental health and rare conditions |
Year(s) Of Engagement Activity | 2024 |
URL | https://www.rarediseaseday.org/event/rare-disease-day-patient-centred-research-webinar/ |
Description | Rare Disease family day at Sanger |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | Family day for participants on the Next Generation Children's project and other local families affected by rare disease |
Year(s) Of Engagement Activity | 2022 |
Description | RareSummit 2023 |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | Three group members (Kate, Carly, Sam) attended RareSummit at Sanger Wellcome Institute. We acted as volunteers during the day. Kate chaired questions for one session. Carly and Sam provided written summaries of one session for the post-event report |
Year(s) Of Engagement Activity | 2023 |
URL | https://www.camraredisease.org/raresummit23/ |
Description | Unique newsletter article |
Form Of Engagement Activity | A magazine, newsletter or online publication |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Patients, carers and/or patient groups |
Results and Impact | article for Unique newsletter with update on BINGO project and sharing experiences of researchers and families who have taken part |
Year(s) Of Engagement Activity | 2024 |
URL | https://rarechromo.org/ |
Description | University of Cambridge Biological Sciences Open Day October 2023 |
Form Of Engagement Activity | Participation in an open day or visit at my research institution |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Schools |
Results and Impact | Tess Smith - Communication and engagement panellist for a session on graduate programmes available across the Biological Sciences at the University. |
Year(s) Of Engagement Activity | 2023 |