2022 01 11 - aasiyahrashan/PhD-Aasiyah GitHub Wiki
Background
- PhD started Sep 2021. Funding ends Sep 2026. Hoping to finish in approx 3 years, Sep 2024.
- CDT funding 0.5.
- Current Wellcome funding 0.4 on self-employed basis, should move to 0.5 on contract.
- EMAP flexible hours up to 0.2. Need to revisit.
- Expectation is that I spend around a day supervising a CCAA team who work on the pipeline and analysis.
- Rest of the Welcome time is spent delivering the PhD and potentially working on other grants.
- Sent email to Karla asking for supervision.
Roadmap
Stage 1: Create an OMOP database for CCAA.
- Collaborate with CCHIC to make sure mappings and structure align. Consider the possibility of shared software.
- Also consult/consider EHDEN/NICE and Epimed structure, as per grant extension.
- CCAA OMOP should contain information on:
- Antibiotics
- Severity
- Organ support
- Covid
Stage 2: Develop data quality checks for OMOP (Great Expectations project)
- CCHIC team already considering this. We should try sharing software and packages.
- Checks would ideally be 'good enough' for semi-real time decision making, though current CCAA development is aimed at retrospective studies only.
- Potentially build an ML model to decide when data is good enough.
Stage 3: use the OMOP database to answer a couple of research questions. Current questions on the proposal are:
- What effect does adhering to 'current' covid guidelines have on outcomes in UCLH and Asia?
- Has the advantage that data is available and likely to be relatively similar between the 2 locations.
- Can call it 'causal inference' and use TMLE.
- An unspecified question related to the effect of starting/stopping interventions. The point is to have longitudinal data from both locations which we use to understand what cadence of data the ML/TMLE models need.
- Antibiotics
- Steroids
- IMV
- Trache
Potential alternatives.
- Community acquired pneumonia instead of covid.
- Build continuously updating LoS model. Not causal inference, but allows downsampling for cadence.
- VAP
Stage 4: Make sure the questions we answer have a 'causal inference' twist
Action points
- Aasiyah create Gantt chart for points above.
- Revisit conversation on working hours with emphasis on EMAP time. Need to be careful not to do more than full time when Welcome contract starts.
- Steve put Aasiyah in touch with CCHIC devs (Ricardo/Ed) to move conversation on stages 1 and 2 forward.