Research · Topics
Topics
The shared vocabulary of the site. People, publications, tools, news and positions are tagged with these topics, and each topic page gathers them.
Single-cell genomics
Measuring the molecules of individual cells, such as their RNA, to tell cell types and states apart.
3 people · 5 publications · 12 tools · 1 theme
Spatial transcriptomics
Measuring gene expression while keeping the position of each cell or spot in the tissue.
1 person · 1 publication · 1 tool · 1 theme
Cell atlases
Reference maps of all cell types and states in an organ or organism, built from many datasets.
3 people · 1 publication · 1 tool · 1 theme
Generative models
Models that learn the distribution of the data and can generate new samples from it.
3 people · 2 publications · 4 tools · 1 theme
Foundation models
Large models pretrained on broad data that are adapted to many tasks.
2 people · 1 theme
Perturbation modelling
Predicting how cells respond to drugs, genetic changes and other interventions.
1 person · 2 publications · 3 tools · 1 theme
Multimodal integration
Combining several measurements of the same cells, such as RNA, chromatin and protein.
1 person · 1 theme
Clinical data
Analysing health records and clinical measurements together with molecular data.
3 people · 1 publication · 1 tool · 1 theme
Cell dynamics
Inferring how cells change over time, for example during development or disease.
1 person · 2 publications · 2 tools · 1 theme
RNA velocity
Estimating the future state of a cell from the ratio of unspliced to spliced RNA.
1 person · 1 publication · 1 tool · 1 theme
Optimal transport
Mathematics for matching distributions, used to map cells across time points and space.
2 people · 1 publication · 1 tool · 1 theme
Benchmarking
Comparing methods on shared data and metrics to see which works best for which task.
1 person · 1 publication · 2 tools · 1 theme
Best practices
Recommended workflows for analysing data, written down for others to follow.
2 people · 1 publication · 1 tool · 1 theme
Open-source software
Tools whose code is public, documented and maintained for others to use.
2 people · 10 publications · 11 tools · 1 theme
Deep learning
Neural networks with many layers that learn representations directly from data.
4 people · 1 publication · 2 tools · 1 theme
Data integration
Removing batch effects so that datasets from different labs and technologies can be analysed together.
1 person · 1 publication · 3 tools · 2 themes