Rakeshlal Kapuge
A5077265547- Single-cell and spatial transcriptomics
- Congenital heart defects research
- Inflammatory Bowel Disease
- Birth, Development, and Health
- Cell Image Analysis Techniques
- IL-33, ST2, and ILC Pathways
- Congenital Heart Disease Studies
- COVID-19 Clinical Research Studies
- SARS-CoV-2 and COVID-19 Research
- T-cell and B-cell Immunology
- Microscopic Colitis
- Craniofacial Disorders and Treatments
- Cancer Immunotherapy and Biomarkers
- Asthma and respiratory diseases
- Cardiovascular Function and Risk Factors
- Receptor Mechanisms and Signaling
Wellcome Sanger Institute
2023-2025
The function of a cell is defined by its intrinsic characteristics and niche: the tissue microenvironment in which it dwells. Here we combine single-cell spatial transcriptomics data to discover cellular niches within eight regions human heart. We map cells microanatomical locations integrate knowledge-based unsupervised structural annotations. also profile cardiac conduction system
Human embryonic bone and joint formation is determined by coordinated differentiation of progenitors in the nascent skeleton. The cell states, epigenetic processes key regulatory factors that underlie lineage commitment these cells remain elusive. Here we applied paired transcriptional profiling approximately 336,000 nucleus droplets spatial transcriptomics to establish a multi-omic atlas human cranium development between 5 11 weeks after conception. Using combined modelling data,...
Abstract Developmental dynamics encompass both the specification of cell types and their spatial organisation into multicellular niches. Here we harness power single-cell multiomics to unravel embryonic foetal cardiac tissue niches, which lead development a new tool, TissueTypist. We reveal that cardiac-resident macrophages likely originate from yolk sac, forming heterogeneous subsets. CX3CR1 + with microglia-like profile localise in sinoatrial node, may contribute axon guidance for...
Abstract The human heart and adjoining great vessels consist of multiple cell types vital for life, yet many remain uncharacterised molecularly during development. Here, we performed a high-resolution profiling the first second trimesters, defining 63 with distinct identity location-specific signatures. We reveal previously unreported types, including pericardium ductus arteriosus. At ventricles, identified signatures involved in establishing trabeculation-compaction right-left axes...
Abstract The gastrointestinal tract is a multi-organ system crucial for efficient nutrient uptake and barrier immunity. Advances in genomics surge diseases 1,2 has fuelled efforts to catalogue cells constituting tissues health disease 3 . Here we present systematic integration of 25 single-cell RNA sequencing datasets spanning the entire healthy development adulthood. We uniformly processed 385 samples from 189 controls using newly developed automated quality control approach (scAutoQC),...
Chronic inflammation is a driver of many lung and airways diseases. A key component airway the cross-talk between epithelial cells resident immune cells. Using single cell sequencing spatial transcriptomics, we identified previously unknown signalling circuits CD4 T via MHCII in healthy human lungs (Madisoon, Oliver et al. Nature Genetics 2023). Extending on these observations, investigated immune-epithelial asthma, condition with genetic associations to MHCII-dependent helper genes. We...
The gastrointestinal (GI) tract consists of connected organs, from the oral cavity to rectum, which function ensure efficient nutrient uptake and barrier immunity. Diseases GI affect millions worldwide as such there are now over 25 published single cell RNA-sequencing (scRNAseq) datasets surveying tract, profiling specific anatomical regions, lineages, ages diseases. To consolidate these efforts, we harmonised integrated scRNAseq across whole developing adult human tissues, well newly...