Hi! I’m Kalpani de Silva, a Bioinformatics Scientist with a PhD in Bioinformatics and over 6 years of experience in computational biology, Bulk RNA-seq Analysis, single-cell transcriptomics, and circular RNA research.
- Genomic data analysis (WGS, RNA-Seq, circRNA)
- Bioinformatics pipeline development
- Machine learning and statistical analysis
- Python (NumPy, pandas, matplotlib, seaborn, scikit-learn, TensorFlow)
- R (dplyr, tidyr, ggplot2, msigdbr, biomart, clusterprofiler, seurat, scDblFinder, harmony, slingshot, DESeq2, HTSeq, DEXSeq2, rMATS, ClusterProfiler, GSEA)
- Bash in HPC environment(Slurm, PBS)
- Sequence Mapping & Variant Calling tools (BWA, STAR, Samtools, GATK, VCFtools, BCFtools, and BEDtools)
- Single-Cell Neutrophil heterogenity in COVID19 Study: Integrating single-cell and spatial-omics data.
- Circular RNA Translation Tool: Detecting translation from circRNAs.
- Single-Cell PDAC Study: Integrating single-cell and spatial-omics data.
- **Alternative Splicing and circRNA Biogenesis **: Integrating Bulk RNA-seq, NET-seq, Ribo-seq data
Feel free to explore my repositories and connect with me for collaborations!