0000-0001-9209-5403

Molecular and computational biologist at the Netherlands Cancer Institute (Amsterdam, The Netherlands).My research is focussed on cancer epigenomics and gene (de)regulation.

Expertises:

• Epigenomic profiling: ChIP-seq, ATAC-seq, CUT&Tag/RUN
• Transcriptomics: RNA-seq
• 3D genome organization: Hi-C, 4C-seq
• Interactome: RIME and IP-MS

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1. RsebRsebPublic

   An R-package for daily tasks required to handle biological data as well as avoid re-coding of small functions for quick but necessary data management.

   R 1

2. SPACCaSPACCaPublic

   Snakemake Pipeline for the Analyses of ChIP-seq data in Cancer samples

   Python

3. snakeATACsnakeATACPublic

   Snakemake pipeline for analysis and normalization of ATAC-seq data starting from fastq.gz files.

   Python 2

4. ChIP_ZwartChIP_ZwartPublic

   ChIP-seq pipeline specific for the Zwart lab

   Python

5. snHiCsnHiCPublic

   Snakemake pipeline for analysis and normalization of Hi-C data starting from fastq.gz files. It includes the possibility to perform grouped analyses, TAD, loops and stripes detections, as well as d…

   Python 4

6. DEprotDEprotPublic

   Package to impute, normalize and perform differential analyses on proteomics data (LFQ-based)

   R