I am a Bioinformatician - Life Scientist
I hold a PhD in Structural Biology (2005 EMBL-Grenoble/France)
I study the Living on/with a keyboard:
- for the Beauty of it;
- to reverse-engineer it;
- to find some useful biologics on the way
Have a look to some of my collaborative achievements at my ORCID-ID
I am expert in the Processing and Analysis of High Throughput Data:
- Nucleic acids Sequencing (short+long, modified+native, old+new platforms, e.g PacBio, scRNAseq, 5'immuno profiling)
- Imaging (spatial or not, e.g 10x genomics)
- Biomolecules' 2D and 3D Structures
- Databases mining (and building)
- Multiomics data integration
- Support in biostatistics
- Support in OMICS design
- Publication-grade plots
My drylab technical skills:
- The old good R, bash, Python, AWK: for data acquisition, processing, exploration, extraction, analysis, reporting, plotting, publishing
- Packages and workflows for OMICS. There are so many (they keep changing), I adjust/adapt accordingly to the needs, e.g lately QIIME2, metagenomics, scRNAseq and spatial transcriptomics ecosystems
- Loving C: the master ring to control them all
- Full dive into CS stuff (assembly, os, architecture, logic gates, automata, formal methods)
- Basic knowledge in MySQL, Java, as required
My biological expertise:
- Biomolecules structural studies and Biophysics: Crystallography, Electron Microscopy, NMR, Circular Dicroism, Analytical Ultracentrifugation
- Biochemistry: from design (cloning) to production (E. coli, insect) and purification (FPLC) of recombinant proteins
- Attenuated live vaccine development in mice within high containment P3 facility
- (pseudo-)Pseudogenes/retrogenes and "dark-matter" DNA as modulators of human cancer cells
- Chromatin/epigenetics' Antibodies design and QC
- Precision medicine: gene targeting (KO/KI) in human paired cells
- Bacteriomes, phagomes, microbiomes
We are all standing on the shoulders of Giants:
- Ken Thompson, Dennis Ritchie, Linus Torvalds
- Robert Gentleman, Ross Ihaka, Hadley Wickham, Guido van Rossum
- Barbara McClintock, Mark Gernstein, Henrik Kaessmann
- Friedrich Miescher, Phoebus Levene, Erwin Chargaff, Rosalind Franklin and Maurice Wilkins