MOLECULAR, CELL BIOLOGY AND BIOINFORMATICS
Main duties
- Services to ICVV and external researchers in bioinformatics, biostatistics and molecular and cell biology.
- Advice on new omics and digital technologies applied to grapevine and wine sciences.
- Management of a bioinformatics, data analysis and modeling platform for viticulture and enology.
- Maintenance of ICVV computational resources and advice on accessing external resources.
- Maintenance and handling of ICVV common equipment in molecular and cell biology
Equipment and software
- Hidalgo server: bullx R423E4 with 2 nodes Es-2660 (20x 2.6 GHz CPU, 32 TB)
- Structural bioinformatics software:
in-house: pyDock, ODA, NIP
external: AlphaFold, FTDOCK, ZDOCK, GLIDE, AMBER
- Structural bioinformatics web servers:
pyDockWEB
pyDockDNA
pyDockEneRes
CCharPPI
SKEMPI
- Real time PCR qPCR Applied Biosystems 7500
- Flow cytometer Cytoflex (Beckman)
- Plate reader TECAN
- DIC and fluorescence microscope Nikon NI-E
- Estereo microscope Zeiss Discovery V20
- Ultracentrifugue Optima XE (Beckman)
- 3rd generation sequencer MinION (Oxford Nanopore)
- Espectrophotometer Nanodrop
- Fluorometer Qubit
Available skills
- Structural bioinformatics: molecular modeling, AlphaFold prediction, protein engineering and design, docking and molecular recognition, molecular dynamics, functional analysis, modeling and characterization of interactions, impact of variants
- Genomic bioinformatics (omic data analysis): genome assembly and annotation, genetic variant identification, transcriptome analysis of differential gene expression
- Biostatistics and modeling: statistical analyses, machine learning methods, multi-parametric predictors, population dynamics models
- Advice on the use of ICVV computational resources and other ones available at CSIC (CESGA, DRAGO).
- Advice on handling of ICVV molecular and cell biology equipment
- Mocrobial enzymatic kinetics in microplate (TECAN)
- Grapevine genotyping and varietal identification (microsatellites and SNP; outsourced)
- Biomolecule quantification (Nanodrop and Qubit)
Functioning, access and other practical aspects
- The 2024 updated provision and fees catalogue for ICVV users is available upon request, as well as that for all CSIC institutes, and other centers and companies external to CSIC (contact the Service).
- On-line application form (contact the Service).
- Service equipment reservation calendars (contact the Service).