Experience

Centre for Research in Agricultural Genomics - CRAG

• Spain
• Research Services
• 100 - 200 Employee

• • Jan 2023 - Present

  Projects Involved: - Analysis of RNA-Seq data in the context of the METAPIGEN project: www.immupigen.com/🖥️ Tasks performed:- Programming in AWK, Bash, Python and R.- Use of Nextflow workflows- QC (fastQC, multiQC), addaptor trimming (atria, trimmomatic) Mappign (STAR) and quantification (RSEM) of RNA-Seq data.- RNA-Seq data management and visualization- Diifferential expression anaylsis (DESeq2) - Application of Machine Learning algorithms to analyise the data- Gente Ontology encrihment analysis (shinyGO, ClueGO)- Hardware managemenet (installation of SSD and HDD)- Installation and service of Linux OS (Ubuntu)👤 Group leader: Josep Mª Folch Albareda (UAB Associate Professor) Show less

• • Apr 2021 - Dec 2022

  🥼 Projects involved:- Experiments of high-troughput qPCR microarray experiments as a service for external contractors (6).- Reinforcment in the internal Animal Genomics reserach group molecular genomics experiments.- Mentoring of undergraduate students (2).📑 Main tasks:- RNA extraction (Maxwell RSC, Ribopure)- RNA purification (CleanUp)- DNA extraction (phenol-clorophorm)- DNA & RNA quantification (Nanodrop, Qubit)- RNA integrity assessment (Agilent BioAnalyzer)- Primer design and testing (PCR, qPCR, taqMan probes)- qPCR - PCR- Electrophoretic techniques - Retortranscription of RNA to cDNA - Micosoft Office- Automation of routine experimental designs using Excel- qPCR microarray data analysis- Design and implementation of a custom data preproceeing and analysis pipelinje for qPCR microarray data (R, Bash, AWK)- General lab management (databases, fridges, freezers) 👤 Group leader: Josep Mª Folch Albareda (UAB Associate Professor) Show less

• • Mar 2022 - Jul 2022

  📜 Thesis title:"Differential expression analysis of genes and isoforms from RNA-Seq data of tissues related with fatty acid metabolism (liver, backfat and muscle) comparing extreme animals regading fatty acids profile in three different backcrossed pig populations"🖥️ Tasks performed:- Programming in Bash, Python and R.- RNA-Seq data processing, management and visualization- Creation of custom snakemake workflows for RNA-Seq data analysis - Diifferential expression anaylsis (edgeR, DESeq2, EBSeq) - Gente Ontology encrihment analysis using ClueGO Cytoscape plug-in- Workstation mantinence (file inventory and management, conda environments management, package installations and updates)- Extensive use of ENSEMBL database - Use of Linux OS (Ubuntu)👤 Group leader: Josep Mª Folch Albareda (UAB Associate Professor) Show less



Centre for Research in Agricultural Genomics - CRAG

• Spain
• Research Services
• 100 - 200 Employee

• Student Internship

  • Sep 2020 - Jan 2021

  🥼 Projects involved: - Experiments of high-troughput qPCR microarray experiments as a service for external contractors (6). - Sequencing of interest regions to determine segregation of polymorphism in extreme animal for cretain phenotypes. 📑 Main tasks: - RNA extraction (Maxwell RSC, Ribopure) - RNA quantification (Nanodrop) - Primer design and testing (PCR) - qPCR - PCR - Electrophoretic techniques - Retortranscription of RNA to cDNA - SANGER sequencing - Micosoft Office 👤 Group leader: Josep Mª Folch Albareda (UAB Associate Professor) Show less