Functional genomics

The Functional Genomics platform allows researchers to access different technologies and protocols related to functional genomics. The services it offers range from sample management for genomics projects, such as quantitative and qualitative analysis of nucleic acids, to studies of transcriptional profiles of gene panels or the entire genome, genotyping. low- or high-density, gene dose analysis, and gene sequencing of genome regions (mainly gene panels). To conduct these studies it has several platforms, including real-time PCR, digital quantization, microarray and mass sequencing (NGS) platforms. In addition to these services, it also offers advice on experimental design for various studies.

Facility

Quality Control

  • Synergy2 (BioTek)

  • NanoDrop 1000 (Thermo Scientific)

  • Qubit Flex (Invitrogen)

  • Covaris S220 (Covaris)

Single Cell Analysis

Spatial Transcriptomics

Sequencing

  • MiSeq (Illumina)

Automation

  • Zephir G3 NGS iQ Workstation (Revvity)

Microarray Analysis

  • GeneChip Genetic Analysis System (Affymetrix)

Other Technologies

  • BioMark (Fluidigm)

Provisional Contacts

Magda Pinyol | Platform Manager |  mpinyolm@recerca.clinic.cat  | 932275400 (2184) | ORCID |

NGS Area Manager

Anna Enjuanes |  enjuanes@recerca.clinic.cat  | ORCID

Transcriptòmics Area Manager

Helena Suárez |  hesuarez@recerca.clinic.cat  | ORCID

Lab techinicien

Montse Sánchez |  msreina@recerca.clinic.cat 

Laura Pla |  lpla@recerca.clinic.cat 

Platform Manager

Magda Pinyol |  mpinyolm@recerca.clinic.cat  | ORCID

Aina Rodríguez Vilarrupla, PhD | Core Facilities Director |  aina.rodriguez@idibaps.org  |  ORCID 

Owners

Centres CERCA List

Equipments & Services Offered

It consists of two areas: transcriptomics area and Next Generation Sequencing (NGS) area and also offers services from DNA and RNA quality control through platforms such as Synergy2, Nanodrop1000, Qubit 2.0 or TapeStation 4200 to more technologies. complex. In the area of ​​transcriptomics there are two Affymetrix array platforms: GeneTitan, which allow to make transcripts of whole genome or GWAS in plate format (16, 24, 96 samples) and the GeneChipSystem platform that allows to work with smaller and individual formats and also analyze whole genome transcriptional profiles, gene dose analysis,…. Nanostring’s nCounter platform is also available for analyzing gene expression or dose profiles, a technology that gives very good results in samples extracted from FFPE. There’s also the qPCR platform, Fluidigm’s BioMark, a real-time PCR that allows for expression analysis, number of copies, and digital PCR. The NGS area has the MiSeq platform where gene or microbiome panel sequencing projects are developed. A NextSeq 2000 has recently been incorporated to incorporate RNASeq, WES, gene panel analysis and microbiome protocols. A fragmenter, Covaris S220, is also available to set up samples for further processing and a pyromarker, Pyromark Q24, to analyze the presence of an allele or the state of methylation. Finally, there is a liquid robot, Biomek FX from Beckman, which has two heads, one for 96 and the other for 8 samples to automate different technologies. EQUIPMENT Synergy2 NanoDrop 1000 Qubit 2.0 Bioanalyzer 2100 (Agilent) TapeStation 4200 (Agilent) BioMark (Fluidigm) nCounter FLEX (Nanostring) GeneChip System (Affymetrix) GeneTitan Genetic Analysis System (Affymetrix) Biomek FX Liquid Robot (Beckman) Microarray Analysis Platform (Agilent) PyroMark Q24 (QIAGEN) Covaris S220 MiSeq (Illumina) NextSeq 2000 (Illumina)

Quantification of nucleic acids by absorbance (Nanodrop) or fluorimetry (Qubit) Nucleic acid quality analysis and obtaining RIN or DIN data (Bioanalyzer 2100 and TapeStation 4200, Agilent) Low-density PCR expression and genotyping analysis in real time (BioMark, Fluidigm) Digital PCR (BioMark, Fluidigm) Digital quantification of nucleic acids (nCounter, Nanostring) Gene expression analysis (GE) and variations in the number of copies (CNV) using microarrays (GeneChip System, Affymetrix) High Density Gene Expression (GE) and Genotyping (GWAS) Analysis (GeneTitan, Affymetrix) CGH-Arrays (Agilent) Nucleic acid and chromatin fragmentation (Covaris S220) Pyrosequencing (PyroMark Q24, QIAGEN) Generation of libraries by NGS Next generation sequencing (MiSeq, Illumina)

Categorització

RIS3CAT domains & other

RIS3CAT Domains
CERCA GINYS Categories

GINYS-IDIBAPS-002

Access procedure & Fares

Open

Institutional Networks