Genomics and Transcriptomics

Coordinator

Sandra Camino
E-mail: SCamino@santpau.cat / transcriptomica@santpau.cat

Tel: 935537226 (internal ext: 7226/8102)

Staff

Sonia Alcolea
E-mail: SAlcolea@santpau.cat / transcriptomica@santpau.cat

Int. Ext.: 1285

Functions

The Genomics and Transcriptomics platform is a core facility focused on providing advice, offering specific services in genomics and transcriptomics techniques, and making specialized equipment available to researchers and the scientific community.

Specifically, the GT Platform offers the following services:

-Quantification and quality control of nucleic acid samples (Qubit 3.0, Nanodrop 2000, and Bioanalyzer 2100)

-Chromium Single Cell Analysis: Transcriptomic,epigenomic and proteomic analysis from fresh single cells or FFPE samples. Available techniques (Next-GEM/GEM-X): Single Cell Gene Expression (3′, 5′, Flex), Single Cell Immune Profiling, Single Cell ATAC, Single Cell Multiome (ATAC+GEx)

-Sample processing for Microarrays studies (gene expression, miRNA profiles, cytogenetics, GWAS)

-Real-time PCR projects (gene expression, miRNA detection, allelic discrimination, CNV, absolute quantification, etc.)

-Digital PCR: Copy number variation (CNV) with very high sensitivity, very low RNA and DNA target detection (liquid biopsy, very low gene expression, etc.), library quantification, analysis of DNA or RNA samples with high levels of inhibitors (versus qPCR), etc.

-Next-Generation Sequencing:

• library preparation and sequencing: exomes, targeted RNA or DNA (Ampli-Seq technology), small RNA, de novo sequencing, ChiP-Seq, 16S gene, metagenomics, etc.
• library preparation: RNA-seq, etc.

-Sanger Sequencing: DNA sequencing, mutation and polymorphism analysis, DNA methylation studies, microorganism identification, gene editing confirmation (CRISPR, TALEN, etc),…

-Fragment analysis: cell line authentication, copy number (MLPA), LOH, genotyping studies, microsatellite instability, DNA repeat expansion studies, etc.

-Omics Data analysis

Some of our equipment used to carry out these techniques is accessible to researchers after specific user training.

PSCT-GT offers a quality service guaranteed by the ISO 9001: 2015 certification. GT platform has been a Quality Accredited facility since 2009.

Equipment

• NEW! Chromium iX, Upgrade GEM-X (10x Genomics)
• NEW! SeqStudio Flex 8 (Thermo Fisher Scientific)
• NEW! Absolute Q Digital PCR (Thermo Fisher Scientific)
• Affymetrix GS 3000 System Array Platform (upgrade 7G)
• 7900HT Fast Real-Time PCR System (96-well, 384-well, and TLDA blocks) (Applied Biosystems – Thermo Fisher Scientific)
• Bioanalyzer 2100 (Agilent Technologies)
• Nanodrop 2000 (Thermo Fisher Scientific)
• Qubit 3.0 (Thermo Fisher Scientific)
• Infinite M200 PRO (Tecan) Microplate Reader: Spectrophotometer, Fluorometer, Luminometer
• Ion GeneStudio S5 Next-Generation Sequencing System, with Ion Chef System (ThermoFisher Sci).

Grants

• IRHSCSP. “Affymetrix Microarrays System”. Co-funding: FEDER.
• IRHSCSP. “DNA genetic analyzer and protein arrays platform for the Genomics and Proteomics area of the Technical Laboratory for scientific and technical support”. IF07/3675-1. Co-funding: FEDER.
• IIBSantPau. “Adquisición de equipo para análisis genómico de célula única para la plataforma de Genómica y Transcriptómica” (IFEQ22/00041). Institute of Health Carlos III. Next Generation Founding (UE).
• IIBSantPau. “Adquisición equipo de electroforesis capilar. Secuenciador 8 capilares para la plataforma de Genómica y Transcriptómica” (IFEQ22/00059). Institute of Health Carlos III. Next Generation Founding (UE).
• IIBSantPau. “Adquisición de un equipo de PCR digital para la plataforma de Genómica y Transcriptómica” (IFEQ22/00060). Institute of Health Carlos III. Next Generation Founding (UE).

Forms

Genomics and Transcriptomics Platform form

Last update: 06 de June de 2024