The Candiolo Genomics Centre is a partnership between the Genomics Units of Istituto Nazionale Oncologico Candiolo (INOC) and Italian Institute for Genomics Medicine (IIGM). The Centre’s core mission is to provide state-of-the-art sequencing and bioinformatics services for the research groups of INOC and IIGM as well as to support the INOC’s Biobank and large-scale clinical sequencing projects. The Centre also offers its sequencing and bioinformatics services to external users from academia and industry. An additional important mission of the Centre is to drive innovation by implementing customized workflows, with a focus on their application to challenging clinical specimens, such as FFPE tissues.
Type of services offered
| STANDARD SERVICES | ||
| SERVICE | Service code | ACTIVITIES |
| Real-time qPCR | ST1 | RT-PCR |
| Digital Droplet qPCR | ST2 | Digital Droplet qPCR |
| Only QC (Bioanalyzer/Tape Station + Qubit) | ST3 | • Qubit [concentration] • Spectrometer [concentration and purity] • Bioanalyzer or TapeStation [integrity] |
| Only sequencing | ST4A | Illumina Sequencing |
| Only sequencing + Pool preparation | ST4B | • Pool preparation (libraries concentrations and QC provided by the user) + pool QC • Illumina Sequencing |
| Whole Genome Sequencing (WGS) | ST5 | QCs + Illumina DNA Prep + NovaSeq Sequencing |
| Whole Exome Sequencing (WES) | ST6 | Illumina DNA Prep with Exome 2.5 Enrichment + NovaSeq Sequencing |
| TruSight Oncology 500 | ST7A | QCs + Covaris + TruSight Oncology 500 + NovaSeq Sequencing |
| TruSight Oncology HRD | ST7B | QCs + Covaris + TruSight Oncology 500 HRD + NovaSeq Sequencing |
| Total RNAseq | ST8 | QCs + Illumina Stranded Total RNA Prep with Ribo-Zero Plus (or TruSeq Stranded Total RNA) + NovaSeq Sequencing |
| Poly(A) RNAseq | ST9 | QCs + Illumina Stranded mRNA Prep (or TruSeq Stranded mRNA Prep) + NovaSeq Sequencing |
| SPECIALIZED SERVICES | ||
| SERVICE | Service code | ACTIVITIES |
| Nanopore Services | ||
| Nanopore WGS 30X | SP1 | QC + Nanopore Library Prep + Sequencing |
| 10X Services | ||
| 10x Visium High-Definition (HD), CaptureArea6.5mm | SP2A | RNA extraction + QC + RT-PCR + Library Prep + QC + Sequencing |
| 10x Visium High-Definition (HD), CaptureArea11mm | SP2B | RNA extraction + QC + RT-PCR + Library Prep + QC + Sequencing |
| 10x scRNA-seq | SP3 | QC + Library Prep + Sequencing |
| 10x scATAC-seq | SP4 | QC + Library Prep + Sequencing |
| 10x Multi-ome | SP5 | QC + Library Prep + Sequencing |
| Other NGS Services | ||
| Plate-based scDNA-seq | SP6 | QC + Library Prep + Sequencing |
| Plate-based scRNA-seq | SP7 | QC + Library Prep + Sequencing |
| Library prep for ChIPseq/Cut&Run | SP8 | QC + Library Prep + Sequencing |
| Library prep for ATAC-seq | SP9 | QC + Library Prep + Sequencing |
| CUT-seq | SP10 | QC + Library Prep + Sequencing |
| Target sequencing with custom panel | SP14 | QC + Library Prep + Sequencing |
| Illumina Beadchips analysis | ||
| Illumina BeadChip Methylation Profiling | SP15A | Sodium Bisulphite conversion + BeadChip Analysis |
| Illumina BeadChip Genotyping | SP15B | BeadChip Analysis |
Main technologies/platforms available
- Illumina platforms (NovaSeq 6000; NextSeq 500; MiSeq)
- Nanopore platforms (PromethION 24; GridION)
- 10x platforms (Chromium X; CytAssist)
- Robotics for high throughput and miniaturization (Biomek i7; Tecan Freedom EVO; Hamilton; I.DOT)
- Vizgen MERSCOPE for highly multiplexed DNA/RNA fluorescence in situ hybridization (FISH)
Type of samples accepted
- Extracted nucleic acids from any species, including microbial DNA for metagenomics
- Immortalized cell lines (human and mouse)
- PBMCs and organoids
- Fresh-frozen and FFPE tissues (human and mouse)
Team
- Nicola Crosetto, MD, PhD (Scientific Coordinator)
- Simonetta Guarrera, MSc (Operations Coordinator)
- Alice Bartolini, PhD (Laboratory Technician / Genomics)
- Daniela Cantarella, PhD (Laboratory Technician / Genomics)
- Beatrice Fenoglio, MSc (Laboratory Technician / Automation & Innovation)
- Katiuscia Gizzi, BSc (Laboratory Technician / Genomics)
- Ottavio Lischio, MSc (Pipeline Developer / IT Specialist / Bioinformatics)
- Stefano Lise, PhD (Bioinformatics Unit Coordinator / Bioinformatics)
- Barbara Martinoglio, PhD (Laboratory Technician / qPCR and ddPCR)
- Caterina Parlato, BSc (Laboratory Technician / Genomics)
- Roberta Porporato, PhD (Laboratory Technician / In situ technologies)
- Francesca Taormina, MSc (Laboratory Technician / Genomics)