Services provided by HGI

HGI platform delivers services through 3 core laboratories and 2 bioinformatics teams. Each laboratory has distinct service portfolio and matching instrumentation. Related bioinformatics services are provided by two bioinformatics teams or integrated in the core laboratory services. Following tables summarize available technologies and services.

Sequencing technologies

	FIMM Genomics	FUGU	BIDGEN
Illumina SBS short-reads	MiSeq, NovaSeq6000	MiSeqFGx, NextSeq500	2MiSeq, NextSeq500, iSeq100
PacBio long read sequencing			PacBio Sequel II
Capillary sequencing / fragment analysis	ABI3730xl		ABI3130/ABI3500

NGS Services

	FIMM Genomics	FUGU	BIDGEN
Nucleic acid QC	Labchip GX Touch 2100 Bioanalyzer Victor NIVO BluePippin Qubit NanoDrop	4200 TapeStation 2100 Bioanalyzer Victor NIVO Qubit NanoDrop	2100 Bioanalyzer Fragment analyzer BluePippin Qubit NanoDrop
NGS library preparation	x	x	x
Target enrichment / hybridization capture	x	x	x
Metagenomics sequencing		x	x
De Novo genome sequencing			x
Whole Genome Sequencing human and model organisms (WGS)	x	x
Whole Genome Sequencing non-model organisms		x	x
Human exome sequencing (WES)	x	x
Custom targeted sequencing / panels	x	x	x
Transcriptomics / full length RNA-seq	x	x	x
NGS Gene expression / 3' counting	x	x
NGS smallRNA / miRNA analysis	x	x	x
NGS targeted RNA panels	x
NGS single-cell RNA-seq	FIMM SCA Unit	x	x
Tailored amplicon sequencing	x		x
T-cell receptor sequencing (hsTCRB)	x
NGS Mouse speed congenics	x
Cell line identification (fragment analysis)	x	x
Custom NGS assay development	x	x	x

Microarray based and targeted genomics services

	FIMM Genomics	FUGU	BIDGEN
Microarray scanners/readers	Illumina iScan & HiScan Tecan automation
SNP genotyping microarrays (GWAS)	All Illumina arrays
Methylation analysis	Methylation EPIC MassArray Epityper
Targeted SNP genotyping	MassARRAY LightCycler 480 II	Fluidigm Biomark HD
Protein Biomarker Assays		NanoString, Olink
High-throughput qPCR		Fluidigm HD
Gene expression panels		NanoString

Bioinformatics services

	FIMM Genomics	FUGU	BIDGEN	FIMM NGS Bioinfo	BI-BIOINFO
Resequencing / variant calling analysis	Included in NGS service	As a separate service		As a separate service
Copy-number alteration discovery analysis				As a separate service
RNA-seq and miRNA-seq data-analysis	Included in NGS service	As a separate service		As a separate service	As a separate service
Deep amplicon sequencing data analysis	Included in NGS service	As a separate service		As a separate service
Differential expression data-analysis		As a separate service		As a separate service
Metagenome analysis		As a separate service	As a separate service
Genome assembly (de novo)			As a separate service
Genome annotation					As a separate service
Assorted web servers					As a separate service