DNA sequencing
Whole Exome Sequencing (WES)
Vascular Genetix offers Human WES service for accurate variant detection using the Illumina NovaSeq 6000 and Dragen Bio-IT platforms.
Available workflow options:
- 6 Gbp standard germline
- 12 Gbp clinical germline and
- 18 Gbp somatic mutation analysis
Specifications
Sample: ≥20 μl, ≥5 ng/μl High quality DNA
Library preparation: Twist Exome 2.0 Kit with UDIs targeting 36.5 Mb of human protein coding and non-coding regions incl. mitochondrial genes
Inclusions (Sequencing, Bioinformatics, Raw data transfer): WES analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, enrichment, variant calling, annotation and clinical reports); free data transfer of FastQ, Bam, Vcf files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150 bp paired-end run; Seq throughput: 6/12/18 Gb per sample; Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
Human Whole Genome Sequencing (WGS)
Vascular Genetix offers WGS service for accurate variant detection using the Illumina NovaSeq 6000 and Dragen Bio-IT platforms.
Available workflow options:
- PCR-free workflow options for human and large non-human genomes
- PCR-amplified and size-selected option for small genomes
- Resequencing @ ≥ 30x genome coverage
- De novo Sequencing @ ≥ 60x genome coverage
Specifications
Sample: ≥20 μl, ≥5 ng/μl High quality DNA
Library preparation: NEXTFLEX Rapid XP DNA Seq Kit v2 with UDIs
Inclusions (Sequencing, Bioinformatics, Raw data transfer): WGS analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, variant calling, annotation and reports) ;
free data transfer of FastQ, Bam, Vcf / Fasta, Gbf files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150 bp paired-end run; Seq throughput: ≥ 30x/60x genome coverage, Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
Shotgun Sequencing
Shotgun metagenomic sequencing provides not only taxonomic information, but enables functional analysis of the genes present, providing insight into the important pathways of microbial communities.
Vascular Genetix offers sequencing service for comprehensive metagenomic analyses using the Illumina NovaSeq 6000 and Dragen Bio-IT platforms.
Available workflow options:
- Standard Shotgun Sequencing @ 20 M PE reads,
- Comprehensive Shotgun Sequencing @ 40 M PE reads,
- Deep Shotgun Sequencing @ 60 M PE reads
Specifications
Sample: ≥20 μl, ≥10 ng/μl High quality DNA
Library preparation: NextFlex Rapid XP DNA-Seq kit v2 with UDIs (PerkinElmer)
Inclusions (Sequencing, Bioinformatics, Raw data transfer): Our analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, annotation and functional metagenomic reports);
free data transfer of FastQ, Bam files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150 bp paired-end run; Seq throughput: 20/40/60M PE read per sample; Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
Targeted Sequencing
Targeted sequencing (Target-Seq) provides the analysis of targeted gene panel variance and structure. Target-Seq enables accurate detection of single nucleotide and structural variations of custom human or non-human genes.
Vascular Genetix offers Human WGS service for accurate variant detection using the Illumina NovaSeq 6000 and Dragen Bio-IT platforms.
Available workflow options:
- Multiplex PCR-based workflow options for analysis of few genes (cancer hotspot genes, BRCAs, HLAs)
- Target-enrichment based analysis of custom gene panels (up to hundreds of genes)
Specifications
Sample: ≥20 µl, ≥10-100 ng/µl High quality DNA
Library preparation: Miscellaneous
Inclusions (Sequencing, Bioinformatics, Raw data transfer): Target-Seq analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, annotation and variant reports);
free data transfer of FastQ, Bam files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150 bp paired-end run; Seq throughput: 100x coverage; Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
Whole Genome Chromatin IP Sequencing (ChIP-Seq)
ChIP-Seq combines chromatin immunoprecipitation (ChIP) with massively parallel DNA sequencing to identify binding sites of DNA-associated proteins. Illumina ChIP-Seq technology precisely and cost-effectively maps global binding sites for a protein of interest.
Vascular Genetix offers ChIP-Seq service by using the Illumina NovaSeq 6000 and Dragen Bio-IT platforms.
Specifications
Sample: ≥20 µl, ≥1 ng/µl High quality DNA
Library preparation: NEXTFLEX Rapid XP DNA Seq Kit v2 with UDIs
Inclusions (Sequencing, Bioinformatics, Raw data transfer): ChIP-Seq analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, variant calling, annotation and reports) ;
free data transfer of FastQ, Bam files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150 bp paired-end run; Seq throughput: based on demand , Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
Genotyping by Sequencing (GBS)
Our platforms enable applications from genome-wide linkage and association studies to customized fine mapping, ranging from a few up to thousands of samples.
Our flexible approach can accommodate your research or for-profit project goals. You can expect proven assays and accuracy to ensure that projects are completed in accordance with our quality standards.
We offer support throughout the lifetime of your project, whether it be experimental design, advice, or to answer any questions regarding sample status or analysis options.
Vascular Genetix offers ddRAD-Seq service for GBS of model and non-model organisms.
Double-digest RAD (ddRAD) protocol which reduces genome complexity, allowing for high-throughput and highly multiplexed sequencing.
Specifications
Sample: ≥20 µl, ≥100 ng/µl High quality DNA
Library preparation: NEXTFLEX Rapid XP DNA Seq Kit v2 with UDIs
Inclusions (Sequencing, Bioinformatics, Raw data transfer): ddRAD-Seq analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, variant calling, annotation and reports) ;
free data transfer of FastQ, Bam files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150-250 bp paired-end run; Seq throughput: based on demand , Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
Whole Genome Methylation Sequencing (Methyl-Seq)
Vascular Genetix offers NGS-based Methyl-Seq services to detect DNA methylation across the entire genome, including CpG and less common CHG and CHH contexts.
Whole genome or genome-wide methylation sequencing on NovaSeq 6000 enables you to identify differentially methylated regions, and for discovery of epigenetic biomarkers
Available epigenetics workflow options:
- Whole Genome Bisulfite Sequencing (WGBS)
- Whole Genome Enzymatic Methylation Sequencing (WGEMS)
- Reduced Representation Bisulfite Sequencing (RRBS)
- Custom amplicon methylation analysis (pls see Ampli-Seq)
WGBS Specifications
Sample: ≥20 μl, ≥100 ng/μl High quality DNA
Library preparation: EZ DNA Methylation Lightning MagPrep Kit (Zymo) and NextFlex Rapid XP DNA-Seq kit v2 with UDIs (PerkinElmer)
Inclusions (Sequencing, Bioinformatics, Raw data transfer): WGBS analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, annotation and variant reports);
free data transfer of FastQ, Bam files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150 bp paired-end run; Seq throughput: 120 Gbp per sample; 30x coverage; Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
WGEMS Specifications
Sample: ≥20 μl, ≥10 ng/μl High quality DNA
Library preparation: NEBNext Enzymatic Methyl-seq library preparation system from New England Biolabs (NEB)
Inclusions (Sequencing, Bioinformatics, Raw data transfer): WGEMS analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, annotation and variant reports);
free data transfer of FastQ, Bam files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 2×150 bp paired-end run; Seq throughput: 120 Gbp per sample; 30x coverage; Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
RRBS Specifications
Sample: ≥20 μl, ≥20 ng/μl High quality DNA
Library preparation: Ovation RRBS Methyl-Seq system (NuGEN)
Inclusions (Sequencing, Bioinformatics, Raw data transfer): RRBS analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, mapping, annotation and variant reports);
free data transfer of FastQ, Bam files and Reports
Sequencing metrics: Performed on Illumina NovaSeq 6000 with 3 Gbp throughput per sample; Q30 ≥ 85%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
Amplicon Sequencing (Ampli-Seq)
Amplicon sequencing is the most cost-effective way of library preparation. Any given PCR-amplifiable-DNA, cDNA can be modified, indexed and sequenced in general by this method.
In order to understand the composition of a microbial community, our 16S rDNA- or ITS-based Ampli-Seq and OTU clustering analysis provides taxonomic and diversity profiling for eubacteria or fungi, respectively.
Vascular Genetix offers sequencing service for comprehensive Ampli-Seq analyses using the Illumina MiSeq (2×300 bp) or NovaSeq 6000 (2×150-250 bp) and Dragen Bio-IT platforms.
Amplicon-based Microbial Profiling specification
Sample: ≥20 µl, ≥1 ng/µl High quality DNA
Library preparation: KAPA HiFi HotStart Ready Mix Kit (Roche) and Nextera XT v2 Index Kit (Illumina)
Inclusions (Sequencing, Bioinformatics, Raw data transfer): Microbial diversity analysis includes sample quality control, automated library preparation, final QC, sequencing and full bioinformatic analysis (filtering, trimming, and metagenomic report);
free data transfer of FastQ files and Reports
Sequencing metrics: Performed on Illumina MiSeq with 2×300 bp paired-end run; Seq throughput: 0.2M PE read per sample; Q30 ≥ 75%
Quality control: Full quality assurance and guaranteed specifications
Turnaround time: min. 2 – max. 4 weeks
