CentoCloud® – Our New Bioinformatics SaaS Platform

CentoCloud® – The Bioinformatic SaaS Platform

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Do you need to analyze sequencing data or require medical reporting service for your genetic diagnostic offering?

As a cloud-based Software as a Service (SaaS) platform, CentoCloud is specifically designed to facilitate the rapid bioinformatic analysis and interpretation of Next Generation Sequencing (NGS) data. It achieves this by leveraging the CENTOGENE Biodatabank and external reference databases to identify, prioritize, and classify human genetic variants associated with genetic diseases/inherited diseases.

  • Automated, state-of-the-art bioinformatics pipeline
  • Phenotype-genotype unified database
  • Variant annotation, powered by advanced tools and data sources
  • Variant prioritization and classification algorithm (AI)
  • Variant filtering tool
  • 30+ publications powered by bioinformatics experts

New Feature The CentoCloud FilterTool – Learn more

New Feature
The FilterTool

The FilterTool is an advanced web-based application for genetic data interpretation – significantly reducing time- and resource-intensive processes to enable rapid and reliable diagnosis and research. The new FilterTool application seamlessly integrates with CentoCloud as an accessory and enables laboratories, medical experts, and bioinformaticians to efficiently display, filter, select, and classify relevant genetic variants identified by NGS data analysis. 

CENTOGENE’s FilterTool is one of the world’s only CE-marked In Vitro Diagnostic Regulation (IVDR 2017/746) filtering applications to support experts in genomic diagnostics, following new regulatory framework from the European Parliament last year.

Get to know more about our state-of-the-art FilterTool and its intuitive, user-friendly interface in the on-demand recording of our latest webinar.

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Medical Diagnosis & High-Quality Reporting

By choosing CentoCloud,  you now have the option to add on to your bioinformatic analysis with a physician-ready, easy-to-interpret report of diagnostic findings. Our comprehensive medical reports contain extensive, expert interpretation of clinical data and include differential diagnostic approaches as well as detailed interpretation of key findings.

To find out more about our medical reporting of diagnostic findings, please visit Medical Reporting at CENTOGENE.

The Highest Quality Bioinformatics & Variant Annotation

Our fully automated, curated, bioinformatic analysis, and variant pre-classification is based on ACMG guidelines1. Additionally, AI-based genomic variant prioritization empowers you to provide your patients with accurate and timely answers. The bioinformatics platform is also one of the world’s few CE marked IVD software for genomic diagnostics that is available via the cloud.

Fully-Automated Bioinformatics Solution

Accelerate diagnostic timelines with our fully-automated bioinformatics pipeline:

  • Accepts raw sequencing data from Illumina sequencing technology in FASTQ format
  • Alignment to genomic reference sequence
  • Variant calling, copy number analysis, and annotation with public databases

Access the CENTOGENE Biodatabank With CentoCloud

The CENTOGENE Biodatabank empowers CentoCloud through its approximately 700,000 analyzed cases and tens of millions of unique variants from around the globe, including Whole Exome Sequencing (WES) and Whole Genome Sequencing (WGS) data.

~ 700,000 individuals, > 400,000 biosamples from > 120 countries
> 2,500 rare diseases diagnosed
> 3,500 associated phenotypes, 14,000 HPO terms

The CentoCloud Workflow

NGS Sequencing at Local Lab
with or w/o CENTOGENE ready-to-use protocols

Data Transfer
FASTQ, HPO term-based clinical information

Diagnostic Bioinformatics
& Biodatabank Annotation

File Transfer
BAM, VCF, annotated variant file, quality metrics

Reporting on request

The CentoCloud Diagnostic Portfolio

CENTOGENE Little Girl Hugged by Mother

Exome Sequencing

When choosing the Twist Alliance CNTG Exome library kits, we can enable you to achieve the same results as our best-selling CentoXome. For other supported library kits (incl. from Illumina, Agilent, IDT), please refer to our Technical Sheet.

CENTOGENE Little Child Looking out of Window With Binoculars

Genome Sequencing

Our comprehensive one-step solution that detects almost all changes in a patient’s DNA by sequencing both the entire protein coding and the non-coding regions of the genome to deliver the highest diagnostic yield.

Rare Disease Panel

Our CentoCloud Rare Disease Panel covers conditions from several rare and hereditary disease areas. These include, but are not limited to treatable diseases, early onset childhood disorders, cardiac disorders, neurodegenerative diseases, skeletal abnormalities, and metabolic disorders.

CENTOGENE Woman looking into distance

Hereditary Oncology Panel

Our targeted hereditary oncology panel for relevant hereditary tumor predisposition syndromes, including breast cancer, GI tumors, Li-Fraumeni syndrome, MEN1, MEN2, paragangliomas, and others.

Outstanding Clinical Coverage and Diagnostic Power

Our product offering combines the CENTOGENE Biodatabank, the world’s largest real-world data repository for rare and neurodegenerative diseases, with Twist Bioscience’s library preparation and target enrichment capabilities to deliver multiple assays for rare disease diagnosis and analysis.

  • Offer our best-selling CentoXome with unmatched clinical diagnostic power in your lab
  • Start right away: As an experienced NGS lab, all supported library kits are available from Twist Bioscience, Illumina, Agilent, and IDT.
  • Best value at lower overall costs
  • Variants annotated based on the CENTOGENE Biodatabank

Advancing Patient Care Together – Transferring Our Knowledge and Technolgy


We enable local in-house wet lab operations through support with workstation setup and validation.

Proven Workflow Blueprint

Validated and accredited workflow in accredited facility and certified labs (CLIA, CAP, ISO 15189, CMS).

Sequencing Protocols

Ready-to-use protocols created based on CENTOGENE’s more than 15 years of diagnostic experience.

Training & Qualification

Training programs at CENTOGENE’s Rostock headquarters or on-site at your laboratory.

CENTOGENE CentoTalk – Discover a New World of Medical Diagnostics

Webinar on demand

Transforming the Way You Analyze Genetic Data: An Inside Look at CentoCloud's New Innovation

April 26, 2023 | English

Watch on demand

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1Richards et al 2015; PMID: 25741868

1Cheema et al. 2020, PMID: 3308301; 2 Clark et al. 2018, PMID: 30002876; 3 Gross et al. 2018, PMID: 30293986; 4 Posey et al. 2019, PMID: 31234920; 5 Schon et al. 2020, PMID: 3267494; 6 Scuffins et al. 2021, PMID: 33495530; 7 Stark et al. 2016, PMID: 26938784; 8 Trujillano et al. 2017, PMID: 27848944; 9 Wagner et al. 2019, PMID: 31059585

All required Twist Alliance CNTG kits for CentoCloud Exome (WES) and our CentoCloud Hereditary Oncology and Rare Disease Panels are available now via our partner Twist Bioscience.

For other available library kits that can be used in combination with CentoCloud Genome (WGS) or CentoCloud Exome (WES), please refer to the CentoCloud Technical Sheet.