The best
of both
Worlds
GenomSys applies its technology expertise in the field of Genomics.
GenomSys contributed decisively to developing the new ISO MPEG-G genomic data standard, the most interoperable and safe technology for genomic data handling today.
We want to enable laboratories to finally experience the full benefits of this new technology standard intuitively without needing to be an IT expert and in a 21st-century manner: cloud-based.
All to take genomic analysis to the next era.
MPEG-G
The Universal Language
for Genomics.
MPEG-G (ISO/IEC 23092) is a series of ISO international standards for the representation of genome sequencing data and associated metadata. The standard MPEG-G aims to provide a framework for developing interoperable applications towards genuinely efficient and economical handling of genomic information and consists of six parts:
Part 1
Transport and Storage
of Genomic Information
Part 1 of the standard deals with data formats for both Transport and Storage of Genomic Information, with reference conversion process and informative annexes. The main topics covered by this part are genomic data streaming and file format.
Part 2
Coding of Genomic Information
Part 2 provides specifications for the normative representation of genomic sequence reads identifiers, genomic sequence reads (both unaligned reads and aligned reads), reference sequences and quality values. This is the part where compression is specified in terms of normative bitstream syntax and decoding behaviour.
Part 3
APIS
and Metadata
Part 3 of the standard specifies information metadata, SAM interoperability, protection metadata and programming interfaces to access genomic information. The main goals are to enable (controlled) access to MPEG-G data from external applications and to add metadata to compressed genomic information.
Part 4
Reference Software
Part 4 is a support and guide potential implementers of MPEG-G, the standard includes a normative Reference Software. The Reference Software is normative in the sense that any conforming implementation of the decoder, taking the same conformant compressed bitstreams, using the same normative output data structures, will output the same data.
Part 5
Conformance
Conformance testing is fundamental in providing means to validate the correct implementation of the MPEG-G technology in different devices and applications and the interoperability among all systems. This part of the standard specifies a normative procedure to assess conformity to the standard on an exhaustive dataset of compressed data.
Part 6
Alignment
Each part of the standard focuses on one distinct area of the specification to enable more straightforward implementation and testing of compliant devices. New parts can be created to address new needs manifested by the industry during the standard series lifetime.
The Benefits
Single Unified Syntax
For all genomic-connected file formats (unaligned, aligned, reference, reports,…) to assure the highest data integrity and interoperability included all in one file.
Built-in Security Elements
Strengthening privacy protection of sensitive individual genomic data: possibility to encrypt natively within the file and grant different access permissions by intervals.
Efficient Storage Size
Enabling cost savings for organizations handling large volumes of genomic data, particularly for whole-exome and whole-genome datasets decreasing the size by up to 77%.
Rapid Selective Access
MPEG-G enables selecting and decoding individual bases directly from the file without sequentially reading it, resulting in reducing latency running the analysis.
Scientific Progress
In our effort to support innovation and the progress of scientific knowledge, GenomSys is ready to provide free of charge Licenses for Development and Implementation Rights, to the extent they are used only for the purpose of experimentation and research with no direct commercial impact.
Such licenses can only be granted for the IP owned by GenomSys and do not cover any other IP owned by third parties.
A license free of charge for limited time and a limited amount of forfeited royalties will be granted on request.
Contact us to learn more.
Advanced Genomic Analysis
GenomSys is widening the reach of advanced genomic analysis, the basis for any precision medicine application.
Since the development of Next-Generation Sequencing (NGS) technologies, the cost of genome sequencing has been dramatically decreasing and continues to do so at a faster pace than microprocessors’ Moore’s Law. The past few years have hence seen the development of several methodologies and software to analyze the resulting data, however in proprietary formats, requiring transcoding to be processed and often with complex parametrization requirements and control panels.
GenomSys is further developing such tools to work directly with MPEG-G formatted data, reducing pre-processing requirements and increasing efficiency and worldwide applicability. Our pipelines also feature user-friendly and CE certified software applications for parametrization and usage.
We support geneticists in their daily advanced genomic analysis – in a user-friendly manner – paired with state-of-the-art bioinformatic pipelines developed by experts and reliable as well up-to-date annotation databases by Varsome.
Genomic Corner
Selected projects
Gen coder Eu project
The GenCoder project aims at implementing the first prototype of MPEG-G compliant encoder and decoder for efficient compression, storage, transport and analysis of genome sequencing data
Efficient Genomic Tools
GenomSys is collaborating with VItal-IT, the High Performance Computing center of the Swiss Institute of Bioinformatics, and the EPFL on a project that plans the development of the technology for a new generation of tools and devices providing efficient compression, storage, transport and manipulation of genomic data. The new technology will be the backbone of a class of products conceived to implement genomic applications with new features for data access and handling as well as with a dramatic reduction of storage costs supporting transfer from sequencing facilities to storage and/or analysis sites.
MPEG-G powered analysis
In collaboration with the Carl R. Woese Institute for Genomic Biology at the University of Illinois Urbana Champaign, GenomSys is developing the first version of the popular toolkit developed by the Broad Institute which is able to process compressed MPEG-G bitstreams.
MEGAPIPELINE
MEGAPIPELINE is developing a tool suite of ISO/IEC 23092 (MPEG-G) compliant software applications providing compression, storage, transport and manipulation of genomic data. The developed software components are integrated in genome analysis pipelines to enable new processing features, a reduction of storage costs and data streaming capabilities to connect sequencing facilities to storage or analysis sites.
Collaborations
