Imaging · dataset · 2025
DNAMIC CODEC Poster for MoleculArXiv Autumn School 2025
Listed in OLOS
Description
DNAMIC CODEC poster Poster for MoleculArXiv Autumn School on DNA Data Storage 10 - 14 November 2025 IESC, Cargèse, Corsica, France The DNAMIC project, part of the European Path Finder challenge for DNA-based digital data storage, aims to develop an autonomous, end-to-end DNA data storage solution based on a microfactory. Our main application is long-term data archiving, using the OAIS-compliant OLOS system (olos.swiss).
This initiative brings together experts from academia and the private sector across Europe. At the University of Geneva, our team is focusing on the design of a CODEC that encodes binary data in DNA and decodes it back into binary while integrating it into the OLOS framework. Our CODEC is based on a codon wheel to convert bits into nucleotides and avoid homopolymers greater than three while maintaining a balanced GC ratio.
Read the rest (3 more)
Each strand is 243 nucleotides long, including metadata, payload, and primers. To improve data integrity, we implemented the Reed-Solomon ECC scheme both within and between multiple strands. Additionally, we use a classical clustering, alignment, and consensus mechanism to identify and correct synchronization errors.
We have successfully validated a preliminary version of our CODEC using six files (for a total of about 1 MB) synthesized by Twist Bioscience and sequenced by our partners at Genomika. Currently, our efforts are focused on optimizing the decoding part by: - using a locality-sensitive hash clustering algorithm, implementing a sorting system to reduce cluster size, and assessing the use of 2D Reed-Solomon ECC or tag-based approach to handle InDel errors; - porting the algorithms to parallel architectures such as GPUs and FPGAs.
The aim is to extend file storage to the terabyte scale, i.e., to decode 1 TB in less than 12 hours.
Links
Where it is published
- OLOS record olos.swiss/portal//archives/ec67214c-c0c4-4057-99b4-c4279cc956a0 ↗
landing page · from olos swiss
- DOI doi.org/10.34914/olos:vkknnbjfrzddlovbgy5h77jmwa ↗
DOI / persistent id · from olos swiss
Catalogue records · 1
- OAI-PMH record olos.swiss/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Aolos… ↗
metadata API · from olos swiss
Topics
- From keywords
- Earth & Environmental Science · Engineering · Humanities · Life Sciences · Social Science
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| OLOS | oai:olos.swiss:olos:ec67214c-c0c4-4057-99b4-c4279cc956a0 | 7 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · olos swiss | connector:olos_swiss@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · olos swiss | connector:olos_swiss@1.0.0 | |
| concepts[field].local:field:engineering | mapping · olos swiss | connector:olos_swiss@1.0.0 | |
| concepts[field].local:field:humanities | mapping · olos swiss | connector:olos_swiss@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · olos swiss | connector:olos_swiss@1.0.0 | |
| concepts[field].local:field:social-science | mapping · olos swiss | connector:olos_swiss@1.0.0 | |
| description | source · olos swiss | connector:olos_swiss@1.0.0 | /metadata/dc/description |
| license | source · olos swiss | connector:olos_swiss@1.0.0 | /metadata/dc/rights |
| publication_date | source · olos swiss | connector:olos_swiss@1.0.0 | |
| title | source · olos swiss | connector:olos_swiss@1.0.0 | /metadata/dc/title |