Computational, Chemical and Biotechnology Solutions to Improved DNA Data Storage: from In-Product Information and Cryptography to Long-Term Archiving

Project Information

DiDAX

Grant agreement ID: 101115134

DOI

10.3030/101115134

EC signature date 3 July 2023

Start date 1 November 2023

End date 31 October 2027

Funded under

• The European Innovation Council (EIC)

Total cost

€ 4 543 583,75

EU contribution

€ 4 543 583,75

Coordinated by

TECHNION - ISRAEL INSTITUTE OF TECHNOLOGY
Israel

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Websites, patent fillings, videos etc. (1)

Website and project logo

Website and project logo information, also with social media links.

Documents, reports (3)

State of the art and market needs for authentication protocols

A report describing the state of the art and the commercial need for authentication and in-product documentation.

Plan for Communication and Dissemination Activities

Plan for Communication and Dissemination Activities including outline of workshops, plan for website improvements, and possibly other dissemination activities.

Report on Portfolio activities for reporting period 1

The report will present the collaboration activities that have been carried out in reporting period 1 and contain relevant materials (e.g., power point presentations, minutes of the meetings, etc.). It also explains how the Portfolio activities and the EIC proactive project management approach contribute to the achievement the project objectives and help the transition to market.The report will be submitted at the end reporting period 1 and will be assessed in the context of projects review for the corresponding reporting period (M12).

Data Management Plan (1)

Data Management Plan

Data Management Plan established and described.

Publications

Conference proceedings (20)

Constrained Coding for Composite DNA: Channel Capacity and Efficient Constructions

Author(s): Tuan Thanh Nguyen, Chen Wang, Kui Cai, Yiwei Zhang, Zohar Yakhini
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2501.10645

Sequence Reconstruction Over Coloring Channels for Protein Identification

Author(s): Jessica Bariffi, Antonia Wachter-Zeh, Eitan Yaakobi
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2508.02229

Complex DNA Synthesis Sequences

Author(s): Boaz Moav, Eitan Yaakobi, Ryan Gabrys
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2510.21253

Correcting Multiple Substitutions in Nanopore-Sequencing Reads

Author(s): Anisha Banerjee, Yonatan Yehezkeally, Antonia Wachter-Zeh, Eitan Yaakobi
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2505.02447

Near Optimal Code Construction for the Adversarial Torn Paper Channel with Edit Errors

Author(s): Maria Abu-Sini, Reinhard Heckel
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2601.14088

DeepDIVE: Optimizing Input-Constrained Distributions for Composite DNA Storage via Multinomial Channel

Author(s): Adir Kobovich, Eitan Yaakobi, Nir Weinberger
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2501.15172

Coding for Ordered Composite DNA Sequences

Author(s): Besart Dollma, Ohad Elishco, Eitan Yaakobi
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2509.26119

Coding for Composite DNA to Correct Substitutions, Strand Losses, and Deletions

Author(s): Frederik Walter, Omer Sabary, Antonia Wachter-Zeh, Eitan Yaakobi
Published in: 2024 IEEE International Symposium on Information Theory (ISIT), 2024
Publisher: IEEE
DOI: 10.1109/ISIT57864.2024.10619202

An Optimal Sequence Reconstruction Algorithm for Reed-Solomon Codes

Author(s): Shubhransh Singhvi, Roni Con, Han Mao Kiah, Eitan Yaakobi
Published in: 2024 IEEE International Symposium on Information Theory (ISIT), 2024
Publisher: IEEE
DOI: 10.1109/ISIT57864.2024.10619163

Decoding Insertions/Deletions via List Recovery

Author(s): Anisha Banerjee, Roni Con, Antonia Wachter-Zeh, Eitan Yaakobi
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2505.02452

Coding for Synthesis Defects

Author(s): Ziyang Lu, Han Mao Kiah, Yiwei Zhang, Robert N. Grass, Eitan Yaakobit
Published in: 2024 IEEE Information Theory Workshop (ITW), 2024
Publisher: IEEE
DOI: 10.48550/ARXIV.2405.02080

The Labeled Coupon Collector Problem

Author(s): Andrew Tan, Oriel Limor, Daniella Bar-Lev, Ryan Gabrys, Zohar Yakhini, Paul H. Siegel
Published in: 2025 IEEE Information Theory Workshop (ITW), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2507.15231

Error-Correcting Codes for Labeled DNA Sequences

Author(s): Dganit Hanania, Eitan Yaakobi
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2511.01280

Coding for Strand Breaks in Composite DNA

Author(s): Frederik Walter, Yonatan Yehezkeally
Published in: 2025 IEEE International Symposium on Information Theory (ISIT), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2501.15851

Correcting a Single Deletion in Reads from a Nanopore Sequencer

Author(s): Anisha Banerjee, Yonatan Yehezkeally, Antonia Wachter-Zeh, Eitan Yaakobi
Published in: 2024 IEEE International Symposium on Information Theory (ISIT), 2024
Publisher: IEEE
DOI: 10.1109/ISIT57864.2024.10619468

Sequential Decoding of Multiple Traces Over the Syndrome Trellis for Synchronization Errors

Author(s): Anisha Banerjee, Lorenz Welter, Alexandre Graell I Amat, Antonia Wachter-Zeh, Eirik Rosnes
Published in: ICASSP 2025 - 2025 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP), 2025
Publisher: IEEE
DOI: 10.48550/ARXIV.2410.07120

Studying the Cycle Complexity of DNA Synthesis

Author(s): Amit Zrihan, Eitan Yaakobi, Zohar Yakhini
Published in: 2024 IEEE Information Theory Workshop (ITW), 2024
Publisher: IEEE
DOI: 10.48550/ARXIV.2412.05865

Error-Correcting Codes for Combinatorial Composite DNA

Author(s): Omer Sabary, Inbal Preuss, Ryan Gabrys, Zohar Yakhini, Leon Anavy, Eitan Yaakobi
Published in: 2024 IEEE International Symposium on Information Theory (ISIT), 2024
Publisher: IEEE
DOI: 10.1109/ISIT57864.2024.10619334

Rank Modulated Composite Encoding for Data Storage in DNA

Author(s): Tomer Cohen, Zhiying Wang, Eitan Yaakobi, Zohar Yakhini
Published in: 2025 13th International Symposium on Topics in Coding (ISTC), 2025
Publisher: IEEE
DOI: 10.1109/ISTC65386.2025.11154607

Representing Information on DNA Using Patterns Induced by Enzymatic Labeling

Author(s): Daniella Bar-Lev, Tuvi Etzion, Eitan Yaakobi, Zohar Yakhini
Published in: 2024 IEEE International Symposium on Information Theory (ISIT), 2024
Publisher: IEEE
DOI: 10.1109/ISIT57864.2024.10619227

Peer reviewed articles (20)

More on codes for combinatorial composite DNA

Author(s): Zuo Ye, Omer Sabary, Ryan Gabrys, Eitan Yaakobi, Ohad Elishco
Published in: Designs, Codes and Cryptography, Issue 93, 2025, ISSN 0925-1022
Publisher: Springer Science and Business Media LLC
DOI: 10.1007/S10623-025-01634-8

Sequencing Coverage Analysis for Combinatorial DNA-Based Storage Systems

Author(s): Inbal Preuss, Ben Galili, Zohar Yakhini, Leon Anavy
Published in: IEEE Transactions on Molecular, Biological, and Multi-Scale Communications, Issue 10, 2024, ISSN 2372-2061
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.1109/TMBMC.2024.3408053

Error characterization and error correction approaches in combinatorial DNA-based storage

Author(s): Inbal Preuss, Omer Sabary, Ryan Gabrys, Zohar Yakhini, Eitan Yaakobi, Leon Anavy
Published in: Scientific Reports, Issue 16, 2026, ISSN 2045-2322
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/S41598-026-38599-0

Sequence Reconstruction for Substitution Channel: New Sufficient Conditions and Algorithms

Author(s): Chen Wang, Eitan Yaakobi, Yiwei Zhang
Published in: IEEE Transactions on Information Theory, Issue 72, 2026, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2606.05454

DNA-Based Chemical Unclonable Functions for Cryptographic Anticounterfeit Tagging of Pharmaceuticals

Author(s): Anne M. Luescher, Wendelin J. Stark, Robert N. Grass
Published in: ACS Nano, Issue 18, 2024, ISSN 1936-0851
Publisher: American Chemical Society (ACS)
DOI: 10.1021/acsnano.4c10870

Efficiency of Digital Photolithographic Synthesis of Large, High-Quality DNA Libraries and Microarrays using a Guanine O6 Dephosphitylation Strategy

Author(s): Santra Santhosh, Sharon Istvánffy, Omer Sabary, Eitan Yaakobi, Maya Giridhar, Jürgen Behr, Mark M. Somoza
Published in: Communications Chemistry, Issue 8, 2025, ISSN 2399-3669
Publisher: Springer Science and Business Media LLC
DOI: 10.26434/CHEMRXIV-2025-F706F

Channels with Input-Correlated Synchronization Errors

Author(s): Roni Con, João Ribeiro
Published in: IEEE Transactions on Information Theory, 2026, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2504.14087

Robust Gray Codes Approaching the Optimal Rate

Author(s): Roni Con, Dorsa Fathollahi, Ryan Gabrys, Mary Wootters, Eitan Yaakobi
Published in: IEEE Transactions on Information Theory, Issue 71, 2025, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2406.17689

Challenges for error-correction coding in DNA data storage: photolithographic synthesis and DNA decay

Author(s): Andreas L. Gimpel, Wendelin J. Stark, Reinhard Heckel, Robert N. Grass
Published in: Digital Discovery, 2024, ISSN 2635-098X
Publisher: Royal Society of Chemistry (RSC)
DOI: 10.1039/D4DD00220B

Exploring the intersection of natural sciences and information technology via entropy and randomness

Author(s): Anne M. Luescher, Reinhard Heckel, Robert N. Grass
Published in: Nature Communications, Issue 16, 2025, ISSN 2041-1723
Publisher: Springer Science and Business Media LLC
DOI: 10.3929/ETHZ-C-000782746

One Code Fits All: Strong Stuck-At Codes for Versatile Memory Encoding

Author(s): Roni Con, Ryan Gabrys, Eitan Yaakobi
Published in: IEEE Transactions on Information Theory, Issue 71, 2025, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2403.19061

Anonymous Shamir’s Secret-Sharing via Reed–Solomon Codes Against Permutations, Insertions, and Deletions

Author(s): Roni Con
Published in: IEEE Transactions on Information Theory, Issue 71, 2025, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2412.17003

Error-Correcting Codes for Nanopore Sequencing

Author(s): Anisha Banerjee, Yonatan Yehezkeally, Antonia Wachter-Zeh, Eitan Yaakobi
Published in: IEEE Transactions on Information Theory, Issue 70, 2024, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.1109/TIT.2024.3380615

Large‐Scale Distribution of Physical Data Using DNA‐of‐Things Technology in Newspaper Printing

Author(s): Francesca Granito, Andreas L. Gimpel, Wendelin J. Stark, Reinhard Heckel, Robert N. Grass
Published in: Small, Issue 22, 2026, ISSN 1613-6810
Publisher: Wiley
DOI: 10.1002/SMLL.202511931

Efficient DNA-based data storage using shortmer combinatorial encoding

Author(s): Inbal Preuss, Michael Rosenberg, Zohar Yakhini, Leon Anavy
Published in: Scientific Reports, Issue 14, 2024, ISSN 2045-2322
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/s41598-024-58386-z

Improved Constructions of Linear Codes for Insertions and Deletions

Author(s): Roee Gross, Roni Con, Eitan Yaakobi
Published in: IEEE Transactions on Information Theory, Issue 72, 2026, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2509.26077

Color-corrected and high-contrast catadioptric relay for maskless high-resolution nucleic acid photolithography

Author(s): Timm Michel, Jürgen Behr, Hamed Sabzalipoor, Gisela Ibáñez-Redín, Jory Lietard, Thomas Schletterer, Max Funck, Mark M. Somoza
Published in: Optics Express, Issue 33, 2025, ISSN 1094-4087
Publisher: Optica Publishing Group
DOI: 10.48550/ARXIV.2411.06466

Comparison of state-of-the-art error-correction coding for sequence-based DNA data storage

Author(s): Andreas L. Gimpel, Alex Remschak, Wendelin J. Stark, Reinhard Heckel, Robert N. Grass
Published in: Nature Communications, Issue 17, 2026, ISSN 2041-1723
Publisher: Springer Science and Business Media LLC
DOI: 10.1101/2025.07.11.664297

Reed–Solomon Codes Against Insertions and Deletions: Full-Length and Rate-1/2 Codes

Author(s): Peter Beelen, Roni Con, Anina Gruica, Maria Montanucci, Eitan Yaakobi
Published in: IEEE Transactions on Information Theory, Issue 72, 2026, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2501.11371

Cover Your Bases: How to Minimize the Sequencing Coverage in DNA Storage Systems

Author(s): Daniella Bar-Lev, Omer Sabary, Ryan Gabrys, Eitan Yaakobi
Published in: IEEE Transactions on Information Theory, Issue 71, 2025, ISSN 0018-9448
Publisher: Institute of Electrical and Electronics Engineers (IEEE)
DOI: 10.48550/ARXIV.2305.05656

Other (1)

An open-source advanced maskless synthesizer for light-directed chemical synthesis of large nucleic acid libraries and microarrays

Author(s): Jürgen Behr, Timm Michel, Maya Giridhar, Santra Santhosh, Arya Das, Hamed Sabzalipoor, Tadija Kekić, Etkin Parlar, Igor Ilić, Gisela Ibáñez-Redín, Erika Schaudy, Jory Lietard, Thomas Schletterer, Max Funck, Mark Somoza
Published in: 2024
Publisher: American Chemical Society (ACS)
DOI: 10.26434/chemrxiv-2024-j4c90