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digital sequence information

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lightbulbAbout this topic
Digital sequence information (DSI) refers to the data derived from the sequencing of biological molecules, such as DNA, RNA, or proteins, that is stored and shared in digital formats. DSI encompasses the genetic, genomic, and proteomic information that can be analyzed computationally for research and biotechnological applications.
lightbulbAbout this topic
Digital sequence information (DSI) refers to the data derived from the sequencing of biological molecules, such as DNA, RNA, or proteins, that is stored and shared in digital formats. DSI encompasses the genetic, genomic, and proteomic information that can be analyzed computationally for research and biotechnological applications.

Key research themes

1. What governance frameworks best address the challenges posed by digital sequence information (DSI) in genetic resource access and benefit-sharing?

This theme focuses on the evolving policy and legal challenges arising from the digitization of genetic resources, particularly the implications of DSI for access and benefit-sharing (ABS) regimes. The research addresses how existing international agreements like the Convention on Biological Diversity (CBD), Nagoya Protocol (NP), and Pandemic Influenza Preparedness Framework (PIP) adapt or require reform to integrate DSI, reconciling material access to genetic resources with emergent digital data flows. Given the crucial role of DSI in biotechnology, synthetic biology, and breeding, effective governance frameworks are vital for equity, sovereignty, and sustainable utilization.

Key finding: The paper outlines the complexities introduced by the decoupling of biological information from physical genetic resources, emphasizing gaps in intellectual property governance and the need for governance scenarios that... Read more
Key finding: This interdisciplinary analysis reinforces that existing national policies mostly address physical genetic resources and are ill-equipped for DSI governance. It underscores that the rupture between tangible and intangible... Read more
Key finding: Focusing on the COVID-19 Pandemic Treaty negotiations, the study highlights how existing ABS regimes are fragmented and outdated due to genetic resource digitization. It recommends policy harmonization of pathogen access and... Read more
Key finding: This work introduces the concept of 'natural information'—immutable expressions from living matter—broadening ABS scope to include DSI, biomimicry, and derivatives without changing regulatory definitions. It critiques... Read more

2. How can efficient computational methods enhance sequence analysis and decoding without reliance on traditional alignment?

This theme investigates algorithmic and computational innovations for analyzing and decoding sequence data, focusing on methods that address challenges posed by long-range dependencies, alignment complexity, and large data volumes inherent in various types of symbolic sequences including biological data. The research explores approaches such as local decoding, alignment-free dissimilarity measures, and efficient code constructions based on Lempel-Ziv and related compression methods, which facilitate scalable, information-rich analysis of sequence similarity, periodicity, and complexity.

Key finding: The authors define the concept of 'local decoding' where states are assigned to positions in sequences based on neighborhoods of length N, enabling decoding without full sequence alignment. They present a linear time and... Read more
Key finding: This paper proposes a novel fingerprint verification method using statistical descriptors from co-occurrence matrices on enhanced fingerprint images localized around singular points. Although focused on biometric signals... Read more
Key finding: The authors review and extend algorithms related to Lempel-Ziv code-based entropy estimation, addressing the difficulty of capturing strong long-range correlations in sequences such as natural language. They present variants... Read more
Key finding: This work develops a recursive soft-in-soft-out (SISO) estimation technique for acquiring pseudo-noise sequences generated via concatenated m-sequences, exploiting low-order primitive polynomials for improved acquisition time... Read more

3. What sequence analysis methodologies effectively reveal structural and periodic features in symbolic biological and textual sequences?

This theme investigates mathematical and information-theoretic approaches to identify intrinsic periodicities, correlations, and symbolic structures within sequences. By advancing approaches that avoid simple numerical transformations and instead utilize information decomposition, co-occurrence statistics, and novel correlation measures, these studies reveal hidden structural properties relevant to genomic, proteomic, and textual data. Understanding such patterns is crucial for elucidating functional and evolutionary relationships in biological sequences as well as in analyzing complex symbolic datasets.

Key finding: Developing an informational decomposition method, the authors introduce a novel analog of autocorrelation for symbolic sequences without converting them to numerical forms, overcoming statistical distortions typical of... Read more
Key finding: The study introduces a 'cross-correlation measure' of order k to assess interdependence among large families of binary sequences, linking it to key pseudorandom properties. This measure provides insights into the rich... Read more
Key finding: The paper proposes the concept of P-digital subsequences extracted by screening sequences to select terms whose digits satisfy certain properties, such as being perfect squares or primes. It extends to partial-digital... Read more
Key finding: The paper reports on a large-scale competition aimed at predicting the next symbol in various synthetic and real-world symbolic sequences using different modeling approaches including hidden Markov models and probabilistic... Read more

All papers in digital sequence information

1. The Commission, at its last session, established a new work stream on “digital sequence information” and requested the Secretariat to prepare, subject to the availability of the necessary resources, an exploratory fact-finding scoping... more
The BBNJ Agreement fills a regulatory gap concerning bioprospecting at sea and represents a major step towards the fair and equitable sharing of the benefits deriving from the utilization of marine genetic resources (MGRs) found on the... more
The international seed “regime complex” and environmental law are criticized for a dualistic and naturalistic view of the environment. We propose to rethink the seed regime from a relational approach of law, by suggesting a “right of... more
One of the most prominent reactions to COVID-19 at the global level is possibly the ambition to develop a new multilateral treaty to help tackle the next pandemic. Under the auspice of the World Health Organization, the so-called WHO CA+... more
This article examines the use of scientific arguments in negotiations on the status of Digital Sequence Information (DSI), focusing on the Convention on Biological Diversity (CBD), the International Treaty on Plant Genetic Resources for... more
The Earth BioGenome Project (EBP) is an audacious endeavor to obtain whole-genome sequences of representatives from all eukaryotic species on Earth. In addition to the project’s technical and organizational challenges, it also faces... more
Negotiations around the potential inclusion of biodiversity data within the scope of access and benefit sharing mechanisms of international treaties on genetic resources have been contentious. Uncertainty persists around which data might... more
Global consensus that biodiversity is essential to humanity's productivity, health, and even survival has not translated into nearly enough conservation action to reverse, or in many cases even to slow its loss over several decades (Díaz... more
The decoupling of biological information from its material source has changed debates about global access and benefit sharing (ABS) of genetic resources. What does the digitization of biological information imply for genetic resources of... more
The decoupling of biological information from its material source has changed debates about global access and benefit sharing (ABS) of genetic resources. What does the digitization of biological information imply for genetic resources of... more
Crop diversity remains as valuable to global food security as ever. Yet information about this diversity seems to have become nearly as important as the seeds themselves. With the advent of high‐throughput DNA sequencing technologies and... more
The decoupling of biological information from its material source has changed debates about global access and benefit sharing (ABS) of genetic resources. What does the digitization of biological information imply for genetic resources of... more
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