Data on the structure of memory in the protobiotic environment and up to the present day: A census of hidden hysteretic memory in the SABIO-RK database

An analysis of the SABIO-RK database (76,780 unique records) for documented evidence of hysteresis and slow memory, with and without direct mention of the term, relying solely on the characteristics of the phenomenon in cells/enzymes. The term "hysteretic" is present in only 23 records (bibliographic fields only); the terms "hysteresis", "memory", and "lag phase" are effectively absent. Yet the phenomenon is clearly present under neutral names: 62 records (0.08%) describe slow-binding and biphasic kinetics; the database's dictionary of 194 kinetic-law types contains no term for memory, while within typed records the constants of slow transitions are extracted: the relaxation time spectrum τ = (k₅+k₆)⁻¹ with measured times from 8.7 seconds to 45.5 minutes, indicating a two-phase character of the processes, the second of which is the so-called "memory" or hysteresis. In other words, memory as a phenomenon is documented in the database; the name of memory is not. This work corrects this methodological shortcoming.

Authors

Publication Details

Journal
Zenodo (CERN European Organization for Nuclear Research)
Published
2026-11-09
DOI
https://doi.org/10.5281/zenodo.24079869
Primary Topic
Gene Regulatory Network Analysis
Type
preprint
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preprint

Data on the structure of memory in the protobiotic environment and up to the present day: A census of hidden hysteretic memory in the SABIO-RK database

Borodin Oleg BORODIN O.A.
Zenodo (CERN European Organization for Nuclear Research)
Gene Regulatory Network Analysis
preprint

Data on the structure of memory in the protobiotic environment and up to the present day: A census of hidden hysteretic memory in the SABIO-RK database

Borodin Oleg BORODIN O.A.
preprint en

Abstract

An analysis of the SABIO-RK database (76,780 unique records) for documented evidence of hysteresis and slow memory, with and without direct mention of the term, relying solely on the characteristics of the phenomenon in cells/enzymes. The term "hysteretic" is present in only 23 records (bibliographic fields only); the terms "hysteresis", "memory", and "lag phase" are effectively absent. Yet the phenomenon is clearly present under neutral names: 62 records (0.08%) describe slow-binding and biphasic kinetics; the database's dictionary of 194 kinetic-law types contains no term for memory, while within typed records the constants of slow transitions are extracted: the relaxation time spectrum τ = (k₅+k₆)⁻¹ with measured times from 8.7 seconds to 45.5 minutes, indicating a two-phase character of the processes, the second of which is the so-called "memory" or hysteresis. In other words, memory as a phenomenon is documented in the database; the name of memory is not. This work corrects this methodological shortcoming.

Zenodo (CERN European Organization for Nuclear Research)
Gene Regulatory Network Analysis
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