{'fraction_non_alphanumeric': 0.01953125, 'fraction_numerical': 0.0033482142857142855, 'mean_word_length': 5.140410958904109, 'pattern_counts': {'":': 0, '<': 0, '<?xml version=': 0, '>': 0, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
Emergence of Genetic Code and Cell Infrastructure

An in-depth understanding of cell mechanisms is necessary to build a more realistic cell model and based on it computational frameworks for genomic applications. The proposed cell model is a 3D aperiodic structure with the space-variant units interconnected only locally. Each unit is adaptable and gets structured under control of environment and other units. The model also introduces a functional stimuli-response (SR) unit and describes how the sequential in time SR-units overlap spatially within the cell providing a stimuli generalization capability. The permanent (or repeating in time) stimuli form a dense generic core, and the novel stimuli form peripheral layers or rings. In the geological timeframe this indicates that the genetic code emerges as a result of generalization of environmental stimuli. The model also indicates that cell seems to be a detector of novelty in the environment. The SR cell dynamics is discussed in terms of the proposed model as well as the computational framework based on this model. Details of the computational framework and the results of simulation will be presented in a separate paper. “In the future attention undoubtedly will be centered on the genome, and with greater appreciation of its significance as a highly sensitive organ of the cell, monitoring genomic activities and correcting common errors, sensing the unusual and unexpected events, and responding to them, often by restructuring the genome. We know about the components of genomes that could be made available for such restructuring. We know nothing, however, about how the cell senses danger and instigates responses to it that often are very truly remarkable”. Barbara McClintock, Nobel Lecture, 1983, Nobel Foundation [1]