Informatics and Physics Models of Recognitions of DNA Replication and Their Biological Applications

Abstract

Abstract:We initially propose concepts of Informative Intensity, Informative Response Intensity and Informative Flux, with different expressions. In a special expression of electrostatics, we describe Informative Intensity, Informative Response Intensity and Informative Flux in terms of electric field intensity, electric field force and electric field flux respectively. In a special expression of quantum mechanics, we originally propose a concept of Probability Flux. Then we present Informative Intensity in terms of a wave function of Schrödinger equation and Informative Response Intensity in terms of an interactive force between or among objects, Informative Flux in terms of a probability flux. Based on these concepts, we develop our Informatics and physics models of recognitions between a DNA polymerase and an initiation site and of pairing deoxyribonucleotides, for a natural DNA replication, beyond lengths of chemical bounds and half quantitatively explain a probability of the wrong paring. We originally hypothesize the information is, stored in structured charges or masses, transmitted with Informative Intensity in a media and recognized with an Informative Response Intensity by other structured charges or masses. We further generalize, Informative Intensity as multiple layers of fields, potentials or waves, Informative Response Intensity as multiple layers of forces and Informative Flux as an integration of Informative Intensity. We also initially define Transverse Information: Informative Intensity is perpendicular to the direction of information propagation, e.g. electromagnetic wave or magnetic field; and Longitudinal Information: Informative Intensity is parallel or antiparalell to the direction of information propagation, e.g. electric field or gravitational field.

Biomedicine and Informatics Model of Alzheimer’s disease

“…2 in principle. Based the published experimental data [20][21] , our model demonstrates: if a sum of two sets of EFI signals (transmitted through synapses) is enhanced positively (or negatively), at a sub-cellular level (especially at the axon hillock), the sum supports a positive (or negative) cognition; otherwise, the sum tends to be no cognition [14] . One set of signals can be from the recently experienced while another set can be from the LTM; or the both sets can be either from the recently experienced or from the LTM.…”

“…Where, r is a position vector and t is a time parameter [14] , J i (r, t) is a vector of current density contributed directly or indirectly by ith synapse and relates to the propagating constants, the transfer (or memory) functions or the resonance frequencies of the neural network; and σ (r, t) is a conductivity of the cellular plasma. During a LTM consolidation, the NCEFI triggers the inherited (or mutant) information (DNA) and evokes a RNA transcription; and drives some existed RNA and negatively charged objects to the excited post synapses or drives the positively charged objects to the inhibited post synapses.…”

“…The charges and the memory functions mostly store the LTM. The charges have a conservative electric field intensity (CEFI(r, t)) [14] . Applying Coulomb's law, we estimated CEFI(r, t) with a convolution of a total charge distribution in cellular plasma [14] .…”

“…The charges have a conservative electric field intensity (CEFI(r, t)) [14] . Applying Coulomb's law, we estimated CEFI(r, t) with a convolution of a total charge distribution in cellular plasma [14] . A total electric field intensity (EFI) in a neuron body should be: EFI(r, t) = CEFI(r, t) + NCEFI(r, t)…”

“…In addition, evidence continues to accumulate that agingassociated changes in several neuroendocrine system are involved in important but complex way in the pathophysiology of the late behavioral changes and disorders [12] . In a perspective of biomedicine and informatics [13][14] , the mechanism of Alzheimer's, senile amnesia, or other aging-associated and cognitive impairment related diseases involve four important informative processing procedures: propagation, consolidation, retrieval and cognition, In this study, we systematically model the four procedures based on published experimental data, at a level of molecule, cell and sub-organ. To our knowledge, there are not published models that are the same as or similar to ours.…”