The pseudoentropy of allele frequency trajectories, the persistence of variation, and the effective population size
Biosystems. 2024 Mar 11:105176. doi: 10.1016/j.biosystems.2024.105176. Online ahead of print.ABSTRACTTo concisely describe how genetic variation, at individual loci or across whole genomes, changes over time, and to follow transitory allelic changes, we introduce a quantity related to entropy, that we term pseudoentropy. This quantity emerges in a diffusion analysis of the mean time a mutation segregates in a population. For a neutral locus with an arbitrary number of alleles, the mean time of segregation is generally proportional to the pseudoentropy of initial allele frequencies. After the initial time point, pseudoentro...
Source: Biosystems - March 13, 2024 Category: Biotechnology Authors: Nikolas Vellnow Toni I Gossmann David Waxman Source Type: research
Modelling energy-harvesting processes in primitive cells: Proton transport across bilayers driven by the oxidation of sulfite
Biosystems. 2024 Mar 11:105189. doi: 10.1016/j.biosystems.2024.105189. Online ahead of print.ABSTRACTA frequently debated topic related to the origin of life centers around the question of how complex forms of life on today's Earth may have evolved over time from simpler predecessors. For example, the question of how proton concentration gradients across cellular membranes developed in ancestral protocells remains unanswered. This process, which is indispensable for the generation of chemical energy in modern organisms, is driven by energy derived from redox processes in the respiratory chain. Since it is highly unlikely t...
Source: Biosystems - March 13, 2024 Category: Biotechnology Authors: Stefan Paula Andres Acosta Naiki Judge Stephanie Ramirez Amaan Sandhu David Deamer Source Type: research
What is Quantum in probabilistic explanations of the sure thing principle violation?
Biosystems. 2024 Mar 9:105180. doi: 10.1016/j.biosystems.2024.105180. Online ahead of print.ABSTRACTThe Prisoner's Dilemma game (PDG) is one of the simple test-beds for the probabilistic nature of the human decision-making process. Behavioral experiments have been conducted on this game for decades and show a violation of the so-called sure thing principle, a key principle in the rational theory of decision. Quantum probabilistic models can explain this violation as a second-order interference effect, which cannot be accounted for by classical probability theory. Here, we adopt the framework of generalized probabilistic th...
Source: Biosystems - March 11, 2024 Category: Biotechnology Authors: Nematollah Farhadi Mahalli Onur Pusuluk Source Type: research
What is Quantum in probabilistic explanations of the sure thing principle violation?
Biosystems. 2024 Mar 9:105180. doi: 10.1016/j.biosystems.2024.105180. Online ahead of print.ABSTRACTThe Prisoner's Dilemma game (PDG) is one of the simple test-beds for the probabilistic nature of the human decision-making process. Behavioral experiments have been conducted on this game for decades and show a violation of the so-called sure thing principle, a key principle in the rational theory of decision. Quantum probabilistic models can explain this violation as a second-order interference effect, which cannot be accounted for by classical probability theory. Here, we adopt the framework of generalized probabilistic th...
Source: Biosystems - March 11, 2024 Category: Biotechnology Authors: Nematollah Farhadi Mahalli Onur Pusuluk Source Type: research
On interaction of proteinoids with simulated neural networks
Biosystems. 2024 Mar 7;237:105175. doi: 10.1016/j.biosystems.2024.105175. Online ahead of print.ABSTRACTProteinoid-neuron networks combine biological neurons with spiking proteinoid microspheres, which are generated by thermal condensation of amino acids. Complex and dynamic spiking patterns in response to varied stimuli make these networks suitable for unconventional computing. This research examines the interaction of proteinoid-neuron networks with function-generator-artificial neural networks (ANN) that may create distinct electrical waveforms. Function-generator- artificial neural network (ANN) stimulates and modulate...
Source: Biosystems - March 9, 2024 Category: Biotechnology Authors: Panagiotis Mougkogiannis Andrew Adamatzky Source Type: research
On interaction of proteinoids with simulated neural networks
Biosystems. 2024 Mar 7;237:105175. doi: 10.1016/j.biosystems.2024.105175. Online ahead of print.ABSTRACTProteinoid-neuron networks combine biological neurons with spiking proteinoid microspheres, which are generated by thermal condensation of amino acids. Complex and dynamic spiking patterns in response to varied stimuli make these networks suitable for unconventional computing. This research examines the interaction of proteinoid-neuron networks with function-generator-artificial neural networks (ANN) that may create distinct electrical waveforms. Function-generator- artificial neural network (ANN) stimulates and modulate...
Source: Biosystems - March 9, 2024 Category: Biotechnology Authors: Panagiotis Mougkogiannis Andrew Adamatzky Source Type: research
On interaction of proteinoids with simulated neural networks
Biosystems. 2024 Mar 7:105175. doi: 10.1016/j.biosystems.2024.105175. Online ahead of print.ABSTRACTProteinoid-neuron networks combine biological neurons with spiking proteinoid microspheres, which are generated by thermal condensation of amino acids. Complex and dynamic spiking patterns in response to varied stimuli make these networks suitable for unconventional computing. This research examines the interaction of proteinoid-neuron networks with function-generator-artificial neural networks (ANN) that may create distinct electrical waveforms. Function-generator- artificial neural network (ANN) stimulates and modulates pr...
Source: Biosystems - March 9, 2024 Category: Biotechnology Authors: Panagiotis Mougkogiannis Andrew Adamatzky Source Type: research
An integrative machine learning model for the identification of tumor T-cell antigens
Biosystems. 2024 Mar 6:105177. doi: 10.1016/j.biosystems.2024.105177. Online ahead of print.ABSTRACTThe escalating global incidence of cancer poses significant health challenges, underscoring the need for innovative and more efficacious treatments. Cancer immunotherapy, a promising approach leveraging the body's immune system against cancer, emerges as a compelling solution. Consequently, the identification and characterization of tumor T-cell antigens (TTCAs) have become pivotal for exploration. In this manuscript, we introduce TTCA-IF, an integrative machine learning-based framework designed for TTCAs identification. TTC...
Source: Biosystems - March 8, 2024 Category: Biotechnology Authors: Mir Tanveerul Hassan Hilal Tayara Kil To Chong Source Type: research
Bioinformatics and meta-analysis of expression data to investigate transcriptomic response of wheat root to abiotic stresses
This study's findings enhance our understanding of key players and gene networks related to wheat root response to multiple abiotic stresses.PMID:38430956 | DOI:10.1016/j.biosystems.2024.105165 (Source: Biosystems)
Source: Biosystems - March 2, 2024 Category: Biotechnology Authors: Reza Shokri-Gharelo Morteza Derakhti-Dizaji Davod Dadashi Maryam Chalekaei Ghader Rostami-Tobnag Source Type: research
Bioinformatics and meta-analysis of expression data to investigate transcriptomic response of wheat root to abiotic stresses
This study's findings enhance our understanding of key players and gene networks related to wheat root response to multiple abiotic stresses.PMID:38430956 | DOI:10.1016/j.biosystems.2024.105165 (Source: Biosystems)
Source: Biosystems - March 2, 2024 Category: Biotechnology Authors: Reza Shokri-Gharelo Morteza Derakhti-Dizaji Davod Dadashi Maryam Chalekaei Ghader Rostami-Tobnag Source Type: research
Bioinformatics and meta-analysis of expression data to investigate transcriptomic response of wheat root to abiotic stresses
This study's findings enhance our understanding of key players and gene networks related to wheat root response to multiple abiotic stresses.PMID:38430956 | DOI:10.1016/j.biosystems.2024.105165 (Source: Biosystems)
Source: Biosystems - March 2, 2024 Category: Biotechnology Authors: Reza Shokri-Gharelo Morteza Derakhti-Dizaji Davod Dadashi Maryam Chalekaei Ghader Rostami-Tobnag Source Type: research
Bioinformatics and meta-analysis of expression data to investigate transcriptomic response of wheat root to abiotic stresses
This study's findings enhance our understanding of key players and gene networks related to wheat root response to multiple abiotic stresses.PMID:38430956 | DOI:10.1016/j.biosystems.2024.105165 (Source: Biosystems)
Source: Biosystems - March 2, 2024 Category: Biotechnology Authors: Reza Shokri-Gharelo Morteza Derakhti-Dizaji Davod Dadashi Maryam Chalekaei Ghader Rostami-Tobnag Source Type: research
Bioinformatics and meta-analysis of expression data to investigate transcriptomic response of wheat root to abiotic stresses
This study's findings enhance our understanding of key players and gene networks related to wheat root response to multiple abiotic stresses.PMID:38430956 | DOI:10.1016/j.biosystems.2024.105165 (Source: Biosystems)
Source: Biosystems - March 2, 2024 Category: Biotechnology Authors: Reza Shokri-Gharelo Morteza Derakhti-Dizaji Davod Dadashi Maryam Chalekaei Ghader Rostami-Tobnag Source Type: research
Early detection of glaucoma integrated with deep learning models over medical devices
Biosystems. 2024 Feb 28:105156. doi: 10.1016/j.biosystems.2024.105156. Online ahead of print.ABSTRACTThe early detection of some diseases can be a decisive factor in postponing or stabilizing their most adverse effects on the people who suffer from them. In the case of glaucoma, which is an ocular pathology that is the second leading cause of blindness in the world, early detection can make the difference between a patient's complete losses of vision, or preserve their sight, as well as improve their subsequent treatment. It is for this reason that there are currently medical campaigns for the early detection of pathologie...
Source: Biosystems - March 1, 2024 Category: Biotechnology Authors: DilipKumar Jang Bahadur Saini Siddhartha Choubey Abha Choubey Mariyam Kidwai Monica Mehrotra Sagar Kolekar Yudhishthir Raut Source Type: research
Early detection of glaucoma integrated with deep learning models over medical devices
Biosystems. 2024 Feb 28:105156. doi: 10.1016/j.biosystems.2024.105156. Online ahead of print.ABSTRACTThe early detection of some diseases can be a decisive factor in postponing or stabilizing their most adverse effects on the people who suffer from them. In the case of glaucoma, which is an ocular pathology that is the second leading cause of blindness in the world, early detection can make the difference between a patient's complete losses of vision, or preserve their sight, as well as improve their subsequent treatment. It is for this reason that there are currently medical campaigns for the early detection of pathologie...
Source: Biosystems - March 1, 2024 Category: Biotechnology Authors: DilipKumar Jang Bahadur Saini Siddhartha Choubey Abha Choubey Mariyam Kidwai Monica Mehrotra Sagar Kolekar Yudhishthir Raut Source Type: research
