Statistical resampling methods are widely used for confidence interval placement and as a data perturbation technique for statistical inference and learning. An important assumption of popular resampling methods such as the standard bootstrap is that input observations are identically and independently distributed (i.i.d.). However, within the area of computational biology and bioinformatics, many

A novel implantable and externally controllable stem-cell-based platform for the treatment of Glioblastoma brain cancer has been proposed to bring hope to patients who suffer from this devastating cancer type. Induced Neural Stem Cells (iNSCs), known to have potent therapeutic effects through exosomes-based molecular communication, play a pivotal role in this platform. Transplanted iNSCs demonstrate

Metabolites are the final production of biochemical reactions in the rumen micro-ecological system and are very sensitive to changes in rumen microbes. Nuclear magnetic resonance (NMR) spectroscopy could both identify and quantify the metabolic composition of the ruminal fluid, which reflects the interaction between rumen microbes and diet. The main challenge of untargeted metabolomics is the compound

At present, depression has become a main health burden in the world. However, there are many problems with the diagnosis of depression, such as low patient cooperation, subjective bias and low accuracy. Therefore, reliable and objective evaluation method is needed to achieve effective depression detection. Electroencephalogram (EEG) and eye movements (EMs) data have been widely used for depression

The three-dimensional structures populated by a protein molecule determine to a great extent its biological activities. The rich information encoded by protein structure on protein function continues to motivate the development of computational approaches for determining functionally-relevant structures. The majority of structures generated in silico are not relevant. Discriminating relevant/native

Due to technological advances the quality and availability of biological data has increased dramatically in the last decade. Analysing protein-protein interaction networks (PPINs) in an integrated way, together with subcellular compartment data, provides such biological context, helps to fill in the gaps between a single type of biological data and genes causing diseases and can identify novel genes

To assist drug development, many computational methods have been proposed to identify potential drug-disease treatment associations before wet experiments. Based on the assumption that similar drugs may treat similar diseases, most methods calculate the similarities of drugs and diseases by using various chemical or biological features. However, since these features may be unknown or hard to collect

The synchronization control of two chaotic oscillatory systems is designed based on DNA strand displacement in the present work. Thus, combination synchronization of three 3-variable chaotic oscillatory systems is proposed based on DNA strand displacement. Firstly, five chemical reaction modules of double, displacement, adjustment, catalysis and degradation are designed. Based on these five modules

Severe circumstances, such as the present pandemic, require us to focus on immediate and major concerns, but they also ask us to reflect on where we were, are, and want to be in the future. In doing so, severe circumstances are, essentially, asking us to design a future, one with new emphases, attitudes and activities, and which will mitigate, solve, or outright remove the present critical problems

Barium titanate nanoparticles are desirable for a wide range of applications, spanning electronics to biomedicine. Here, we present an electrospray-based method for the synthesis of barium titanate nanomaterials, where their morphology can be altered, forming either particles or rods. As-electrosprayed particles are amorphous and spherical, but upon calcination in the presence of sodium chloride their

DNA origami is a powerful tool in nanotechnology that can be used to construct arbitrary structures for several nanoengineering applications. Generally, the more complex and sophisticated the construction, the greater is the number of origamis and connection strands that will be needed. Therefore, developing an effective and low-cost method for multiform DNA architecture is important in nanoengineering

A highly sensitive and selective optical fiber-based enzymatic biosensor has been proposed in the present study for detection of uric acid (UA) in human serum. The working mechanism of sensor depends on surface plasma property and localized surface plasmon resonance technique. For this purpose, a micro-ball fiber sensor probe of $350~\mu \text{m}$ diameter was fabricated using advanced fusion-splicer

La 0.7 Sr 0.3 MnO 3 (LSMO) nanoparticles have been obtained via solution combustion synthesis (SCS) using urea and glycine as fuels. Also, La 0.7 Sr 0.27 Ca 0.03 MnO 3 (LSCMO) nanoparticles have been synthesized through solution combustion using urea as fuel. In this paper, the combustion process was carried out with a fuel to oxidant ratio giving fuel deficient conditions ( $\phi < {1}$ ). The thermal

The accurate delivery of precise amounts of drugs to a specific location can considerably affect various clinical applications. The precise control of drug amount and position is crucial to a successful drug delivery. This paper proposes the use of poly(lactide-co-glycolicacid) (PLGA)-based microspheres to contain precise amounts of drugs and an optical tweezer manipulator to transport these drug-containing

Biofilm formation by bacteria protects them against environmental stresses such as desiccation, shear forces and antimicrobial agents, making them much harder to remove and increasing their virulence and persistence in industrial water systems and biomedical equipment. One promising method of disrupting biofilm formation and growth is to employ passive surface structures to inhibit bacterial adhesion

Both action potentials and mechanosensitive signalling are an important communication mechanisms in plants. Considering an information-theoretic framework, this paper explores the effective range of multiple action potentials for a long chain of cells (i.e., up to 100) in different configurations, and introduces the study of multiple mechanosensitive activation signals (generated due to a mechanical

With the advancement of synthetic biology, several new tools have been conceptualized over the years as alternative treatments for current medical procedures. This work we investigate how synthetically engineered neurons can operate as digital logic gates that can be used towards bio-computing inside the brain and its impact on epileptic seizure-like behaviour. We quantify the accuracy of logic gates

Currently, most of the researches in molecular communication (MC) domain focus on the static MC scenarios. However, some envisioned important MC applications require mobile MC system. The investigation on mobile MC, especially the signal detection of mobile MC is limited. This work considers the problem of signal detection for mobile MC scenarios where the receiver nano-machine performs random movement

Objective: The performance of targeted immuno-chemotherapy of tumor is highly exposed to drug absorption in systemic circulation, which reduces its efficiency and increases side-effects. Direct drug targeting (DDT) combined with immuno-chemotherapy has the potential to mitigate the undesired systemic exposure, by using drug-loaded nanorobots to target cancer cells with the shortest possible physiological

Molecular communication (MC) can play an indispensable role in nanonetworking and internet of bio-nano things based applications. In most MC receivers, the detection of data symbols requires the optimal threshold, which depends on the accurate diffusion channel impulse response (DCIR), and statistics of noise and interference (SNI). In order to estimate these parameters, a training phase must be carried

With the development of nanotechnology, externally manipulable or self-regulatable smart nanosystems can be utilized as effective tools for computational nanobiosensing, where natural computing strategies are exploited for knowledge-aided nanobiosensing.

Targeted drug delivery (TDD) modality promises a smart localization of appropriate dose of therapeutic drugs to the targeted part of the body at reduced system toxicity. To achieve the desired goals of TDD, accurate analysis of the system is important. Recent advances in molecular communication (MC) present prospects to analyzing the TDD process using engineering concepts and tools. Specifically, the

In genetic regulatory networks (GRNs), the diffusion rate of mRNA and protein play a key role in regulatory mechanisms of gene expression, especially in translation and transcription. However, the influence of diffusion rate on oscillatory gene expression is not well understood. In this paper, by considering the diffusion rate of mRNA and protein, a novel GRN is proposed. Then, two basic problems of

DNA computing, the combination of computer science and molecular biology, is a burgeoning research field that holds promise for many applications. The accuracy of DNA computing is determined by reliable DNA sequences, the quality of which affects the accuracy of hybridization reactions. Evaluating the sequences obtained from the previous combination constraints in NUPACK for simulation experiments

In this paper, the sufficient conditions for the global exponential stability of the switched genetic regulatory networks with mixed time delays are obtained. The proposed method does not need the construction of Lyapunov-Krasovskii functional, but is directly proceeded by the definition of global exponential stability. The derived sufficient conditions can easily be verified by checking the eigenvalues

Asynchronous tissue P systems with symport/antiport rules are a class of parallel computing models inspired by cell tissue working in a non-synchronized way, where the use of rules is not obligatory, that is, at a computation step, an enabled rule may or may not be applied. In this work, the notion of local synchronization is introduced at three levels: rules, channels, and cells. If a rule in a locally

Proteins play a crucial role in regulating life activities and therefore investigating the behaviors of proteins is of critical significance for understanding the underlying mechanisms guiding the physiological and pathological processes of living organisms. Traditional molecular biochemical methods for protein assays are based on ensemble measurements which reflect the averaged behaviors of the whole

This paper researches a suitable mathematical model that can reliably predict the release of a model drug (namely calcein) from biologically targeted liposomal nanocarriers triggered by ultrasound. Using mathematical models, curve fitting is performed on a set of five experimental acoustic drug release runs from Albumin-, Estrone-, and RGD-based Drug Delivery Systems (DDS). The three moieties were

In this paper, a novel time-based modulation scheme is proposed in the time-asynchronous channel for diffusion-based molecular communication systems with drift. Based on this modulation scheme, we demonstrate that the sample variance of information molecules' arrival time approximately follows a noncentral chi-squared distribution. According to its conditional probability density function (PDF), the

Inter-Symbol Interference (ISI) is one of the challenges of bio-inspired diffusion-based molecular communication. The degradation of the remaining molecules from a previous transmission is the solution that biological systems use to mitigate this ISI. While most prior work has proposed the use of enzymes to catalyze the molecules degradation, enzymes also degrade the molecules carrying the information

Oscillation expression of NF- [Formula: see text] signaling system can lead to nuclear NF- [Formula: see text] accumulation which involving various important cellular processes including immune response, inflammation and cancer development. Negative feedback circuits involved in NF- [Formula: see text] signaling system are generally believed to be responsible for the oscillation expression. In view

The realization of bio-compatible nanomachines would pave the way for developing novel diagnosis and treatment techniques for the dysfunctions of intra-body nanonetworks and revolutionize the traditional healthcare methodologies making them less invasive and more efficient. The network of these nanomachines is aimed to be used for treating neuronal diseases such as developing an implant that bridges

In DNA nanotechnology, the aim in folding DNA origami is to find a good piece of rectangular DNA origami with desired sizes, which could be larger or smaller for different application purposes. In recent three years, the technique of folding smaller ones is paid heavily attentions. In this work, we design a programming rectangular DNA origami in size 20*30nm with M13p18, which is smallest and cheapest

This review addressed erectile dysfunction, regarding pathophysiology and therapeutic strategies. The line of treatment includes phosphodiesterase type-5 inhibitors and other types of therapy like topical and stem-cell transplant. Scientific literature was assessed to investigate the impact of nanotechnology on erectile dysfunction therapy. Various nanotechnology approaches were applied, like vesicular

In developing countries, the incidence of postharvest losses reduces the quantity and quality of food for human consumption and causes an economical damage along the food chain, especially, for primary producers. In this study, a multisystem coating (NC-EOt-C) based on pullulan and polymeric nanocapsules containing EO of Thymus vulgaris L. (EOt) was applied to increase the shelf life of table grapes

Recent progress on bioresorbable and bio-compatible miniature systems provides prospects for developing novel nanorobots operating inside the human body. These nanoscale systems are expected to dissolve in vivo and cause no side effect after completing their tasks. Motivated by these advancements, we have developed the analytical framework of touchable molecular communication (TouchCom) to describe

In this perspective article, we emphasize the combination of Surface-Enhanced Raman Spectroscopy (SERS) and Microfluidic devices. SERS approaches have been widely studied and used for multiple applications including trace molecules detection, in situ analysis of biological samples and monitoring or, all of them with good results, however still with limitations of the technique, for example regarding

Massively parallel sequencing, a popular and efficient sequencing method, produces a tremendous number of sequences from multiple individual samples. Labeling sequences with barcodes (tags) prevents them from being unrecoverable or confused during sequencing, replication, and oligonucleotide synthesis. In view of DNA barcode set design, we propose a tabu variable neighborhood search (TVNS) to design

The immobilization of microorganisms has been reported as an alternative to improve the efficiency of processes such as fermentation, anaerobic digestion, bioadsorption, and many others. Since the kinetics of bioprocesses are governed by the adsorbent/adsorbate interaction, it is important to know the mechanisms of interaction between biological materials and supports. This could help to define optimal

Establishing a physiological microenvironment in vitro that is suitable for cell and tissue growth is essential for medical research. Microfluidic chips are widely used in the construction of a microenvironment and the analysis of cell behavior in vitro; however, the design and manufacture of microfluidic chips for the long-term culture of a tumor model tends to be highly complex and time-consuming

Research to develop sustainable, automated and robust Enzymatic Biofuel Cell (EBFC) with high-energy output is hugely driven from its multiple application domains. To this end, continuous work to realize inexpensive and mass-manufacturable bioelectrodes has remained one of the prime challenges. In the present work, such bioelectrodes (both bioanode and biocathode) have been created by leveraging customized

Phytopathogenic bacteria affect a wide variety of crops, causing significant economic losses. Natural biocides are the alternative to chemical methods of phytopathogens control. The goal of the present study is the evaluation of the biocidal activity of the following: 1) the extract of orange wax (EOW); 2) zinc ferrite nanoparticles (ZF-NPs); 3) the EOW adsorbed on the ZF-NPs; and 4) the EOW/ZF-NPs

High intensity focused ultrasound (HIFU) has gained increasing attention as a noninvasive therapeutic method for wide range of biomedical applications from drug delivery to cancer treatment. However, high level of ultrasonic power required for efficient HIFU treatment can cause adverse effects such as damage to surrounding healthy tissues and skin burns. One of the strategies to improve the therapeutic

BACKGROUND AND OBJECTIVE Cancer, as the most challenging part in the human disease history, has always been one of the main threats to human life and health. The high mortality of cancer is largely due to the complexity of cancer and the significant differences in clinical outcomes. Therefore, it will be significant to improve accuracy of cancer survival prediction, which has become one of the main

We study a drift-induced diffusive mobile molecular communication system where source, destination and cooperative nanomachines follow the one-dimensional Brownian motion. For information exchange from source nanomachine to receiver nanomachine, both direct and decode-forward (DF) relay-assisted cooperative paths are considered. The closed-form expressions for the probabilities of detection and false

Silica nanoparticles (SiO2-NP) are an option as drug carriers due to their biodegradability, biocompatibility, and capacity to bind themselves to other compounds. However, until now, the effect of these particles on the brain when neurodegeneration occurs is unknown. Hence, this work focused on the in vivo evaluation of the neurotoxic effects of SiO2-NP when oxidative and inflammation are present during

We have showed that surface layer can determine cardiac effects of the magnetic nanoparticles (MNPs). Considering the high binding capacity of albumin and low side-effects, the aim of this study was to evaluate the influence of albumin coating on the cardiovascular effects of two manganese ferrite-based MNPs: citrate-coated and bare MNPs. Isolated rat hearts were perfused with citrate-coated magnetic

Synthetic logic circuits have been proposed as potential solutions for theranostics of biotechnological problems. One proposed model is the engineering of bacteria cells to create logic gates, and the communication between the bacteria populations will enable the circuit operation. In this paper, we analyze the quality of bacteria-based synthetic logic circuit through molecular communications that

Perfect optical metamaterial absorbers (POMMA) utilize intrinsic loss, with the aid of appropriate structural design, to achieve near unity absorption at a certain wavelength. In all the reported absorbers, the absorption occurs only at a single wavelength or dual/multi-band wavelengths where plasmon resonances are ex-cited in the nanostructure. Here we not only show a single-band perfect absorber

Molecular signatures of cancer, e.g., genes or microRNAs (miRNAs), have been recognized very important in predicting the occurrence of cancer. From gene-expression and miRNA-expression data, the challenge of identifying molecular signatures lies in the huge number of molecules compared to the small number of samples. To address this issue, in this paper, we propose a heuristic algorithm to identify

Exploration of various characteristics of 3D protein structures through querying relational databases storing the structures can be challenging due to the necessity to conform to a particular database schema. However, this also brings several advantages, like the ability to perform extensive database searches with declarative SQL language, protect data against hardware damages through regular backup

Electrospinning is a micrometric or nanometric scale fiber manufacturing technique with structural factors such as greater contact surface and pore size that allows the incorporation of biological agents in its structure, increasing their potential for medical applications. Due to the conditions required for the electrospinning process, such as high voltage, in the present work, the evaluation of the

DNA damage caused by γ -irradiation initiates oscillatory expression of the p53 genetic network. Although many studies revealed the effects of the p53-Mdm2 circuit on p53 dynamics, a few studies explored the contribution of upstream kinases to p53 oscillation. In this paper, an integrated mathematical model of the p53 network in response to γ -irradiation is studied, which consists of five basic components

Developing adequate biomaterials to engineer cell-scaffold interactions has become a promising way for physically regulating the biological behaviors of cells in the field of tissue engineering. Biopolymeric hydrogels have shown great merits as cellular scaffolds due to their biocompatible and biodegradable characteristics. In particular, the advent of atomic force microscopy (AFM) provides a powerful

In diffusion-based molecular communications, time synchronization is a major reason for the increase of system structure complexity. In this paper, we consider the asynchronous receiver design for molecular communications with information symbols conveyed in the time of released molecules. The main contribution of this paper is that we develop a detector called clock-free asynchronous receiver design

Accumulating biological experiments have shown that circRNAs are closely related to the occurrence and development of many complex human diseases. During recent years, the associations of circRNA with disease have caused more and more researchers to pay attention and to analyze their correlation mechanisms. However, experimental methods for determining the associations of circRNA with a particular

Protein structure prediction has been a long-standing problem for the past decades. In particular, the loop region structure remains an obstacle in forming an accurate protein tertiary structure because of its flexibility. In this study, Rama torsion angle and secondary structure feature-guided differential evolution named RSDE is proposed to predict three-dimensional structure with the exploitation

As a specific type of structural variation, inversions are enjoying particular traction as a result of their established role in evolution. Using third-generation sequencing technology to predict inversions is growing in interest, but many such methods focus on improving sensitivity, giving rise to either too many false positives or very long running times. In this paper, we propose a new framework

Fine needle aspirate sampling of tumors requires acquisition of sufficient cells to complete a diagnosis. Aspirates through such fine needles are typically composed of small cell clusters in suspension, making them readily amenable to microfluidic analysis. Here we show a microfluidic device with integrated electrodes capable of interrogating and identifying cellular components in a patient-derived

Zea mays (maize) is the highest yielding food crop globally, feeding large numbers of people across the planet. It is thus especially important to explore the key genes that affect maize production with prior knowledge. Merging multiple datasets of different types can improve the accuracy of candidate genes prediction results, so we constructed interaction networks using gene, mRNA, protein, and expression