A lightweight deep learning method to identify different types of cervical cancer.

Cervical cancer is the second most common cancer in women's bodies after breast cancer. Cervical cancer develops from dysplasia or cervical intraepithelial neoplasm (CIN), the early stage of the disease, and is characterized by the aberrant growth of cells in the cervix lining. It is primarily caused by Human Papillomavirus (HPV) infection, which spreads through sexual activity.

Forecasting the concentration of NO2 using statistical and machine learning methods: A case study in the UAE.

Nitrogen dioxide (NO2) is the most active pollutant gas emitted in the industrial era and is highly correlated with human activities. Tracking NO2 emissions and predicting their concentrations represent important steps toward controlling pollution and setting rules to protect people's health indoors, such as in factories, and in outdoor environments. The concentration of NO2 was affected by the COVID-19 lockdown period and decreased because of restrictions on outdoor activities.

Towards a Virtual Fencing System: Training Domestic Sheep Using Audio Stimuli.

Fencing in livestock management is essential for location and movement control yet with conventional methods to require close labour supervision, leading to increased costs and reduced flexibility. Consequently, virtual fencing systems (VF) have recently gained noticeable attention as an effective method for the maintenance and control of restricted areas for animals. Existing systems to control animal movement use audio followed by controversial electric shocks which are prohibited in various countries.

Transfer learning: a friendly introduction.

Infinite numbers of real-world applications use Machine Learning (ML) techniques to develop potentially the best data available for the users. Transfer learning (TL), one of the categories under ML, has received much attention from the research communities in the past few years. Traditional ML algorithms perform under the assumption that a model uses limited data distribution to train and test samples.

A study of nitrogen dioxide (NO) periodicity over the United Arab Emirates using wavelet analysis.

NO and nitric oxide (NO) are the most reactive gases in the atmosphere. The interaction of NO molecules with oxygen, water and other chemicals leads to the formation of acid rain. The presence of NO in the air affects human health and forms a photochemical smog.

COVID-19 Pandemic Outbreak in the Subcontinent: A Data Driven Analysis.

Human civilization is experiencing a critical situation that presents itself for a new coronavirus disease 2019 (COVID-19). This virus emerged in late December 2019 in Wuhan city, Hubei, China. The grim fact of COVID-19 is, it is highly contagious in nature, therefore, spreads rapidly all over the world and causes severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).

SLiM on Diet: finding short linear motifs on domain interaction interfaces in Protein Data Bank.

Motivation: An important class of protein interactions involves the binding of a protein's domain to a short linear motif (SLiM) on its interacting partner. Extracting such motifs, either experimentally or computationally, is challenging because of their weak binding and high degree of degeneracy. Recent rapid increase of available protein structures provides an excellent opportunity to study SLiMs directly from their 3D structures.

PPiClust: efficient clustering of 3D protein-protein interaction interfaces.

The biological mechanisms through which proteins interact with one another are best revealed by studying the structural interfaces between interacting proteins. Protein-protein interfaces can be extracted from three-dimensional (3D) structural data of protein complexes and then clustered to derive biological insights. However, conventional protein interface clustering methods lack computational scalability and statistical support.

Mining super-secondary structure motifs from 3d protein structures: a sequence order independent approach.

Super-Secondary structure elements (super-SSEs) are the structurally conserved ensembles of secondary structure elements (SSEs) within a protein. They are of great biological interest. In this work, we present a method to formally represent and mine the sequence order independent super-SSE motifs that occur repeatedly in large data sets of protein structures.

BSAlign: a rapid graph-based algorithm for detecting ligand-binding sites in protein structures.

Detection of ligand-binding sites in protein structures is a crucial task in structural bioinformatics, and has applications in important areas like drug discovery. Given the knowledge of the site in a particular protein structure that binds to a specific ligand, we can search for similar sites in the other protein structures that the same ligand is likely to bind. In this paper, we propose a new method named "BSAlign" (Binding Site Aligner) for rapid detection of potential binding site(s) in the target protein(s) that is/are similar to the query protein's ligand-binding site.

Rapid retrieval of protein structures from databases.

As protein databases continue to grow in size, exhaustive search methods that compare a query structure against every database structure can no longer provide satisfactory performance. Instead, the filter-and-refine paradigm offers an efficient alternative to database search without compromising the accuracy of the answers. In this paradigm, protein structures are represented in an abstract form.

MatAlign: precise protein structure comparison by matrix alignment.

We propose a detailed protein structure alignment method named "MatAlign". It is a two-step algorithm. Firstly, we represent 3D protein structures as 2D distance matrices, and align these matrices by means of dynamic programming in order to find the initially aligned residue pairs.

Automatic 3D protein structure classification without structural alignment.

In this paper, we present a new scheme named ProtClass for automatic classification of three-dimensional (3D) protein structures. It is a dedicated and unified multiclass classification scheme. Neither detailed structural alignment nor multiple binary classifications are required in this scheme.

Rapid 3D protein structure database searching using information retrieval techniques.

Motivation: As the sizes of three-dimensional (3D) protein structure databases are growing rapidly nowadays, exhaustive database searching, in which a 3D query structure is compared to each and every structure in the database, becomes inefficient. We propose a rapid 3D protein structure retrieval system named 'ProtDex2', in which we adopt the techniques used in information retrieval systems in order to perform rapid database searching without having access to every 3D structure in the database. The retrieval process is based on the inverted-file index constructed on the feature vectors of the relationships between the secondary structure elements (SSEs) of all the 3D protein structures in the database.