Other Quantitative Biology
Self-driving labs (SDLs) combine fully automated experiments with artificial intelligence (AI) that decides the next set of experiments. Taken to their ultimate expression, SDLs could usher a new paradigm of scientific research, where the…
The ubiquity of computation in modern scientific research inflicts new challenges for reproducibility. While most journals now require code and data be made available, the standards for organization, annotation, and validation remain lax,…
On 19th March, the World Health Organisation declared a pandemic. Through this global spread, many nations have witnessed exponential growth of confirmed cases brought under control by severe mass quarantine or lockdown measures. However,…
Colorectal cancer is the third most common tumor in men and the second in women, accounting for 10% of all tumors worldwide. It ranks second in cancer-related deaths with 9.4%, following lung cancer. The decrease in mortality rate…
Differential equations play a pivotal role in modern world ranging from science, engineering, ecology, economics and finance where these can be used to model many physical systems and processes. In this paper, we study two mathematical…
This manuscript is a tutorial on tig sequences that emerged after the name "contig", and are of diverse purposes in sequence bioinformatics. We review these different sequences (unitigs, simplitigs, monotigs, omnitigs to cite a few), give…
One of the great challenges in science is determining when, where, why, and how life first arose as well as the form taken by this life. In the present study, life was assumed to be (1) bounded, (2) replicating, (3) able to inherit…
Current popular methods in literature of RNA sequencing normalisation do not account for gene length when compared across samples, whilst adjusting for count biases in the data. This creates a gap in the normalisation as bigger genes in RNA…
Disease identification is a core, routine activity in observational health research. Cohorts impact downstream analyses, such as how a condition is characterized, how patient risk is defined, and what treatments are studied. It is thus…
Cancers are complex adaptive diseases regulated by the nonlinear feedback systems between genetic instabilities, environmental signals, cellular protein flows, and gene regulatory networks. Understanding the cybernetics of cancer requires…
Real-time forecasting of disease outbreaks requires standardized outputs generated in a timely manner. Development of pipelines to automate infectious disease forecasts can ensure that parameterization and software dependencies are common…
In 2022 new subvariants of Coronavirus appeared in South Africa, and spread rapidly to other parts of the world. The effects of selective evolution on increasing the already high contagiousness of CoV19 up to Omicron were previously…
Since the first case of COVID-19 disease in Wuhan in December 2019, there is a worldwide struggle to reduce the transmission of acute respiratory syndrome coronavirus SARS-CoV-2. Many countries worldwide decided to impose local lockdowns in…
The Horizon 2020 project EOSC-Life brings together the 13 Life Science 'ESFRI' research infrastructures to create an open, digital and collaborative space for biological and medical research. Sharing sensitive data is a specific challenge…
Human life expectancy has dramatically improved over the course of the last century. Although this reflects a global improvement in sanitation and medical care, this also implies that more people suffer from diseases that typically manifest…
Biological molecules chose one of two structurally, chiral systems which are related by reflection in a mirror. It is proposed that this choice was made, causally, by magnetically polarized and physically chiral cosmic-rays, which are known…
The concept of biological adaptation was closely connected to some mathematical, engineering and physical ideas from the very beginning. Cannon in his "The wisdom of the body" (1932) used the engineering vision of regulation. In 1938, Selye…
Cell types are at the root of modern biology, and describing them is a core task of the Human Cell Atlas project. Surprisingly, there are no standards for reporting new cell types, leading to a gap between classes mentioned in biomedical…
Human brain activity is often measured using the blood-oxygen-level dependent (BOLD) signals obtained through functional magnetic resonance imaging (fMRI). The strength of connectivity between brain regions is then measured as a Pearson…
Prominently accountable for the upsurge of COVID-19 cases as the world attempts to recover from the previous two waves, Omicron has further threatened the conventional therapeutic approaches. Omicron is the fifth variant of concern (VOC),…