定量方法
Cells with the same genome can exist in different phenotypes. and can change between distinct phenotypes when subject to specific stimuli and microenvironments. Some examples include cell differentiation during development, reprogramming…
Living systems adapt to various environmental conditions by changing their internal states. Inspired by gene expression and epigenetic modification dynamics, we herein propose a generic mechanism for adaptation by combining fast oscillatory…
In this paper, we build a new, simple, and interpretable mathematical model to estimate and forecast physiology related to the human glucose-insulin system, constrained by available data. By constructing a simple yet flexible model class…
Phylogenetically informed k-mers, or phylo-k-mers for short, are k-mers that are predicted to appear within a given genomic region at predefined locations of a fixed phylogeny. Given a reference alignment for this genomic region and…
A clinical trial is an essential step in drug development, which is often costly and time-consuming. In silico trials are clinical trials conducted digitally through simulation and modeling as an alternative to traditional clinical trials.…
Kratom (KT) typically exerts antidepressant (AD) effects. However, evaluating which form of KT extracts possesses AD properties similar to the standard AD fluoxetine (flu) remained challenging. Here, we adopted an autoencoder (AE)-based…
Retrosynthesis analysis is a critical task in organic chemistry central to many important industries. Previously, various machine learning approaches have achieved promising results on this task by representing output molecules as strings…
A chemometric data analysis challenge has been arranged during the first edition of the "International Workshop on Spectroscopy and Chemometrics", organized by the Vistamilk SFI Research Centre and held online in April 2021. The aim of the…
Purpose Tumor-infiltrating lymphocytes (TILs) have significant prognostic values in cancers. However, very few automated, deep-learning-based TIL scoring algorithms have been developed for colorectal cancers (CRC). Methods We developed an…
PURPOSE: To extend magnitude-based PDFF (Proton Density Fat Fraction) and $R_2^*$ mapping with resolved water-fat ambiguity to calculate field inhomogeneity (field map) using the phase images. THEORY: The estimation is formulated in matrix…
Mendelian randomization is the use of genetic variants to assess the existence of a causal relationship between a risk factor and an outcome of interest. Here, we focus on two-sample summary-data Mendelian randomization analyses with many…
Large variability between cell lines brings a difficult optimization problem of drug selection for cancer therapy. Standard approaches use prediction of value for this purpose, corresponding e.g. to expected value of their distribution.…
Surface modification is an important topic to improve dental implants. Corundum residues, which are part of current dental implant blasting, disappeared on Straumann dental implants in recent publications. In our investigations of the…
A longstanding goal of biology is to identify the key genes and species that critically impact evolution, ecology, and health. Network analysis has revealed keystone species that regulate ecosystems and master regulators that regulate…
Disease complications can alter vascular network morphology and disrupt tissue functioning. Diabetic retinopathy, for example, is a complication of types 1 and 2 diabetes mellitus that can cause blindness. Microvascular diseases are…
The escape trajectories animals take following a predatory attack appear to show high degrees of apparent 'randomness' - a property that has been described as 'protean behaviour'. Here we present a method of quantifying the escape…
The dose-response model has been widely used for quantifying the risk of infection of airborne diseases like COVID-19. The model has been used in the room-average analysis of infection risk and analysis using passive scalars as a proxy for…
The understanding of the mechanisms of SARS-CoV-2 evolution and transmission is one of the greatest challenges of our time. By integrating artificial intelligence (AI), viral genomes isolated from patients, tens of thousands of mutational…
Advanced cell culture techniques such as 3D bio-printing and hydrogel-based cell embedding techniques harbor many new and exciting opportunities to study cells in environments that closely recapitulate in-vivo conditions. Researchers often…
Large-scale perturbations in the microbiome constitution are strongly correlated, whether as a driver or a consequence, with the health and functioning of human physiology. However, understanding the difference in the microbiome profiles of…