Unsupervised machine learning for exploratory data analysis in imaging mass spectrometry
N Verbeeck, RM Caprioli… - Mass spectrometry …, 2020 - Wiley Online Library
Imaging mass spectrometry (IMS) is a rapidly advancing molecular imaging modality that
can map the spatial distribution of molecules with high chemical specificity. IMS does not …
can map the spatial distribution of molecules with high chemical specificity. IMS does not …
The dynamic control of signal transduction networks in cancer cells
Cancer is often considered a genetic disease. However, much of the enormous plasticity of
cancer cells to evolve different phenotypes, to adapt to challenging microenvironments and …
cancer cells to evolve different phenotypes, to adapt to challenging microenvironments and …
A statistical approach for identifying differential distributions in single-cell RNA-seq experiments
The ability to quantify cellular heterogeneity is a major advantage of single-cell
technologies. However, statistical methods often treat cellular heterogeneity as a nuisance …
technologies. However, statistical methods often treat cellular heterogeneity as a nuisance …
[HTML][HTML] Bistability in the Rac1, PAK, and RhoA signaling network drives actin cytoskeleton dynamics and cell motility switches
KM Byrne, N Monsefi, JC Dawson, A Degasperi… - Cell systems, 2016 - cell.com
Dynamic interactions between RhoA and Rac1, members of the Rho small GTPase family,
play a vital role in the control of cell migration. Using predictive mathematical modeling …
play a vital role in the control of cell migration. Using predictive mathematical modeling …
Differential expression analysis of single-cell rna-seq data: current statistical approaches and outstanding challenges
With the advent of single-cell RNA-sequencing (scRNA-seq), it is possible to measure the
expression dynamics of genes at the single-cell level. Through scRNA-seq, a huge amount …
expression dynamics of genes at the single-cell level. Through scRNA-seq, a huge amount …
MarcoPolo: a method to discover differentially expressed genes in single-cell RNA-seq data without depending on prior clustering
The standard analysis pipeline for single-cell RNA-seq data consists of sequential steps
initiated by clustering the cells. An innate limitation of this pipeline is that an imperfect …
initiated by clustering the cells. An innate limitation of this pipeline is that an imperfect …
Dynamic hydrogen peroxide levels reveal a rate-dependent sensitivity in B-cell lymphoma signaling
M Witmond, E Keizer, B Kiffen, WTS Huck… - Scientific Reports, 2024 - nature.com
Although in vivo extracellular microenvironments are dynamic, most in vitro studies are
conducted under static conditions. Here, we exposed diffuse large B-cell lymphoma …
conducted under static conditions. Here, we exposed diffuse large B-cell lymphoma …
Microfluidic single-cell measurements of oxidative stress as a function of cell cycle position
TJ Allcroft, JT Duong, PS Skardal… - Analytical and Bioanalytical …, 2023 - Springer
Single-cell measurements routinely demonstrate high levels of variation between cells, but
fewer studies provide insight into the analytical and biological sources of this variation. This …
fewer studies provide insight into the analytical and biological sources of this variation. This …
Multiplicity of mathematical modeling strategies to search for molecular and cellular insights into bacteria lung infection
Even today two bacterial lung infections, namely pneumonia and tuberculosis, are among
the 10 most frequent causes of death worldwide. These infections still lack effective …
the 10 most frequent causes of death worldwide. These infections still lack effective …
DYVIPAC: an integrated analysis and visualisation framework to probe multi-dimensional biological networks
Biochemical networks are dynamic and multi-dimensional systems, consisting of tens or
hundreds of molecular components. Diseases such as cancer commonly arise due to …
hundreds of molecular components. Diseases such as cancer commonly arise due to …