NimwegenLab
@NimwegenLab
Gene regulatory networks and genome evolution. How do single cells make up their minds? @[email protected]
New paper! Concentrations of active transcription factors (TFs) can fluctuate on the same time scale as individual TF binding and unbinding events, causing 'non-equilibrium' regulatory responses in their targets. We believe this may be pervasive in bacterial gene regulation.
Different target genes controlled by the same regulator respond to DNA damage with highly distinct expression responses when fluctuations in transcription factor levels match the timescale of their binding and unbindingfrom DNA. Read the paper: go.aps.org/3Iu2SnU
Bonsai: Tree representations for distortion-free visualization and exploratory analysis of single-cell omics data biorxiv.org/content/10.110…
Popular methods like UMAP & t-SNE are stochastic and distort data structure. Bonsai - a novel method - builds trees to relate high-dimensional objects, accounting for measurement noise. biorxiv.org/content/10.110…
Radical approach to the UMAP debate: offering an actual alternative
Popular methods like UMAP & t-SNE are stochastic and distort data structure. Bonsai - a novel method - builds trees to relate high-dimensional objects, accounting for measurement noise. biorxiv.org/content/10.110…