The Drosophila embryo at single-cell transcriptome resolution

N Karaiskos, P Wahle, J Alles, A Boltengagen, S Ayoub… - Science, 2017 - science.org
By the onset of morphogenesis, Drosophila embryos consist of about 6000 cells that express
distinct gene combinations. Here, we used single-cell sequencing of precisely staged …

[HTML][HTML] Cell fixation and preservation for droplet-based single-cell transcriptomics

…, PL Ruffault, S Ayoub, L Schreyer, A Boltengagen… - BMC biology, 2017 - Springer
Background Recent developments in droplet-based microfluidics allow the transcriptional
profiling of thousands of individual cells in a quantitative, highly parallel and cost-effective way…

[HTML][HTML] Single-cell RNA-sequencing of herpes simplex virus 1-infected cells connects NRF2 activation to an antiviral program

…, V Franke, J Menegatti, C Kocks, A Boltengagen… - Nature …, 2019 - nature.com
Herpesvirus infection initiates a range of perturbations in the host cell, which remain poorly
understood at the level of individual cells. Here, we quantify the transcriptome of single …

[HTML][HTML] Single-cell transcriptomics reveals common epithelial response patterns in human acute kidney injury

C Hinze, C Kocks, J Leiz, N Karaiskos, A Boltengagen… - Genome Medicine, 2022 - Springer
Background Acute kidney injury (AKI) occurs frequently in critically ill patients and is associated
with adverse outcomes. Cellular mechanisms underlying AKI and kidney cell responses …

A single-cell transcriptome atlas of the mouse glomerulus

…, M Rahmatollahi, A Boltengagen… - Journal of the …, 2018 - journals.lww.com
Background Three different cell types constitute the glomerular filter: mesangial cells,
endothelial cells, and podocytes. However, to what extent cellular heterogeneity exists within …

SLAM‐Drop‐seq reveals mRNA kinetic rates throughout the cell cycle

…, M Schilling, I Minia, J Alles, A Boltengagen… - Molecular Systems …, 2023 - embopress.org
RNA abundance is tightly regulated in eukaryotic cells by modulating the kinetic rates of
RNA production, processing, and degradation. To date, little is known about time‐dependent …

[HTML][HTML] Urinary single-cell sequencing captures kidney injury and repair processes in human acute kidney injury

…, SJ Kim, CM Skopnik, C Hinze, A Boltengagen… - Kidney International, 2022 - Elsevier
Acute kidney injury (AKI) is a major health issue, the outcome of which depends primarily on
damage and reparative processes of tubular epithelial cells. Mechanisms underlying AKI …

[HTML][HTML] Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection

…, J Menegatti, V Franke, C Kocks, A Boltengagen… - Genome biology, 2017 - Springer
Background Herpesviruses can infect a wide range of animal species. Herpes simplex virus
1 (HSV-1) is one of the eight herpesviruses that can infect humans and is prevalent …

[HTML][HTML] Spatiotemporal, optogenetic control of gene expression in organoids

…, R Wurmus, AO Martinez, CC Jara, A Boltengagen… - Nature …, 2023 - nature.com
Organoids derived from stem cells have become an increasingly important tool for studying
human development and modeling disease. However, methods are still needed to control …

[HTML][HTML] Human muscle-derived CLEC14A-positive cells regenerate muscle independent of PAX7

…, D Mompoint, S Quijano-Roy, A Boltengagen… - Nature …, 2019 - nature.com
Skeletal muscle stem cells, called satellite cells and defined by the transcription factor PAX7,
are responsible for postnatal muscle growth, homeostasis and regeneration. Attempts to …