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This study introduces single-cell transcription factor (TF) sequencing, a single-cell barcoded and doxycycline-inducible TF overexpression approach that reveals dose-sensitive functional classes of TFs and cellular heterogeneity by mapping TF dose-dependent transcriptomic changes during the reprogramming of mouse embryonic multipotent stromal cells.

The School of Life Sciences at EPFL invites applications for a faculty position in life science engineering. Appointments will be at Tenure Track Assistant Professor or at Associate Professor level. W...

The adoption of microfluidics was fundamental to the development of cost-effective, high-throughput DNA sequencing. As the field progresses towards multi-omics, Lambert et al. reflect on the key conce...

Research is moving from a gene- and protein-centric view toward a holistic understanding of cellular phenotypes. This Review discusses the technological microfluidics challenges that must be addressed...

Screen of minimalistic enhancers in blood progenitor cells demonstrates widespread dual activator-repressor function of transcription factors (TFs) and enables the model-guided design of cell-state-sp...

A genomic barcoding scheme called two-layer DNA seqFISH+ enables the simultaneous mapping of more than 100,000 loci and has been used to identify cell-type-specific subnuclear compartments in the mous...

Sequence-based deep learning models have become the state of the art for the analysis of the genomic regulatory code. Particularly for transcriptional enhancers, deep learning models excel at decipher...

Building predictive models of the cell requires systematically mapping how perturbations reshape each cell’s state, function, and behavior. Here, we present Tahoe-100M , a giga-scale single-cell atlas...

Nature - Characterization of single neurons reprogrammed by pancreatic cancer

‪Professor in Systems Biology and Genetics at EPFL‬ - ‪‪Cited by 18,422‬‬ - ‪genetics‬ - ‪transcription‬ - ‪systems biology‬ - ‪single cell‬

Programmable Enrichment via RNA FlowFISH by sequencing (PERFF-seq) isolates rare cells based on RNA marker transcripts for single-cell RNA sequencing profiling of complex tissues, with applicability t...

From exceptional PhD directly to independent group leader

Live imaging shows that regulatory protein clusters may aid fast and precise delivery of transcriptional information to gene loci.

Functional chromatin changes occur at different scales. Here, the authors introduce ChromatinHD, a method that characterises differential and predictive chromatin accessibility changes in a scale-adap...

Expansive repositories of single-cell RNA-seq data are now available for large-scale transcriptomics analysis at single-cell resolution. However, proteomics data are relatively limited in scale and se...

The Tabula Sapiens is a reference human cell atlas containing single cell transcriptomic data from more than two dozen organs and tissues. Here we report Tabula Sapiens 2.0 which includes data from ni...

Population-scale resources of genetic, molecular, and cellular information form the basis for understanding human genomes, charting the heritable basis of disease, and tracing the effects of mutations...

Phase separation explains the exquisite spatial and temporal regulation of many biological processes, but the role of transcription factor–mediated condensates in gene regulation is contentious, requi...

Assistant Professor - Molecular Biology and Genetics