Sebastian Preißl
A5010923873- Single-cell and spatial transcriptomics
- Epigenetics and DNA Methylation
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- RNA modifications and cancer
- Pancreatic function and diabetes
- Congenital heart defects research
- Neuroinflammation and Neurodegeneration Mechanisms
- Cancer Genomics and Diagnostics
- Cancer-related gene regulation
- Diabetes and associated disorders
- Receptor Mechanisms and Signaling
- Gene Regulatory Network Analysis
- Cancer-related molecular mechanisms research
- MicroRNA in disease regulation
- Mitochondrial Function and Pathology
- Chromatin Remodeling and Cancer
- RNA and protein synthesis mechanisms
- Genetics and Neurodevelopmental Disorders
- Cardiac Structural Anomalies and Repair
- Congenital Diaphragmatic Hernia Studies
- Immune cells in cancer
- Cell Image Analysis Techniques
- Signaling Pathways in Disease
- Ion channel regulation and function
University of California, San Diego
2018-2025
University of Freiburg
2011-2025
University of Graz
2025
UC San Diego Health System
2022-2024
Stanford University
2024
Epigenomics (Germany)
2023
Ludwig Cancer Research
2016-2022
Epigen Biosciences (United States)
2018-2022
Salk Institute for Biological Studies
2019
University of Minnesota
2019
Abstract The primary motor cortex (M1) is essential for voluntary fine-motor control and functionally conserved across mammals 1 . Here, using high-throughput transcriptomic epigenomic profiling of more than 450,000 single nuclei in humans, marmoset monkeys mice, we demonstrate a broadly cellular makeup this region, with similarities that mirror evolutionary distance are consistent between the transcriptome epigenome. core molecular identities neuronal non-neuronal cell types allow us to...
Identification of the cis-regulatory elements controlling cell-type specific gene expression patterns is essential for understanding origin cellular diversity. Conventional assays to map regulatory via open chromatin analysis primary tissues hindered by sample heterogeneity. Single cell accessible (scATAC-seq) can overcome this limitation. However, high-level noise each single profile and large volume data pose unique computational challenges. Here, we introduce SnapATAC, a software package...
Current catalogs of regulatory sequences in the human genome are still incomplete and lack cell type resolution. To profile activity gene elements diverse types tissues body, we applied single-cell chromatin accessibility assays to 30 adult tissue from multiple donors. We integrated these datasets with previous data 15 fetal reveal status open for ∼1.2 million candidate cis-regulatory (cCREs) 222 distinct comprised >1.3 nuclei. used maps delineate cell-type-specificity cCREs systematically...
The Encyclopedia of DNA Elements (ENCODE) project has established a genomic resource for mammalian development, profiling diverse panel mouse tissues at 8 developmental stages from 10.5 days after conception until birth, including transcriptomes, methylomes and chromatin states. Here we systematically examined the state accessibility in developing fetus. In total performed 1,128 immunoprecipitation with sequencing (ChIP-seq) assays histone modifications 132 assay transposase-accessible using...
Abstract The heart is a highly specialized organ with essential function for the organism throughout life. significance of DNA methylation in shaping phenotype remains only partially known. Here we generate and analyse methylomes from purified cardiomyocytes neonatal, adult healthy failing hearts. We identify large genomic regions that are differentially methylated during cardiomyocyte development maturation. Demethylation gene bodies correlates strongly increased expression. Silencing...
Abstract Single-cell transcriptomics can provide quantitative molecular signatures for large, unbiased samples of the diverse cell types in brain 1–3 . With proliferation multi-omics datasets, a major challenge is to validate and integrate results into biological understanding cell-type organization. Here we generated transcriptomes epigenomes from more than 500,000 individual cells mouse primary motor cortex, structure that has an evolutionarily conserved role locomotion. We developed...
Abstract Mammalian brain cells show remarkable diversity in gene expression, anatomy and function, yet the regulatory DNA landscape underlying this extensive heterogeneity is poorly understood. Here we carry out a comprehensive assessment of epigenomes mouse cell types by applying single-nucleus methylation sequencing 1,2 to profile 103,982 nuclei (including 95,815 neurons 8,167 non-neuronal cells) from 45 regions cortex, hippocampus, striatum, pallidum olfactory areas. We identified 161...
Epigenetic mechanisms and transcription factor networks essential for differentiation of cardiac myocytes have been uncovered. However, reshaping the epigenome these terminally differentiated cells during fetal development, postnatal maturation, in disease remains unknown. Here, we investigate dynamics myocyte development chronic heart failure. We find that prenatal maturation are characterized by a cooperation active CpG methylation histone marks at cis-regulatory genic regions to shape...
Pdgfra-expressing (Pdgfra+) cells have been implicated as progenitors in many mesenchymal tissues. To determine lineage potential, we generated PdgfrartTA knockin mice using CRISPR/Cas9. During lung maturation, counter to a prior study reporting that Pdgfra+ give rise equally myofibroblasts and lipofibroblasts, tracing PdgfrartTA;tetO-cre indicated ~95% of the lineaged are myofibroblasts. Genetic ablation PdgfrartTA-driven diphtheria toxin (DTA) led alveolar simplification, demonstrating...
Respiratory failure associated with COVID-19 has placed focus on the lungs. Here, we present single-nucleus accessible chromatin profiles of 90,980 nuclei and matched transcriptomes 46,500 in non-diseased lungs from donors ~30 weeks gestation,~3 years years. We mapped candidate
Abstract The mammalian cerebrum performs high-level sensory perception, motor control and cognitive functions through highly specialized cortical subcortical structures 1 . Recent surveys of mouse human brains with single-cell transcriptomics 2–6 high-throughput imaging technologies 7,8 have uncovered hundreds neural cell types distributed in different brain regions, but the transcriptional regulatory programs that are responsible for unique identity function each type remain unknown. Here...
Brain organoids with Neanderthal genes The genomes of Neanderthals and modern humans are overall very similar. To understand the impact genetic variants that specific to humans, Trujillo et al. performed a genome-wide analysis identify 61 coding in protein-coding genes. Identifying gene encoding RNA-binding protein NOVA1 as top candidate for functional analyses, they introduced archaic variant into human pluripotent stem cells generated brain organoids. These showed alterations expression...
Single-cell technologies measure unique cellular signatures but are typically limited to a single modality. Computational approaches allow the fusion of diverse single-cell data types, their efficacy is difficult validate in absence authentic multi-omic measurements. To comprehensively assess molecular phenotypes cells, we devised single-nucleus methylcytosine, chromatin accessibility, and transcriptome sequencing (snmCAT-seq) applied it postmortem human frontal cortex tissue. We developed...
Recent advances in single-cell transcriptomics have illuminated the diverse neuronal and glial cell types within human brain. However, regulatory programs governing identity function remain unclear. Using a single-nucleus assay for transposase-accessible chromatin using sequencing (snATAC-seq), we explored open landscapes across 1.1 million cells 42 brain regions from three adults. Integrating this data unveiled 107 distinct their specific utilization of 544,735 candidate cis-regulatory DNA...
Aging populations show higher incidences of myocardial infarction (MI) and heart failure (HF). Cardiac remodeling post-MI leads to progressive impaired cardiac function caused by a disarray several processes including derailed autophagy. Microribonucleic acids (miRNAs) are known be key players in cardiovascular disease but their involvement autophagy aging is not well understood.This study sought identify new miRNA candidates that regulate aging.We exploited high-throughput,...