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Series GSE133704 Query DataSets for GSE133704
Status Public on Jul 30, 2019
Title Epigenomics and Single-cell Sequencing Define a Developmental Hierarchy in Langerhans Cell Histiocytosis [scRNA-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Langerhans cell histiocytosis (LCH) is a rare neoplasm predominantly affecting children. It occupies a characteristic hybrid position between cancers and inflammatory diseases, which makes it an attractive model for studying cancer development. To explore the molecular mechanisms underlying the pathophysiology of LCH and its characteristic clinical heterogeneity, we investigated the transcriptomic and epigenomic diversity in primary LCH lesions. Using single-cell RNA sequencing, we identified multiple recurrent types of LCH cells within these biopsies, including putative LCH progenitor cells and several subsets of differentiated LCH cells. We confirmed the presence of proliferative LCH cells in all analysed biopsies using immunohistochemistry, and we defined the epigenomic and gene-regulatory basis of the different LCH cell subsets using chromatin profiling. In summary, our single-cell analysis of LCH uncovered an unexpected degree of cellular, transcriptomic, and epigenomic heterogeneity among LCH cells, reflecting complex developmental hierarchies in LCH lesions.
Overall design Single-cell RNA-sequencing (10x Genomics): 7 LCH biopsies from different tissues.

**The submitter declares that the raw sequence data have been deposited at the European Genome-Phenome Archive (EGA) to protect patient privacy.**
Contributor(s) Halbritter F, Farlik M, Schwentner R, Jug G, Fortelny N, Schnöller T, Pisa H, Schuster L, Reinprecht A, Czech T, Gojo J, Holter W, Minkov M, Bauer W, Simonitsch-Klupp I, Bock C, Hutter C
Citation(s) 31345789
Submission date Jul 02, 2019
Last update date Jul 30, 2019
Contact name Christoph Bock
Organization name CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
Street address Lazarettgasse 14
City Vienna
ZIP/Postal code 1090
Country Austria
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (7)
GSM3916589 LCH_E
GSM3916590 LCH_H
GSM3916591 LCH_I
This SubSeries is part of SuperSeries:
GSE133706 Epigenomics and Single-cell Sequencing Define a Developmental Hierarchy in Langerhans Cell Histiocytosis
BioProject PRJNA552292

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE133704_RAW.tar 72.4 Mb (http)(custom) TAR (of H5)
Processed data provided as supplementary file
Raw data not provided for this record

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