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TranscriptomicsSingle cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs)
Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs) from three independent tonsil donors. Sequencing libraries were prepared from FACS sorted individual ILCs with the Smart-Seq2 protocol (Picelli et al. Nature Methods 2013)
ORGANISM(S): Homo sapiens 
2016-01-27 | E-GEOD-70580 | biostudies-arrayexpress
TranscriptomicsSingle cell RNA-sequencing of PBMC derived B cells from human healthy donor
Motivation: The B-cell receptor (BCR) performs essential functions for the adaptive immune system including recognition of pathogen-derived antigens. The vast repertoire and adaptive variation of BCR sequences due to V(D)J recombination and somatic hypermutation (SHM) necessitates single-cell charac...
ORGANISM(S): Homo sapiens 
2018-06-22 | E-MTAB-6386 | biostudies-arrayexpress
TranscriptomicsTranscriptomic profiling of antigen-specific T cells at the single-cell level after clearance of hepatitis C virus
We used scRNA-seq data generated using Smart-seq2 to reconstruct the native TCR from Ag-specific T cells and then to link these with the gene expression profile of individual cells. antigen specific CD8 T cells were obtained from a subject who had previously cleared hepatitis C virus (HCV) infection...
ORGANISM(S): Homo sapiens 
2017-01-31 | E-MTAB-4850 | biostudies-arrayexpress
TranscriptomicsImproved Smart-Seq for sensitive full-length transcriptome profiling in single cells
Improved Smart-Seq for sensitive full-length transcriptome profiling in single cells. Cells of four different origins were profiled using commercial SMARTer and compared to five variants of an improved protocol (Smart-Seq2).
ORGANISM(S): Mus musculus 
2013-09-01 | E-GEOD-49321 | biostudies-arrayexpress
TranscriptomicsIdentification of RNA targets of EB1 using RIP-seq in Drosophila ovaries
Identification of RNAs that bind to EB1-GFP using RNA-immunoprecipitation followed by sequencing. Ovaries from flies expressing EB1-GFP (and GFP alone as a control) were used to immunoprecipitate crosslinked RNA-EB1GFP complexes using GFP Trap beads. The experiment was performed with three biologica...
ORGANISM(S): Drosophila melanogaster 
2021-07-24 | E-MTAB-9078 | biostudies-arrayexpress
TranscriptomicsOntogenic changes in hematopoietic hierarchy determine pediatric specificity and disease phenotype in fusion oncogene-driven myeloid leukemia - scRNAseq - 2
Paediatric cancers present specific genetic alterations, however the principles underlying their differences to adult cancers are yet unclear. Poor prognosis paediatric myeloid leukaemia fusion oncogenes represent clinically-relevant models to investigate age-specific tumorigenesis. Here, we establi...
ORGANISM(S): Mus musculus 
2019-10-15 | E-MTAB-8360 | biostudies-arrayexpress
TranscriptomicsSingle-cell chromatin accessibility atlas of human retinal organoid development
In order to provide multi-omic resolution to human retinal organoid developmental dynamics, we performed scRNA-seq and scATAC-seq from the same cell suspension across a time course (6-46 weeks) of human retinal organoid development. This data set covers all the retinal organoid scATAC-seq data gener...
ORGANISM(S): Homo sapiens 
2023-03-12 | E-MTAB-12714 | biostudies-arrayexpress
TranscriptomicsSingle-cell transcriptome atlas of human retinal organoid development
In order to provide multi-omic resolution to human retinal organoid developmental dynamics, we performed scRNA-seq and scATAC-seq from the same cell suspension across a time course (6-46 weeks) of human retinal organoid development. This data set covers all the retinal organoid scRNA-seq data genera...
ORGANISM(S): Homo sapiens 
2023-03-12 | E-MTAB-12715 | biostudies-arrayexpress
TranscriptomicsMosaic perturbation of transcription factors in human retinal organoid development
To begin to understand how TFs regulate retinal cell type identity in human tissues, we established a pooled loss of function (LOF) experiment based on the CROP-seq protocol in developed retinal organoids. We targeted five TFs (OTX2, NRL, CRX, VSX2, and PAX6) that are important for retinal developme...
ORGANISM(S): Homo sapiens 
2023-02-24 | E-MTAB-12622 | biostudies-arrayexpress
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