Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

16 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

MicroRNA expression in human tonsillar B cell populations

ABSTRACT: small RNA profiles of 6 human tonsillar B cell populatios (naive B cells, pre-germinal center B cells, centrocytes, centroblasts, memory B cells, and plasma cells) were determined by deep sequencing. These samples were compared to mouse developing lymphocytes, various hematopoietic cell lineages, and tissues. small RNA expression profiles of 6 well defined B cell populations isolated from human tonsils.

ORGANISM(S): Homo sapiens

SUBMITTER: Wolfgang Resch

PROVIDER: E-GEOD-23090 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Regulation of microRNA expression and abundance during lymphopoiesis.

Kuchen Stefan S Resch Wolfgang W Yamane Arito A Kuo Nan N Li Zhiyu Z Chakraborty Tirtha T Wei Lai L Laurence Arian A Yasuda Tomoharu T Peng Siying S Hu-Li Jane J Lu Kristina K Dubois Wendy W Kitamura Yoshiaki Y Charles Nicolas N Sun Hong-wei HW Muljo Stefan S Schwartzberg Pamela L PL Paul William E WE O'Shea John J Rajewsky Klaus K Casellas Rafael R

Immunity 20100603 6

Although the cellular concentration of miRNAs is critical to their function, how miRNA expression and abundance are regulated during ontogeny is unclear. We applied miRNA-, mRNA-, and ChIP-Seq to characterize the microRNome during lymphopoiesis within the context of the transcriptome and epigenome. We show that lymphocyte-specific miRNAs are either tightly controlled by polycomb group-mediated H3K27me3 or maintained in a semi-activated epigenetic state prior to full expression. Because of miRNA ...[more]

PMID: 20605486

Similar Datasets

Regulation of microRNA Expression and Abundance during Lymphopoiesis

Project description:Although the cellular concentration of miRNAs is critical to their function, how miRNA expression and abundance are regulated during ontogeny is unclear. We used deep-sequencing to characterize the microRNome from most developing lymphocytes, various hematopoietic cell lineages, and representative mouse tissues. Epigenetic and transcriptome profiles were also compiled from selected T and B cell stages by ChIP-Seq and mRNA-Seq respectively. We show that lymphocyte-specific miRNAs are either tightly regulated during development by polycomb group-mediated H3K27me3, or maintained in a semi-activated state prior to full expression. Because of extensive miRNA biogenesis, the cellular concentration of mature miRNAs does not typically reflect transcriptional changes. However, we here uncovered a subset of miRNAs for which abundance is directly regulated by miRNA gene expression. Our data provides the most comprehensive view of the microRNome in the immune system and reveal underlying epigenetic and transcriptional forces that shape miRNA homeostasis. small RNA expression profiles of 27 well defined cell types from the mouse immune system, hematopoietic progenitor cells, embryonic stem cells, as well as 12 tissues. Biological and technical replicates for 3 of the cell types were included. Regulation of MicroRNA Expression and Abundance during Lymphopoiesis Immunity, Volume 32, Issue 6, 25 June 2010, Pages 828-839 doi:10.1016/j.immuni.2010.05.009

2010-06-07 | E-GEOD-21630 | biostudies-arrayexpress

Small RNA expression in swi6 mutants or dcr1 delta fission yeast Schizosaccharomyces pombe

Project description:Small RNA expression in swi6 mutants, dcr1 delta, and wild type fission yeast Schizosaccharomcyces pombe wild type, swi6 mutant, and dcr1 delta mutant

2013-07-20 | E-GEOD-42849 | biostudies-arrayexpress

Wide-spread disruption of transcription termination in HSV-1 infection: Next-generation sequencing of translational activityd by ribosome profiling

Project description:Primary human foreskin fibroblasts (HFF) were infected with wild-type simplex virus 1 (HSV-1) strain 17 at a multiplicity of infection (MOI) of 10. Ribosome profiling was performed at various times during infection with minor modification to the protocol described in Stern-Ginossar N et al., Science 2012 Ribosome profiling was performed a 0, 1, 2, 4, 6 and 8 h post infection. Two biological replicates were analysed.

2015-05-26 | E-GEOD-60040 | biostudies-arrayexpress

Expression data of centroblasts (CB) and centrocytes (CC) purified from human tonsils

Project description:GEP on Affymetrix U133+2.0 microarrays was performed on 6 centroblasts and 6 paired centrocytes from human tonsils in order to explore CB/CC transition and GC-B cell specific signatures

2019-08-23 | GSE136249 | GEO

ATAC-seq of human tonsillar B-cell populations

Project description:ATAC-seq in sorted GC centroblasts (GCB: CD20+CD44-CD10+CXCR4+), GC centrocytes (CC: CD20+CD44-CD10+CXCR4-), naïve B cells (NB: CD20+CD44+CD10-IgD+), memory B cells (MB: CD20+CD44+CD10-CD38-CD27+), and plasma cells (PC: CD20+CD44+CD10-CD38+CD27+)

2021-08-03 | GSE159314 | GEO

microRNA expression in human tonsillar B cell populations

Project description:small RNA profiles of 6 human tonsillar B cell populatios (naive B cells, pre-germinal center B cells, centrocytes, centroblasts, memory B cells, and plasma cells) were determined by deep sequencing. These samples were compared to mouse developing lymphocytes, various hematopoietic cell lineages, and tissues.

2010-07-24 | GSE23090 | GEO

Gene expression profiling of naive B cells

Project description:Whole genome gene expression microarrays made it possible to pick up genes, whose products could be involved in a biological pathway. The aim of this study is to provide easy tools to interrogate whole genome transcriptome changes in the process of plasma cell generation, starting from naive B cells and comprising centroblasts, centrocytes, memory B cells, preplasmablasts, plasmablasts, early plasma cells, and mature bone marrow plasma cells.

2013-07-10 | E-MTAB-1771 | biostudies-arrayexpress

Dicer and Hsp104 function in a negative feedback loop to confer epigenetic robustness [RNA_correlations]

Project description:Epigenetic mechanisms can be influenced by environmental cues and thus evoke phenotypic variation. This plasticity can be advantageous for adaption, but also detrimental if not under tight control. Although having attracted considerable interest, it remains largely unknown if and how environmental cues such as temperature trigger epigenetic alterations. Using fission yeast, we demonstrate that environmentally induced discontinuous phenotypic variation is buffered by a negative feedback loop that involves the RNase Dicer and the protein disaggregase Hsp104. In the absence of Hsp104, Dicer accumulates in cytoplasmic inclusions and heterochromatin becomes unstable at elevated temperatures, an epigenetic state that is inherited for many generations after the heat stress. Dicer instead averts the toxic aggregation of a prionogenic protein. Our results highlight the importance of feedback regulation in building epigenetic memory and uncover Hsp104 and Dicer as homeostatic controllers that buffer environmentally induced stochastic epigenetic variation and toxic aggregation of prionogenic proteins. Various strains grown at 30°C or 37°C

2015-04-23 | E-GEOD-60638 | biostudies-arrayexpress