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TranscriptomicsMARS-seq Version 2
scRNA-seq procedure and analysis. ScRNA-seq was performed using the Massively Parallel Single-Cell RNA-sequencing technology (MARS-seq) as described by Jaitin et al., 2014 (PMID: 24531970) EpiSCs were seeded at ~6 x 103 cells/cm2 in 6-well cell-culture plates pre-coated with 15 µg/ml human Fibronec...
ORGANISM(S): Mus musculus 
2025-04-28 | E-MTAB-13660 | biostudies-arrayexpress
TranscriptomicsSingle-cell RNA-seq of tailbuds from control, Pbx1/Pbx2 compound and Pbx1/Pbx2 double-knockout E8.5/E9.0 embryos.
In vertebrates, body axis elongation is fuelled by bipotent neuromesodermal progenitors (NMPs), which support the development of both spinal cord and paraxial mesoderm (PM). NMPs reside in the caudal lateral epiblast and tailbud, from where they sustain axial elongation. HOX transcription factors ha...
ORGANISM(S): Mus musculus 
2021-07-21 | E-MTAB-9785 | biostudies-arrayexpress
TranscriptomicsSingle-cell RNA-seq of wild-type and Pbx1/Pbx2 double-knockout EpiSCs differentiated in vitro to pre-somitic mesoderm in the first 48 hours of differentiation.
In vertebrates, body axis elongation is fuelled by bipotent neuromesodermal progenitors (NMPs), which support the development of both spinal cord and paraxial mesoderm (PM). HOX transcription factors have been historically implicated in axial elongation, with their sequential activation playing a fu...
ORGANISM(S): Mus musculus 
2021-07-21 | E-MTAB-9774 | biostudies-arrayexpress
TranscriptomicsGenomic Fingerprints of DC Subsets in the Human Vaginal Mucosa, Skin, and Blood
Dendritic cells (DC) localize throughout the body, where they sense and capture invading pathogens to induce protective immune responses. Hence, harnessing the biology of tissue-resident DC is crucial for the rational design of vaccines against pathogens. Herein, we characterized the transcriptomes ...
ORGANISM(S): Homo sapiens 
2014-12-17 | E-GEOD-54480 | biostudies-arrayexpress
GenomicsDirect Recruitment of Polycomb Repressive Complex 1 (PRC1) to Chromatin by Core Binding Transcription Factors (ChIP-Seq)
Polycomb repressive complexes (PRCs) play key roles in developmental epigenetic regulation. Yet the mechanisms that target PRCs to specific loci in mammalian cells remain incompletely understood. In this study, we show that Bmi1, a core component of Polycomb Repressive Complex 1 (PRC1), binds direct...
ORGANISM(S): Mus musculus 
2012-02-10 | E-GEOD-33653 | biostudies-arrayexpress
TranscriptomicsDirect Recruitment of Polycomb Repressive Complex 1 (PRC1) to Chromatin by Core Binding Transcription Factors
This SuperSeries is composed of the following subset Series: GSE33653: Direct Recruitment of Polycomb Repressive Complex 1 (PRC1) to Chromatin by Core Binding Transcription Factors (ChIP-Seq) GSE33659: Direct Recruitment of Polycomb Repressive Complex 1 (PRC1) to Chromatin by Core Binding Transcript...
ORGANISM(S): Mus musculus 
2012-02-10 | E-GEOD-33660 | biostudies-arrayexpress
TranscriptomicsMalaria Cell Atlas: Single cell transcriptomics of malaria parasites
Single-cell RNA-sequencing is revolutionising our understanding of seemingly homogeneous cell populations but has not yet been widely applied to single-celled organisms. Transcriptional variation in unicellular malaria parasites from the Plasmodium genus is associated with critical phenotypes includ...
ORGANISM(S): Plasmodium falciparum 3D7 
2017-02-08 | E-ERAD-611 | biostudies-arrayexpress
TranscriptomicsGenome-wide Analysis of Enterococcus faecalis OG1RF Gene Expression During Infection
Changes in Enterococcus faecalis OG1RF gene expression during infection in a rabbit model of subdermal abscess formation were studied using microarray analysis. Samples assayed in arrays consisted of the input inoculum and total RNA collected from the subdermal chambers at 2 and 8 hours post-inocu...
ORGANISM(S): Enterococcus faecalis OG1RF 
2013-12-15 | E-GEOD-22391 | biostudies-arrayexpress
TranscriptomicsPromoter H3K4 methylation reveals the dynamic reinforcement of activation-induced pathways in human CD4 T cells with differential kinetics in naïve and memory cells (RNA-Seq)
The epigenetic determinants driving the rapid responses of memory CD4 T cells to antigen are currently an area of active research. While much has been done to characterize various Th subsets and their associated genome-wide epigenetic patterns, the dynamics of histone modifications during CD4 T cel...
ORGANISM(S): Homo sapiens 
2016-06-01 | E-GEOD-73213 | biostudies-arrayexpress
GenomicsMolecular role of the PAX5-ETV6 oncoprotein in promoting B cell acute lymphoblastic leukemia
PAX5 is a tumor suppressor in B-ALL, while the role of PAX5 fusion proteins in B-ALL development is largely unknown. Here we studied the function of PAX5-ETV6 and PAX5- FOXP1 in mice expressing these proteins from the Pax5 locus. Both proteins arrested Blymphopoiesis at the pro-B-to-pre-B cell trans...
ORGANISM(S): Mus musculus 
2016-07-30 | E-GEOD-84987 | biostudies-arrayexpress
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