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TranscriptomicsGene expression data from human iPSC differentiated to macrophages and microglia, compared to human blood-derived monocytes and human primary fetal microglia
A human Pluripotent Stem Cell microglia model displays a neuronal-co-culture-specific expression profile and inflammatory response Walther Haenseler, Stephen N. Sansom, Julian Buchrieser, Sarah E. Newey, Craig S. Moore, Francesca J. Nicholls, Satyan Chintawar, Christian Schnell, Jack P. Antel, Nicho...
ORGANISM(S): Homo sapiens 
2016-11-14 | GSE89795 | GEO
TranscriptomicsSingle-cell RNA-sequencing data from developing embryonic human finger joints
A single cell atlas of developing human embryonic proximal and distal interphalangeal finger joints. This deposition holds the raw 10x single-cell sequencing data in FASTQ format and processed data in anndata format. All of the anndata objects contain normalised counts in the .X slot and gene names ...
ORGANISM(S): Homo sapiens 
2026-04-24 | E-MTAB-14722 | biostudies-arrayexpress
TranscriptomicsThe DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation [4]
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent rol...
ORGANISM(S): Mus musculus 
2014-12-03 | E-GEOD-62034 | biostudies-arrayexpress
TranscriptomicsThe long non-coding RNA Paupar regulates the expression of both local and distal genes [CHART-seq]
Although some long noncoding RNAs (lncRNAs) have been shown to regulate gene expression in cis, it remains unclear whether lncRNAs can directly regulate transcription in trans by interacting with chromatin genome-wide independently of their sites of synthesis. Here, we describe the genomically local...
ORGANISM(S): Mus musculus 
2013-11-21 | E-GEOD-52570 | biostudies-arrayexpress
TranscriptomicsThe DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation [1]
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent rol...
ORGANISM(S): Mus musculus 
2014-12-03 | E-GEOD-62031 | biostudies-arrayexpress
TranscriptomicsThe DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation [3]
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent rol...
ORGANISM(S): Mus musculus 
2014-12-03 | E-GEOD-62033 | biostudies-arrayexpress
TranscriptomicsThe DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation [2]
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent rol...
ORGANISM(S): Mus musculus 
2014-12-03 | E-GEOD-62032 | biostudies-arrayexpress
GenomicsHomo sapiens
Gene expression data from human iPSC differentiated to macrophages and microglia, compared to human blood-derived monocytes and human primary fetal microglia
PRJNA353314 | ENA
TranscriptomicsWhole transcriptome profiling of the steady state and Hh-treated (8 hrs) Alpk1+/- (heterozygous) and Alpk1-/- (knockout) BMDMs using RNA-Sequencing approach
Alpk1-deficient mice demonstrate exacerbated colitis and increased IL-12/Th1 response upon challenge with an intestinal pathobiont, Helicobacter hepaticus (Hh). Hematopoietic compartment is driving the pathogenic phenotype in this animal model, and Alpk1 is highly expressed in myeloid cells (macrop...
ORGANISM(S): Mus musculus 
2018-07-30 | E-MTAB-7076 | biostudies-arrayexpress
TranscriptomicsMYC is a major determinant of mitotic cell fate
Purpose: To determine global gene expression changes following siRNA knockdown of Myc, Kcnk1, and Snta1 compared to non-targeting siRNAs or mock-transfected cells Methods: Total RNA was processed using the Illumina TruSeq Stranded mRNA Sample Preparation Kit according to manufacturer’s protocol. Gen...
ORGANISM(S): Homo sapiens 
2015-07-13 | E-GEOD-68219 | biostudies-arrayexpress
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