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TranscriptomicsDnmt3a haploinsufficiency transforms Flt3-ITD myeloproliferative disease into a rapid, spontaneous, and fully-penetrant acute myeloid leukemia (Bulk RNA-Seq)
Cytogenetically normal acute myeloid leukemia (CN-AML) represents nearly 50% of human acute myeloid leukemia (AML) cases with a 5-year overall survival of approximately 30%. In CN-AML with poorer prognosis, mutations in the de novo DNA methyltransferase (DNMT3A) and the FMS-like tyrosine kinase 3 (F...
ORGANISM(S): Mus musculus 
2016-03-27 | E-GEOD-77846 | biostudies-arrayexpress
TranscriptomicsTranscriptomic response of Dickeya dadantii ihfA mutant to DNA relaxation by novobiocin
We analyze the transcriptomic response of the phytopathogenic enterobacterium Dickeya dadantii ihfA mutant to a DNA supercoiling relaxation shock using the gyrase inhibitor novobiocin. The shock was applied to Dickeya cells grown in minimal medium supplemented with sucrose, in exponential or transit...
ORGANISM(S): Dickeya dadantii 
2021-02-10 | E-MTAB-9025 | biostudies-arrayexpress
TranscriptomicsComparison of the effects of early pregnancy with human interferon, alpha 2 (IFNA2) on gene expression in bovine endometrium
Interferon tau (IFNT), a Type I IFN similar to alpha IFNs (IFNA), is the pregnancy recognition signal, produced by the ruminant conceptus. To elucidate specific effects of bovine IFNT and of other conceptus-derived factors, endometrial gene expression changes during early pregnancy were compared to ...
ORGANISM(S): Bos taurus 
2011-10-31 | E-GEOD-30694 | biostudies-arrayexpress
TranscriptomicsHost cell tropism of Propionibacterium acnes: infection scenarios differ on skin and prostate epithelia
Proprionibacterium acnes is a Gram positive bacterium found ubiquitously on human skin, where it is typically considered to assume a commensal relationship with its host. However, it is also closely associated with the skin condition acne vulgaris. More controversially, it has a postulated involveme...
ORGANISM(S): Homo sapiens 
2012-11-21 | E-GEOD-33731 | biostudies-arrayexpress
TranscriptomicsRNA-seq of isolated human foetal and hiPSC L/M-opsin cone photoreceptor populations labelled using the AAV2/9.pR2.1.GFP reporter
The loss of cone photoreceptor cells, which are critical for optimal daylight vision, have the great impact on vision during retinal degenerations. Retinal differentiation of human induced pluripotent stem cell (hiPSC) sources could provide a renewable source of cone photoreceptors towards developin...
ORGANISM(S): Homo sapiens 
2018-04-20 | E-MTAB-6057 | biostudies-arrayexpress
TranscriptomicsDnmt3a haploinsufficiency transforms Flt3-ITD myeloproliferative disease into a rapid, spontaneous, and fully-penetrant acute myeloid leukemia (Single Cell RNA-Seq)
Cytogenetically normal acute myeloid leukemia (CN-AML) represents nearly 50% of human acute myeloid leukemia (AML) cases with a 5-year overall survival of approximately 30%. In CN-AML with poorer prognosis, mutations in the de novo DNA methyltransferase (DNMT3A) and the FMS-like tyrosine kinase 3 (F...
ORGANISM(S): Mus musculus 
2016-03-27 | E-GEOD-77847 | biostudies-arrayexpress
ProteomicsHHIP-AS1 lncRNA promotes tumorigenicity in human SHH-driven brain tumors
Long non-coding RNAs (lncRNAs) comprise a diverse class of gene expression regulators with emerging roles in many biological processes including cancer. Here we show that the expression of the lncRNA Hedgehog Interacting Protein Antisense 1 (HHIP-AS1) is a hallmark feature of human SHH-driven tumors...
ORGANISM(S): Homo sapiens (Human) 
2022-06-01 | PXD016550 | Pride
Pediatric brain tumors Lncrna Epigenetic regulation Shh Proteogenomic 
TranscriptomicsComparative genomics and transcriptomics of Propionibacterium acnes
The anaerobic Gram-positive bacterium Propionibacterium acnes is a human skin commensal, but is occasionally associated with inflammatory diseases. Recent work has indicated that evolutionary distinct lineages of P. acnes play etiologic roles in disease while others are associated with health. To sh...
ORGANISM(S): Propionibacterium acnes 
2011-07-01 | E-GEOD-26738 | biostudies-arrayexpress
TranscriptomicsInstruction of haematopoietic lineage choices, evolution of transcriptional landscapes and cancer stem cell hierarchies derived from an AML1-ETO mouse model
The t(8;21) chromosomal translocation activates aberrant expression of the AML1-ETO (AE) fusion protein and is commonly associated with core binding factor acute myeloid leukaemia (CBF AML). Combining a conditional mouse model that closely resembles the slow evolution and the mosaic AE expression pa...
ORGANISM(S): Mus musculus 
2013-10-15 | E-MTAB-1820 | biostudies-arrayexpress
GenomicsA genome-wide search for epigenetically regulated genes in zebra finch using MethylCap-seq and RNA-seq
DNA methylation is tightly linked with gene expression regulation and has long been regarded a stable epigenetic mark in postmitotic cells. However, it recently became clear that postnatal brains appear to show stimulus-induced de novo CpG methylation or active demethylation related to neuronal plas...
ORGANISM(S): Taeniopygia guttata 
2015-12-10 | E-GEOD-61060 | biostudies-arrayexpress
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