Sort   by:  
 Page size 
TranscriptomicsChimeraScan: A tool for identifying chimeric transcription in sequencing data
Next Generation Sequencing technologies have enabled de novo gene fusion discovery that could reveal candidates with therapeutic significance in cancer. Here we present an open-source software package, ChimeraScan, for the discovery of chimeric transcription between two independent transcripts. Thre...
ORGANISM(S): Homo sapiens 
2011-09-01 | E-GEOD-29098 | biostudies-arrayexpress
ProteomicsThe chimeric GaaR::XlnR transcription factor induces pectinolytic activities in the presence of D-xylose in Aspergillus niger
Aspergillus niger is a filamentous fungus well known for its ability to produce a wide variety of pectinolytic enzymes, which have many applications in the industry. The transcriptional activator GaaR is induced by 2-keto-3-deoxy-L-galactonate, a compound derived from D-galacturonic acid, and plays ...
ORGANISM(S): Aspergillus niger NRRL3 
2021-11-18 | PXD025383 | Pride
Aspergillus niger Chimeric transcription factor D-xylose Crispr/cas9 Pectinases 
GenomicsTumor-specific retargeting of an oncogenic transcription factor chimera results in dysregulation of chromatin and transcription
Using EWS-FLI and its parental transcription factor, FLI1, we created a unique experimental system to address questions regarding the genomic mechanisms by which chimeric transcription factors cause cancer. We found that in tumor cells, EWS-FLI targets regions of the genome distinct from FLI1, despi...
ORGANISM(S): Homo sapiens 
2011-11-09 | E-GEOD-31838 | biostudies-arrayexpress
TranscriptomicsFinding new Chimeric RNAs in RNA-seq data, a test study in Acute Myeloid Leukemia patient cells
In this strudy, we seek out new chimeric RNA in RNA-seq data from acute myeloid leukemia (AML) patient cells as new biomarkers to improve diagnosis and prognosis in cancer. Total RNA were extracted from bone marrow or peripheral blood mononuclear cells in three AML patients. polyA+ cDNAs were sequen...
ORGANISM(S): Homo sapiens 
2017-06-28 | E-MTAB-5767 | biostudies-arrayexpress
TranscriptomicsGenome-wide expression analysis upon constitutive activation of the HacA bZIP transcription factor in Aspergillus niger
Background: HacA/Xbp1 is a conserved bZIP transcription factor in eukaryotic cells which regulates gene expression in response to various forms of secretion stress and as part of secretory cell differentiation. In the present study, we replaced the endogenous hacA gene of an Aspergillus niger strain...
ORGANISM(S): Aspergillus niger 
2012-08-06 | E-GEOD-39070 | biostudies-arrayexpress
TranscriptomicsExpression data from human (h-) growth hormone-treated and untreated chimeric mouse liver repopulated with human hepatocytes
We generated h-hepatocyte chimeric mice with livers that were predominantly repopulated with h-hepatocytes in a h-growth hormone (GH)-deficient state. Using microarray profiles, comparison between h-hepatocytes from h-GH-treated and untreated mice identified 14 GH-up-regulated and four GH-down-regul...
ORGANISM(S): Mus musculus 
2011-01-25 | E-GEOD-26224 | biostudies-arrayexpress
TranscriptomicsSingle-cell RNAseq of Tal1 knockout chimeric mouse embryos at embryonic day 8.5 of mouse development
Chimeric embryos were generated to investigate the effect of Tal1 knockout in mouse embryos by single-cell RNA-sequencing. Tal1 is an essential transcription factor for the formation of the embryonic blood. Embryo chimerism permits the analysis of the effects of Tal1 knockout without the confounding...
ORGANISM(S): Mus musculus 
2018-12-05 | E-MTAB-7325 | biostudies-arrayexpress
GenomicsOncogenic chimeric transcription factors drive tumor-specific transcription, processing, and translation of silent genomic regions
Many cancers are characterized by gene fusions encoding oncogenic chimeric transcription factors (TFs) such as EWS::FLI1 in Ewing sarcoma (EwS). Here, we find that EWS::FLI1 induces the robust expression of a specific set of novel spliced and polyadenylated transcripts within otherwise transcription...
EGAS00001006293 | EGA
UnknownThe chimeric GaaR-XlnR transcription factor induces pectinolytic activities in the presence of D-xylose in Aspergillus niger.
Not available
S-EPMC8285313 | biostudies-literature
TranscriptomicsRNA-Seq analysis of KLF3 knockout E14.5 TER119+ (erythroid) murine fetal liver cells
The aim of this study was to analyze the transcriptome of TER119+ fetal liver cells in the absence of the transcription factor KLF3 at murine embryonic day E14.5 Three wildtype (WT; Klf3+/+) and three knockout (KO; Klf3-/-) samples
ORGANISM(S): Mus musculus 
2014-02-23 | E-GEOD-50554 | biostudies-arrayexpress
Sort   by:  
 Page size