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TranscriptomicsmiR-221 is required for endothelial tip cell behaviors during vascular development
Through deep sequencing and functional screening in zebrafish, we find that miR-221 is essential for angiogenesis. miR-221 knockdown phenocopied defects associated with loss of the tip cell-expressed Flt4 receptor. Furthermore, miR-221 was required for tip cell proliferation and migration, as well ...
ORGANISM(S): Danio rerio 
2012-02-28 | E-GEOD-35078 | biostudies-arrayexpress
GenomicsGenome-wide identification of putative cis-regulatory elements through epigenetic profiling in zebrafish
In this study, we have applied ChIP-Seq to identify putative regulatory elements throughout the zebrafish genome. For this purpose we identified sequences within the zebrafish genome that associate with H3K4me1 and H3K4me3, which are epigenetic modifications known to be associated with active cis-r...
ORGANISM(S): Danio rerio 
2011-02-25 | E-GEOD-20600 | biostudies-arrayexpress
GenomicsOff-Target Analysis of Zinc Finger Nucleases
Zinc Finger Nucleases (ZFNs) facilitate precise editing of DNA enabling targeted genomic modifications in vivo. ZFNs have been employed to obtain genetically modified plants and animals, and cell-based therapies utilizing ZFNs are undergoing clinical trials. However, many ZFNs display dose-dependent...
ORGANISM(S): Danio rerio 
2010-08-25 | E-GEOD-23762 | biostudies-arrayexpress
TranscriptomicsAffymetrix SNP array data for low-grade astrocytoma samples
Copy number analysis of 21 paediatric low-grade astrocytomas identified a discrete copy number gain of 1.9Mb in chromosome band 7q34. The gain was present in 12/14 cerebellar pilocytic astrocytomas. Subsequent analysis of tumour cDNA indentified a novel gene fusion between KIAA1549 and BRAF in these...
ORGANISM(S): Homo sapiens 
2010-04-09 | E-GEOD-14960 | biostudies-arrayexpress
TranscriptomicsSelective Functions of Individual Zinc Fingers Within the DNA-Binding Domain of Ikaros (RNA-seq: sorted DP thymocytes)
The C2H2 zinc finger is the most prevalent DNA-binding motif in the mammalian proteome, with DNA-binding domains usually containing more tandem fingers than are needed for stable sequence-specific DNA recognition. To examine the reason for the frequent presence of multiple zinc fingers, we generated...
ORGANISM(S): Mus musculus 
2013-09-08 | E-GEOD-47496 | biostudies-arrayexpress
TranscriptomicsA novel miRNA processing pathway independent of Dicer requires Argonaute2 catalytic activity
Here we identify a Dicer-independent miRNA biogenesis pathway that employs the slicer catalytic activity of Argonaute2 (Ago2). To uncover Dicer-independent miRNAs, we sequenced small RNAs in wild type, maternal-zygotic dicer (MZdicer) and MZago2 mutants, using zebrafish as a model system. We find t...
ORGANISM(S): Danio rerio 
2010-07-01 | E-GEOD-21503 | biostudies-arrayexpress
UnknownVEGFC/FLT4-induced cell-cycle arrest mediates sprouting and differentiation of venous and lymphatic endothelial cells.
Not available
S-EPMC8220256 | biostudies-literature
UnknownProper migration of lymphatic endothelial cells requires survival and guidance cues from arterial mural cells.
Not available
S-EPMC9042226 | biostudies-literature
UnknownConserved and context-dependent roles for pdgfrb signaling during zebrafish vascular mural cell development.
Not available
S-EPMC8410673 | biostudies-literature
UnknownGata2b is a restricted early regulator of hemogenic endothelium in the zebrafish embryo.
Not available
S-EPMC4360177 | biostudies-literature
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