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TranscriptomicsPhylogenetic & expression analysis of the bHLH transcription factor family: genomic approach to cellular differentiation
A phylogenetic analysis of seven different species (human, mouse, rat, worm, fly, yeast, and plant) utilizing all (541) basic helix-loop-helix (bHLH) genes identified, including expressed sequence tags (EST), was performed. A super-tree involving six clades and a structural categorization involving ...
ORGANISM(S): Rattus norvegicus 
2010-02-21 | E-GEOD-20259 | biostudies-arrayexpress
GenomicsDNA binding specificity for the bHLH-PAS transcription factor family
DNA binding specificity for the bHLH-PAS transcription factor family
PRJNA671496 | ENA
GenomicsA basic helix-loop-helix transcription factors network mediates the brassinosteroid signal [ChIP-seq]
To investigate the genome-wide occupancies of INCREASED LEAF INCLINATION1 (ILI1)-BINDING bHLH-1 (IBH1) (At2g43060), IBH1 ChIP analysis followed by direct sequencing (ChIP-Seq) on the p35S::IBH1-GFP (IBH1OE) line and a control line p35S::GFP (GFP OE) were conducted. Antibodies against GFP in the GFP...
ORGANISM(S): Arabidopsis thaliana 
2014-03-05 | E-GEOD-51120 | biostudies-arrayexpress
TranscriptomicsThe novel transcription factor, POPEYE, regulates response to iron deficiency in Arabidopsis roots
ChIP-chip analysis was used to identify direct targets of the transcription factor POPEYE (PYE) ChIP was performed on ProPYE:PYE:GFP plants and on wt plants as a control. The two samples were amplified and hybridized on Agilent arrays. Dye swap was performed for two biological replicates.
ORGANISM(S): Arabidopsis thaliana 
2010-11-22 | E-GEOD-21625 | biostudies-arrayexpress
GenomicsFOXO3 shares common targets with ASCL1 genome-wide and inhibits ASCL1-dependent neurogenesis
FOXO transcription factors are central regulators of longevity from worms to humans. FOXO3 – the FOXO isoform associated with exceptional human longevity – preserves adult neural stem cell pools. Here we identify FOXO3 direct targets genome-wide in primary cultures of adult neural progenitor cells (...
ORGANISM(S): Mus musculus 
2013-08-13 | E-GEOD-48336 | biostudies-arrayexpress
TranscriptomicsA basic helix-loop-helix transcription factors network mediates the brassinosteroid signal [RNA-seq]
To understand how atypical bHLH, INCREASED LEAF INCLINATION1 (ILI1)-BINDING bHLH-1 (IBH1) (At2g43060), and close homologue, IBH1-like1 (IBL1) (At4g30410), interact to regulate cell elongation, genome-wide RNA-Seq expression analyses of IBH1 and IBL1 gain-(IBH1OE, IBL1OE) and loss-of-function (ibh1 (...
ORGANISM(S): Arabidopsis thaliana 
2014-03-05 | E-GEOD-51119 | biostudies-arrayexpress
TranscriptomicsTargets of the bHLH transcription factor, Sage
FoxA transcription factors play major roles in organ-specific gene expression. How FoxA proteins achieve specificity is unclear, given their broad expression patterns and requirements in multiple cell types. Here, we characterize Sage, a basic helix-loop-helix (bHLH) transcription factor expressed e...
ORGANISM(S): Drosophila melanogaster 
2013-12-31 | E-GEOD-40963 | biostudies-arrayexpress
GenomicsTfe3-bound regions in naive pluripotent mouse embryonic stem (ES) cells
The bHLH transcription factor Tfe3 is a powerful regulator of pluripotency and we report a genome-wide analysis of Tfe3 occupancy in mouse ES cells. Nuclear localization of Tfe3 is inhibited by a protein complex containing the tumor-suppressor Folliculin (Flcn) and we also determine Tfe3 binding sit...
ORGANISM(S): Mus musculus 
2013-04-10 | E-GEOD-39815 | biostudies-arrayexpress
OtherDNA binding specificity for the bHLH-PAS transcription factor family
Transcription factor-DNA interactions and their specificities have been described for many different classes of transcription factor families. However, heterodimeric transcription factor complexes still remain poorly characterised. The basic-Helix-Loop-Helix (bHLH) transcription factor family is one...
ORGANISM(S): synthetic construct 
2022-07-02 | GSE159989 | GEO
GenomicsTranscription factor Achaete-Scute homologue 2 initiates T follicular helper cell development [ChIP-Seq]
In immune responses, activated T cells migrate to B cell follicles and develop to T follicular helper (Tfh) cells, a new subset of CD4+ T cells specialized in providing help to B lymphocytes in the induction of germinal centers 1-3. Although Bcl6 has been shown to be essential in Tfh cell function, ...
ORGANISM(S): Mus musculus 
2014-01-01 | E-GEOD-52839 | biostudies-arrayexpress
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