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TranscriptomicsSequence specificity incompletely defines the genome-wide occupancy of Myc
The Myc-Max heterodimer is a DNA binding protein that regulates expression of a large number of genes. Genome occupancy of Myc-Max is thought to be driven by E-boxes (CACGTG or variants) to which the heterodimer binds in vitro. By analyzing ChIP-Seq datasets, we demonstrated that the positions occup...
ORGANISM(S): Homo sapiens 
2014-09-22 | E-GEOD-58570 | biostudies-arrayexpress
UnknownSlide electrification of drops at low velocities.
Not available
S-EPMC11022544 | biostudies-literature
TranscriptomicsmiRNAs target conserved motifs of diverse genes encoding NB-LRRs to trigger trans-acting siRNAs in legumes.
Trans-acting siRNAs (tasiRNAs) negatively regulate target transcripts and are characterized by siRNAs spaced in 21-nucleotide 'phased' intervals. TasiRNAs have not been extensively described in many plant species. We identified dozens of new miRNAs in Medicago and soybean and confirmed 119 Medicago ...
ORGANISM(S): Arachis hypogaea 
2011-10-24 | E-GEOD-31061 | biostudies-arrayexpress
TranscriptomicsQuantitative modeling of transcription factor binding specificities using DNA shape
Accurate predictions of the DNA binding specificities of transcription factors (TFs) are necessary for understanding gene regulatory mechanisms. Traditionally, predictive models are built based on nucleotide sequence features. Here, we employed three- dimensional DNA shape information obtained on a ...
ORGANISM(S): Homo sapiens 
2014-11-04 | E-GEOD-59845 | biostudies-arrayexpress
UnknownLipid Configurations from Molecular Dynamics Simulations.
Not available
S-EPMC5937052 | biostudies-literature
TranscriptomicsDynamic Deposition of the Histone H3.3 Variant Accompanies Developmental Remodeling of Arabidopsis Transcriptome (mRNA-Seq)
In animals, replication coupled histone H3.1 can be distinguished from replication independent histone H3.3. H3.3 variants are enriched at active genes and their promoters. Furthermore, H3.3 is specifically incorporated upon gene activation. Histone H3 variants evolved independently in plants and an...
ORGANISM(S): Arabidopsis thaliana 
2012-05-15 | E-GEOD-36626 | biostudies-arrayexpress
UnknownBlue Light Emitting Polyphenylene Dendrimers with Bipolar Charge Transport Moieties.
Not available
S-EPMC6273451 | biostudies-literature
UnknownA selenoxide for single-atom protein modification of tyrosine residues enabled by water-resistant chalcogen and hydrogen bonding.
Not available
S-EPMC12411275 | biostudies-literature
TranscriptomicsProteinM-bM-^HM-^RDNA binding in the absence of specific base-pair recognition
Until now, it has been reasonably assumed that specific base-pair recognition is the only mechanism controlling the specificity of transcription factor (TF)M-bM-^HM-^RDNA binding. Contrary to this assumption, here we show that nonspecific DNA sequences possessing certain repeat symmetries, when pres...
ORGANISM(S): Homo sapiens 
2014-10-01 | E-GEOD-61920 | biostudies-arrayexpress
TranscriptomicsStability selection for regression-based models of transcription factor-DNA binding specificity
Motivation: The DNA binding specificity of a transcription factor (TF) is typically represented using a position weight matrix (PWM) model, which implicitly assumes that individual bases in a TF binding site contribute independently to the binding affinity, an assumption that does not always hold. F...
ORGANISM(S): Homo sapiens 
2013-05-17 | E-GEOD-47026 | biostudies-arrayexpress
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