A transcription factor for making plasmacytoid dendritic cells

jerry submitted, created time 2 months 3 weeks (www.cell.com)

Plasmacytoid dendritic cells (PDCs) represent a unique immune cell type specialized in type I interferon (IFN) secretion in response to viral nucleic acids. The molecular control of PDC lineage specification has been poorly understood. We report that basic helix-loop-helix transcription factor (E protein) E2-2/Tcf4 is preferentially expressed in murine and human PDCs. Constitutive or inducible deletion of murine E2-2 blocked the development of PDCs but not of other lineages and abolished IFN response to unmethylated DNA

Submit comment | Blog It | Email It | Keywords: pitt-hopkins syndrome interferon transcription factors E protein PDCs Plasmacytoid dendritic cells

Genome-wide analysis of ABA-responsive elements ABRE and CE3 reveals divergent patterns in Arabidopsis and rice

annatto submitted, created time 1 year 5 months (www.biomedcentral.com)

"This computational analyses revealed distinct recruitment patterns of ABA-responsive CREs in upstream sequences of Arabidopsis and rice. The apparent absence of CE3s in Arabidopsis suggests that another CE pairs with ABRE to establish a functional ABRC capable of interacting with transcription factors. "

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Inference of transcription modification in long-lived yeast strains from their expression profiles

annatto submitted, created time 1 year 5 months (www.biomedcentral.com)

"Combining microarray expression data with other data sources such as motif and ChIP-chip data provides biological insights into the transcription modification that leads to life span extension. In the chronologically long-lived mutant: sch9delta, ras2delta, and tor1delta, several common stress response transcription factors are activated compared with the wild type according to this systematic transcription inference."

Submit comment | Blog It | Email It | Keywords: microarray expression transcription factors R2R3-MYB transcription factor

Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions

captainclaw submitted, created time 1 year 6 months (www.genome.org)

"Researchers demonstrate, in fact, that regulatory elements are associated with the location of known genes. Further examination on a local, single-gene scale shows an enrichment of regulatory elements near both transcription start and end sites. This results indicate that overall these elements are clustered into regulatory rich "islands" and poor "deserts." Next, they examine how consistent the nonuniform distribution is between different transcription factors

Submit comment | Blog It | Email It | Keywords: transcription factors sequence-specific helix-loop-helix transcription factors

Pluripotency governed by Sox2 via regulation of Oct3/4 expression in mouse embryonic stem cells

deirdre submitted, created time 1 year 7 months (www.nature.com)

The pluripotency of embryonic stem (ES) cells is thought to be maintained by a few key transcription factors, including Oct3/4 and Sox2. The function of Oct3/4 in ES cells has been extensively characterized, but that of Sox2 has yet to be determined. Sox2 can act synergistically with Oct3/4 in vitro to activate Oct–Sox enhancers, which regulate the expression of pluripotent stem cell-specific genes, including Nanog, Oct3/4 and Sox2 itself.

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Nitric oxide controls nuclear export of APE1/Ref-1 through S-nitrosation of Cysteines 93 and 310

athena submitted, created time 1 year 8 months (nar.oxfordjournals.org)

"Apurinic/apyrimidinic endonuclease 1/redox effector factor-1 (APE1/Ref-1, abbreviated as APE1) is a molecule with dual functions in DNA repair and redox regulation of transcription factors. Accumulated work has shown that the biological activities of APE1 are sensitive to oxidative stress; however, whether APE1 functions can be regulated by nitrosative stress remains unknown."

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Identification of polymorphic antioxidant response elements (AREs) in the human genome

sciencebaby submitted, created time 1 year 8 months (hmg.oxfordjournals.org)

Single nucleotide polymorphisms (SNPs) in transcription factor binding sites (TFBSs) may affect the binding of transcription factors, lead to differences in gene expression and phenotypes, and therefore affect susceptibility to environmental exposure. We developed an integrated computational system for discovering functional SNPs in TFBSs in the human genome and predicting their impact on the expression of target genes

Submit comment | Blog It | Email It | Keywords: Single nucleotide polymorphisms (SNPs) transcription factors antioxidant response elements (AREs)