Literature DB >> 16919269

A global genomic transcriptional code associated with CNS-expressed genes.

Peter J Bailey1, Joanna M Klos, Elisabet Andersson, Mattias Karlén, Magdalena Källström, Jasmina Ponjavic, Jonas Muhr, Boris Lenhard, Albin Sandelin, Johan Ericson.   

Abstract

Highly conserved non-coding DNA regions (HCNR) occur frequently in vertebrate genomes, but their functional roles remain unclear. Here, we provide evidence that a large portion of HCNRs are enriched for binding sites for Sox, POU and Homeodomain transcription factors, and such HCNRs can act as cis-regulatory regions active in neural stem cells. Strikingly, these HCNRs are linked to several hundreds of genes expressed in the developing CNS and they may exert locus-wide regulatory effects on multiple genes flanking their genomic location. Moreover, these data imply a unifying transcriptional logic for a large set of CNS-expressed genes in which Sox and POU proteins act as generic promoters of transcription while Homeodomain proteins control the spatial expression of genes through active repression.

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Year:  2006        PMID: 16919269     DOI: 10.1016/j.yexcr.2006.06.017

Source DB:  PubMed          Journal:  Exp Cell Res        ISSN: 0014-4827            Impact factor:   3.905


  23 in total

1.  Program specificity for Ptf1a in pancreas versus neural tube development correlates with distinct collaborating cofactors and chromatin accessibility.

Authors:  David M Meredith; Mark D Borromeo; Tye G Deering; Bradford H Casey; Trisha K Savage; Paul R Mayer; Chinh Hoang; Kuang-Chi Tung; Manonmani Kumar; Chengcheng Shen; Galvin H Swift; Raymond J Macdonald; Jane E Johnson
Journal:  Mol Cell Biol       Date:  2013-06-10       Impact factor: 4.272

2.  Class-C SOX transcription factors control GnRH gene expression via the intronic transcriptional enhancer.

Authors:  Hee-Dae Kim; Han Kyoung Choe; Sooyoung Chung; Myungjin Kim; Jae Young Seong; Gi Hoon Son; Kyungjin Kim
Journal:  Mol Endocrinol       Date:  2011-04-28

3.  Regulation of retinal homeobox gene transcription by cooperative activity among cis-elements.

Authors:  Reyna I Martinez-de Luna; Holly E Moose; Lisa E Kelly; Srivamsi Nekkalapudi; Heithem M El-Hodiri
Journal:  Gene       Date:  2010-07-11       Impact factor: 3.688

4.  SoxC transcription factors are required for neuronal differentiation in adult hippocampal neurogenesis.

Authors:  Lifang Mu; Lucia Berti; Giacomo Masserdotti; Marcela Covic; Theologos M Michaelidis; Kathrin Doberauer; Katharina Merz; Frederick Rehfeld; Anja Haslinger; Michael Wegner; Elisabeth Sock; Veronique Lefebvre; Sebastien Couillard-Despres; Ludwig Aigner; Benedikt Berninger; D Chichung Lie
Journal:  J Neurosci       Date:  2012-02-29       Impact factor: 6.167

5.  Regulatory networks specifying cortical interneurons from human embryonic stem cells reveal roles for CHD2 in interneuron development.

Authors:  Kesavan Meganathan; Emily M A Lewis; Paul Gontarz; Shaopeng Liu; Edouard G Stanley; Andrew G Elefanty; James E Huettner; Bo Zhang; Kristen L Kroll
Journal:  Proc Natl Acad Sci U S A       Date:  2017-12-11       Impact factor: 11.205

6.  Genomic regulatory blocks underlie extensive microsynteny conservation in insects.

Authors:  Pär G Engström; Shannan J Ho Sui; Oyvind Drivenes; Thomas S Becker; Boris Lenhard
Journal:  Genome Res       Date:  2007-11-07       Impact factor: 9.043

7.  Identification of interacting transcription factors regulating tissue gene expression in human.

Authors:  Zihua Hu; Steven M Gallo
Journal:  BMC Genomics       Date:  2010-01-19       Impact factor: 3.969

8.  Conservation and regulatory associations of a wide affinity range of mouse transcription factor binding sites.

Authors:  Savina A Jaeger; Esther T Chan; Michael F Berger; Rolf Stottmann; Timothy R Hughes; Martha L Bulyk
Journal:  Genomics       Date:  2010-01-15       Impact factor: 5.736

Review 9.  Establishing and interpreting graded Sonic Hedgehog signaling during vertebrate neural tube patterning: the role of negative feedback.

Authors:  Vanessa Ribes; James Briscoe
Journal:  Cold Spring Harb Perspect Biol       Date:  2009-08       Impact factor: 10.005

10.  Motifs and cis-regulatory modules mediating the expression of genes co-expressed in presynaptic neurons.

Authors:  Rui Liu; Sridhar Hannenhalli; Maja Bucan
Journal:  Genome Biol       Date:  2009-07-01       Impact factor: 13.583

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