Literature DB >> 23174848

Experimental approaches for gene regulatory network construction: the chick as a model system.

Andrea Streit1, Monica Tambalo, Jingchen Chen, Timothy Grocott, Maryam Anwar, Alona Sosinsky, Claudio D Stern.   

Abstract

Setting up the body plan during embryonic development requires the coordinated action of many signals and transcriptional regulators in a precise temporal sequence and spatial pattern. The last decades have seen an explosion of information describing the molecular control of many developmental processes. The next challenge is to integrate this information into logic "wiring diagrams" that visualize gene actions and outputs, have predictive power and point to key control nodes. Here, we provide an experimental workflow on how to construct gene regulatory networks using the chick as model system.
Copyright © 2012 Wiley Periodicals, Inc.

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Year:  2012        PMID: 23174848      PMCID: PMC3626748          DOI: 10.1002/dvg.22359

Source DB:  PubMed          Journal:  Genesis        ISSN: 1526-954X            Impact factor:   2.487


  123 in total

1.  Functional analysis of chicken Sox2 enhancers highlights an array of diverse regulatory elements that are conserved in mammals.

Authors:  Masanori Uchikawa; Yoshiko Ishida; Tatsuya Takemoto; Yusuke Kamachi; Hisato Kondoh
Journal:  Dev Cell       Date:  2003-04       Impact factor: 12.270

2.  Performance comparison of multiple microarray platforms for gene expression profiling.

Authors:  Fang Liu; Winston P Kuo; Tor-Kristian Jenssen; Eivind Hovig
Journal:  Methods Mol Biol       Date:  2012

3.  Regulation of Sox2 in the pre-placodal cephalic ectoderm and central nervous system by enhancer N-4.

Authors:  Yuka Saigou; Yoshifumi Kamimura; Masashi Inoue; Hisato Kondoh; Masanori Uchikawa
Journal:  Dev Growth Differ       Date:  2010-06       Impact factor: 2.053

4.  Multiple N-cadherin enhancers identified by systematic functional screening indicate its Group B1 SOX-dependent regulation in neural and placodal development.

Authors:  Miho Matsumata; Masanori Uchikawa; Yusuke Kamachi; Hisato Kondoh
Journal:  Dev Biol       Date:  2005-09-16       Impact factor: 3.582

5.  Spatially and temporally controlled electroporation of early chick embryos.

Authors:  Octavian Voiculescu; Costis Papanayotou; Claudio D Stern
Journal:  Nat Protoc       Date:  2008       Impact factor: 13.491

6.  Gene transduction by sonoporation.

Authors:  Sho Ohta; Kentaro Suzuki; Yukiko Ogino; Shinichi Miyagawa; Aki Murashima; Daisuke Matsumaru; Gen Yamada
Journal:  Dev Growth Differ       Date:  2008-04-22       Impact factor: 2.053

7.  The posteriorizing gene Gbx2 is a direct target of Wnt signalling and the earliest factor in neural crest induction.

Authors:  Bo Li; Sei Kuriyama; Mauricio Moreno; Roberto Mayor
Journal:  Development       Date:  2009-10       Impact factor: 6.868

8.  Foxj1 regulates floor plate cilia architecture and modifies the response of cells to sonic hedgehog signalling.

Authors:  Catarina Cruz; Vanessa Ribes; Eva Kutejova; Jordi Cayuso; Victoria Lawson; Dominic Norris; Jonathan Stevens; Megan Davey; Ken Blight; Fiona Bangs; Anita Mynett; Elizabeth Hirst; Rachel Chung; Nikolaos Balaskas; Steven L Brody; Elisa Marti; James Briscoe
Journal:  Development       Date:  2010-12       Impact factor: 6.868

9.  Evidence against involvement of Bmp receptor 1b signaling in fate specification of the chick mesencephalic alar plate at HH16.

Authors:  Nicole Bobak; Zsuzsa Agoston; Dorothea Schulte
Journal:  Neurosci Lett       Date:  2009-06-16       Impact factor: 3.046

10.  Functional knockdown of neuropilin-1 in the developing chick nervous system by siRNA hairpins phenocopies genetic ablation in the mouse.

Authors:  Romke Bron; Britta J Eickholt; Matthieu Vermeren; Ninfa Fragale; James Cohen
Journal:  Dev Dyn       Date:  2004-06       Impact factor: 3.780

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  6 in total

Review 1.  The chick eye in vision research: An excellent model for the study of ocular disease.

Authors:  C Ellis Wisely; Javed A Sayed; Heather Tamez; Chris Zelinka; Mohamed H Abdel-Rahman; Andy J Fischer; Colleen M Cebulla
Journal:  Prog Retin Eye Res       Date:  2017-06-28       Impact factor: 21.198

Review 2.  From blastocyst to gastrula: gene regulatory networks of embryonic stem cells and early mouse embryogenesis.

Authors:  David-Emlyn Parfitt; Michael M Shen
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2014-12-05       Impact factor: 6.237

Review 3.  Evolving gene regulatory networks into cellular networks guiding adaptive behavior: an outline how single cells could have evolved into a centralized neurosensory system.

Authors:  Bernd Fritzsch; Israt Jahan; Ning Pan; Karen L Elliott
Journal:  Cell Tissue Res       Date:  2014-11-23       Impact factor: 5.249

4.  Optimization of CRISPR/Cas9 genome editing for loss-of-function in the early chick embryo.

Authors:  Shashank Gandhi; Michael L Piacentino; Felipe M Vieceli; Marianne E Bronner
Journal:  Dev Biol       Date:  2017-12-01       Impact factor: 3.582

5.  A single-plasmid approach for genome editing coupled with long-term lineage analysis in chick embryos.

Authors:  Shashank Gandhi; Yuwei Li; Weiyi Tang; Jens B Christensen; Hugo A Urrutia; Felipe M Vieceli; Michael L Piacentino; Marianne E Bronner
Journal:  Development       Date:  2021-04-15       Impact factor: 6.862

6.  Neural stem cells deriving from chick embryonic hindbrain recapitulate hindbrain development in culture.

Authors:  Yuval Peretz; Ayelet Kohl; Natalia Slutsky; Marko Komlos; Stas Varshavsky; Dalit Sela-Donenfeld
Journal:  Sci Rep       Date:  2018-09-17       Impact factor: 4.379

  6 in total

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