A protocol for unraveling gene regulatory networks (Q46443793)

22 December 2017

title

A protocol for unraveling gene regulatory networks (English)

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22 December 2017

author

Paola Oliveri

series ordinal

2

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22 December 2017

author name string

Stefan C Materna

series ordinal

1

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22 December 2017

publication date

1 January 2008

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22 December 2017

published in

Nature Protocols

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22 December 2017

volume

3

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22 December 2017

issue

12

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22 December 2017

page(s)

1876-1887

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22 December 2017

https://scigraph.springernature.com/pub.10.1038/nprot.2008.187

exact match

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cites work

Gene regulation: gene control network in development

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Logic of gene regulatory networks

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A provisional regulatory gene network for specification of endomesoderm in the sea urchin embryo

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Deciphering the underlying mechanism of specification and differentiation: the sea urchin gene regulatory network

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Development. Built to run, not fail

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A genomic regulatory network for development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A regulatory gene network that directs micromere specification in the sea urchin embryo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Global regulatory logic for specification of an embryonic cell lineage

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Gene regulatory networks for development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Regulatory blueprint for a chordate embryo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Ancient evolutionary origin of the neural crest gene regulatory network

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Gene-regulatory interactions in neural crest evolution and development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Xenopus as a model system to study transcriptional regulatory networks

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Genomic characterization of Gli-activator targets in sonic hedgehog-mediated neural patterning

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

MicroRNAs acting in a double-negative feedback loop to control a neuronal cell fate decision

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A core transcriptional network for early mesoderm development in Drosophila melanogaster

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A protocol describing the principles of cis-regulatory analysis in the sea urchin

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A genome-wide analysis of biomineralization-related proteins in the sea urchin Strongylocentrotus purpuratus.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Isolation of pigment cell specific genes in the sea urchin embryo by differential macroarray screening

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Identification and characterization of homeobox transcription factor genes in Strongylocentrotus purpuratus, and their expression in embryonic development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Gene families encoding transcription factors expressed in early development of Strongylocentrotus purpuratus.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

The C2H2 zinc finger genes of Strongylocentrotus purpuratus and their expression in embryonic development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Identification and developmental expression of the ets gene family in the sea urchin (Strongylocentrotus purpuratus).

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Sea urchin Forkhead gene family: phylogeny and embryonic expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

brachyury Target genes in the early sea urchin embryo isolated by differential macroarray screening

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

The transcriptome of the sea urchin embryo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A gene expression map for the euchromatic genome of Drosophila melanogaster.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Gene expression during the life cycle of Drosophila melanogaster.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Mapping and quantifying mammalian transcriptomes by RNA-Seq

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

An ancient role for nuclear beta-catenin in the evolution of axial polarity and germ layer segregation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

LvGroucho and nuclear beta-catenin functionally compete for Tcf binding to influence activation of the endomesoderm gene regulatory network in the sea urchin embryo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Default repression and Notch signaling: Hairless acts as an adaptor to recruit the corepressors Groucho and dCtBP to Suppressor of Hairless

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A missing link in the sea urchin embryo gene regulatory network: hesC and the double-negative specification of micromeres.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Morpholino antisense oligomers: design, preparation, and properties

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Inhibition of zebrafish fgf8 pre-mRNA splicing with morpholino oligos: a quantifiable method for gene knockdown.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Repression of mesodermal fate by foxa, a key endoderm regulator of the sea urchin embryo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A Wnt-FoxQ2-nodal pathway links primary and secondary axis specification in sea urchin embryos

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Requirement of SpOtx in cell fate decisions in the sea urchin embryo and possible role as a mediator of beta-catenin signaling.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

FoxF is essential for FGF-induced migration of heart progenitor cells in the ascidian Ciona intestinalis

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Oral-aboral axis specification in the sea urchin embryo. I. Axis entrainment by respiratory asymmetry

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Role of the ERK-mediated signaling pathway in mesenchyme formation and differentiation in the sea urchin embryo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

A self-organizing system of repressor gradients establishes segmental complexity in Drosophila.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Polyubiquitin RNA characteristics and conditional induction in sea urchin embryos

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Real-time PCR for mRNA quantitation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

The homeodomain protein PAL-1 specifies a lineage-specific regulatory network in the C. elegans embryo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Direct multiplexed measurement of gene expression with color-coded probe pairs

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Transcriptional regulatory cascades in development: initial rates, not steady state, determine network kinetics

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Computational representation of developmental genetic regulatory networks

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Network motifs: theory and experimental approaches

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Recovery of developmentally defined gene sets from high-density cDNA macroarrays.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Expression patterns of four different regulatory genes that function during sea urchin development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Developmental gene regulatory network architecture across 500 million years of echinoderm evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

cis-Regulatory inputs of the wnt8 gene in the sea urchin endomesoderm network.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

cis-regulatory processing of Notch signaling input to the sea urchin glial cells missing gene during mesoderm specification

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

R11: a cis-regulatory node of the sea urchin embryo gene network that controls early expression of SpDelta in micromeres

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

An otx cis-regulatory module: a key node in the sea urchin endomesoderm gene regulatory network

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Activation of pmar1 controls specification of micromeres in the sea urchin embryo

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Beta-catenin is required for the establishment of vegetal embryonic fates in the nemertean, Cerebratulus lacteus

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

The VP16 activation domain interacts with multiple transcriptional components as determined by protein-protein cross-linking in vivo

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Quantitative microinjection of oocytes, eggs, and embryos

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

Care and maintenance of adult echinoderms.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2008.187

31 March 2020

Identifiers

DOI

10.1038/NPROT.2008.187

1 reference

22 December 2017

PubMed ID

19008874

1 reference

22 December 2017