Transcription factor redundancy and tissue-specific regulation: evidence from functional and physical network connectivity

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Transcription factor redundancy and tissue-specific regulation: evidence from functional and physical network connectivity is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1101/GR.133306.111
P932PMC publication ID3460186
P698PubMed publication ID22730465
P5875ResearchGate publication ID228064357

P50authorBarbara J. WoldQ22089460
Steven KuntzQ43928393
Paul W. SternbergQ55778919
P2093author name stringBrian A Williams
P2860cites workSynthetic lethal analysis of Caenorhabditis elegans posterior embryonic patterning genes identifies conserved genetic interactionsQ21184163
Mapping and quantifying mammalian transcriptomes by RNA-SeqQ22122035
The genetics of Caenorhabditis elegansQ24533408
A multiparameter network reveals extensive divergence between C. elegans bHLH transcription factorsQ24642967
Genome-wide identification of binding sites defines distinct functions for Caenorhabditis elegans PHA-4/FOXA in development and environmental responseQ27348311
A widespread distribution of genomic CeMyoD binding sites revealed and cross validated by ChIP-Chip and ChIP-Seq techniquesQ27438090
The embryonic cell lineage of the nematode Caenorhabditis elegansQ28271877
Transcriptional control of muscle development by myocyte enhancer factor-2 (MEF2) proteinsQ28294155
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE projectQ28301622
The T-box factor MLS-1 acts as a molecular switch during specification of nonstriated muscle in C. elegansQ28345297
Genome-wide mapping of in vivo protein-DNA interactionsQ29547162
Post-embryonic cell lineages of the nematode, Caenorhabditis elegansQ29547748
Functional genomic analysis of cell division in C. elegans using RNAi of genes on chromosome IIIQ29618444
Functional conservation between members of an ancient duplicated transcription factor family, LSF/GrainyheadQ30815054
A normally attractive cell interaction is repulsive in two C. elegans mesodermal cell migration mutantsQ33316428
Sequence requirements for myosin gene expression and regulation in Caenorhabditis elegansQ33961648
Computation for ChIP-seq and RNA-seq studiesQ33999125
Epithelial biology: lessons from Caenorhabditis elegans.Q34402098
Identification of unknown target genes of human transcription factors using chromatin immunoprecipitationQ34675853
High resolution mapping of Twist to DNA in Drosophila embryos: Efficient functional analysis and evolutionary conservationQ34729636
Analysis of a Caenorhabditis elegans Twist homolog identifies conserved and divergent aspects of mesodermal patterningQ35207840
Defining the transcriptional redundancy of early bodywall muscle development in C. elegans: evidence for a unified theory of animal muscle developmentQ35221163
Insight into transcription factor gene duplication from Caenorhabditis elegans Promoterome-driven expression patterns.Q35616802
Genes critical for muscle development and function in Caenorhabditis elegans identified through lethal mutationsQ36233694
Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression.Q36496248
Caudal-like PAL-1 directly activates the bodywall muscle module regulator hlh-1 in C. elegans to initiate the embryonic muscle gene regulatory networkQ37204828
The NK-2 class homeodomain factor CEH-51 and the T-box factor TBX-35 have overlapping function in C. elegans mesoderm developmentQ37314402
Two Hox cofactors, the Meis/Hth homolog UNC-62 and the Pbx/Exd homolog CEH-20, function together during C. elegans postembryonic mesodermal developmentQ37366658
In vitro transcription system delineates the distinct roles of the coactivators pCAF and p300 during MyoD/E47-dependent transactivation.Q37415625
Novel transcription regulatory elements in Caenorhabditis elegans muscle genesQ37694754
Body-wall muscle formation in Caenorhabditis elegans embryos that lack the MyoD homolog hlh-1.Q38329468
elt-1, an embryonically expressed Caenorhabditis elegans gene homologous to the GATA transcription factor familyQ38333549
A MyoD-generated feed-forward circuit temporally patterns gene expression during skeletal muscle differentiation.Q38335789
Genome-wide MyoD binding in skeletal muscle cells: a potential for broad cellular reprogramming.Q38344633
The pharynx of Caenorhabditis elegansQ39110158
Direct regulation of egl-1 and of programmed cell death by the Hox protein MAB-5 and by CEH-20, a C. elegans homolog of Pbx1.Q39751766
Muscle organization in Caenorhabditis elegans: localization of proteins implicated in thin filament attachment and I-band organizationQ41489967
The Fox-1 family and SUP-12 coordinately regulate tissue-specific alternative splicing in vivoQ41788378
The C. elegans Twist target gene, arg-1, is regulated by distinct E box promoter elementsQ42123738
Pbx marks genes for activation by MyoD indicating a role for a homeodomain protein in establishing myogenic potentialQ42828894
Genome-wide prediction of C. elegans genetic interactionsQ44214338
Spatial and temporal controls target pal-1 blastomere-specification activity to a single blastomere lineage in C. elegans embryos.Q45981171
MyoD, modularity, and myogenesis: conservation of regulators and redundancy in C. elegansQ46058096
skn-1, a maternally expressed gene required to specify the fate of ventral blastomeres in the early C. elegans embryoQ47068766
Trithorax, Hox, and TALE-class homeodomain proteins ensure cell survival through repression of the BH3-only gene egl-1.Q47068976
ELT-1, a GATA-like transcription factor, is required for epidermal cell fates in Caenorhabditis elegans embryosQ47068998
A Zn-finger/FH2-domain containing protein, FOZI-1, acts redundantly with CeMyoD to specify striated body wall muscle fates in the Caenorhabditis elegans postembryonic mesodermQ47069133
The Caenorhabditis elegans MYOD homologue HLH-1 is essential for proper muscle function and complete morphogenesisQ47069135
MEX-3 is a KH domain protein that regulates blastomere identity in early C. elegans embryosQ47069183
Overlapping roles of two Hox genes and the exd ortholog ceh-20 in diversification of the C. elegans postembryonic mesoderm.Q47069324
Identification of novel target genes of CeTwist and CeE/DA.Q47069483
Detecting ligands and dissecting nuclear receptor-signaling pathways using recombinant strains of the yeast Saccharomyces cerevisiaeQ47794526
Caenorhabditis elegans twist plays an essential role in non-striated muscle development.Q47900059
MyoD and the specification of muscle and non-muscle fates during postembryonic development of the C. elegans mesoderm.Q47909297
Elements regulating cell- and stage-specific expression of the C. elegans MyoD family homolog hlh-1.Q47923846
The myogenic potency of HLH-1 reveals wide-spread developmental plasticity in early C. elegans embryos.Q52054945
The homeodomain protein PAL-1 specifies a lineage-specific regulatory network in the C. elegans embryo.Q52054949
Composition and dynamics of the Caenorhabditis elegans early embryonic transcriptome.Q52110050
An altered method of feeding RNAi that knocks down multiple genes simultaneously in the nematode Caenorhabditis elegans.Q52605077
Characterization of a dominant negative C. elegans Twist mutant protein with implications for human Saethre-Chotzen syndromeQ56363524
A gene involved in the development of the posterior body region of C. elegansQ69566350
Formation of a monomeric DNA binding domain by Skn-1 bZIP and homeodomain elementsQ72752185
The C. elegans Hand gene controls embryogenesis and early gonadogenesisQ73413292
Identifying muscle regulatory elements and genes in the nematode Caenorhabditis elegansQ77862494
P433issue10
P921main subjectnetwork connectivityQ123759594
P304page(s)1907-1919
P577publication date2012-06-22
P1433published inGenome ResearchQ5533485
P1476titleTranscription factor redundancy and tissue-specific regulation: evidence from functional and physical network connectivity
P478volume22

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cites work (P2860)
Q36236487A Differentiation Transcription Factor Establishes Muscle-Specific Proteostasis in Caenorhabditis elegans.
Q47109388A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer.
Q38485000Collaborative regulation of development but independent control of metabolism by two epidermis-specific transcription factors in Caenorhabditis elegans
Q102319573FHOD formin and SRF promote post-embryonic striated muscle growth through separate pathways in C. elegans
Q30607520Integrative analysis of C. elegans modENCODE ChIP-seq data sets to infer gene regulatory interactions.
Q35939502Overlapping cell population expression profiling and regulatory inference in C. elegans
Q91815150Plant PHR Transcription Factors: Put on A Map
Q47191098UNC-120/SRF independently controls muscle aging and lifespan in Caenorhabditis elegans.

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