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Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA. Nature (2011) 6.10

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Enhancer-promoter specificity mediated by DPE or TATA core promoter motifs. Genes Dev (2001) 4.54

The metazoan Mediator co-activator complex as an integrative hub for transcriptional regulation. Nat Rev Genet (2010) 4.46

Tuning genetic control through promoter engineering. Proc Natl Acad Sci U S A (2005) 4.07

Structure and mechanism of the RNA polymerase II transcription machinery. Nat Struct Mol Biol (2004) 4.03

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A compendium of Caenorhabditis elegans regulatory transcription factors: a resource for mapping transcription regulatory networks. Genome Biol (2005) 3.24

SAGA is an essential in vivo target of the yeast acidic activator Gal4p. Genes Dev (2001) 3.23

A gateway-compatible yeast one-hybrid system. Genome Res (2004) 3.23

Finding distal regulatory elements in the human genome. Curr Opin Genet Dev (2009) 3.02

Capping, splicing, and 3' processing are independently stimulated by RNA polymerase II: different functions for different segments of the CTD. Genes Dev (2001) 2.72

Understanding transcriptional regulation by integrative analysis of transcription factor binding data. Genome Res (2012) 2.66

The yeast THO complex and mRNA export factors link RNA metabolism with transcription and genome instability. EMBO J (2002) 2.62

TFIIH kinase places bivalent marks on the carboxy-terminal domain of RNA polymerase II. Mol Cell (2009) 2.61

Ctr9, Rtf1, and Leo1 are components of the Paf1/RNA polymerase II complex. Mol Cell Biol (2002) 2.60

The transcription cycle of RNA polymerase II in living cells. J Cell Biol (2002) 2.59

Architecture of initiation-competent 12-subunit RNA polymerase II. Proc Natl Acad Sci U S A (2003) 2.39

The MTE, a new core promoter element for transcription by RNA polymerase II. Genes Dev (2004) 2.30

Two cyclin-dependent kinases promote RNA polymerase II transcription and formation of the scaffold complex. Mol Cell Biol (2004) 2.26

Transcriptional synergy and the regulation of Ucp1 during brown adipocyte induction in white fat depots. Mol Cell Biol (2005) 2.18

Global regulation of promoter melting in naive lymphocytes. Cell (2013) 2.05

The HTLV-1 Tax interactome. Retrovirology (2008) 2.02

In vivo target of a transcriptional activator revealed by fluorescence resonance energy transfer. Genes Dev (2004) 1.99

How many human genes can be defined as housekeeping with current expression data? BMC Genomics (2008) 1.97

SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase. Cell (2013) 1.97

Tsix transcription across the Xist gene alters chromatin conformation without affecting Xist transcription: implications for X-chromosome inactivation. Genes Dev (2005) 1.92

A multiplicity of coactivators is required by Gcn4p at individual promoters in vivo. Mol Cell Biol (2003) 1.88

Requirement of TRAP/mediator for both activator-independent and activator-dependent transcription in conjunction with TFIID-associated TAF(II)s. Mol Cell Biol (2002) 1.86

Transcriptional interferences in cis natural antisense transcripts of humans and mice. Genetics (2007) 1.79

Identification of novel functional TBP-binding sites and general factor repertoires. EMBO J (2007) 1.77

Epigenetic regulation of the honey bee transcriptome: unravelling the nature of methylated genes. BMC Genomics (2009) 1.76

Gene-specific repression of the p53 target gene PUMA via intragenic CTCF-Cohesin binding. Genes Dev (2010) 1.76

Chemical-genomic dissection of the CTD code. Nat Struct Mol Biol (2010) 1.76

The interplay between transcription factors and microRNAs in genome-scale regulatory networks. Bioessays (2009) 1.72

Chemical inhibition of the TFIIH-associated kinase Cdk7/Kin28 does not impair global mRNA synthesis. Proc Natl Acad Sci U S A (2007) 1.71

Heterotachy in mammalian promoter evolution. PLoS Genet (2006) 1.71

The Swi5 activator recruits the Mediator complex to the HO promoter without RNA polymerase II. Genes Dev (2001) 1.68

TFIIH and P-TEFb coordinate transcription with capping enzyme recruitment at specific genes in fission yeast. Mol Cell (2009) 1.66

The transcription elongation factor CA150 interacts with RNA polymerase II and the pre-mRNA splicing factor SF1. Mol Cell Biol (2001) 1.64

Role for PSF in mediating transcriptional activator-dependent stimulation of pre-mRNA processing in vivo. Mol Cell Biol (2005) 1.64

Legume transcription factors: global regulators of plant development and response to the environment. Plant Physiol (2007) 1.64

Ssu72 protein mediates both poly(A)-coupled and poly(A)-independent termination of RNA polymerase II transcription. Mol Cell Biol (2003) 1.64

Systematic analysis of essential yeast TAFs in genome-wide transcription and preinitiation complex assembly. EMBO J (2003) 1.59

A Mediator-responsive form of metazoan RNA polymerase II. Proc Natl Acad Sci U S A (2006) 1.58

A mechanism related to the yeast transcriptional regulator Paf1c is required for expression of the Arabidopsis FLC/MAF MADS box gene family. Plant Cell (2004) 1.55

Association of the Mediator complex with enhancers of active genes. Proc Natl Acad Sci U S A (2003) 1.55

A triad of subunits from the Gal11/tail domain of Srb mediator is an in vivo target of transcriptional activator Gcn4p. Mol Cell Biol (2004) 1.53

An array of coactivators is required for optimal recruitment of TATA binding protein and RNA polymerase II by promoter-bound Gcn4p. Mol Cell Biol (2004) 1.51

HIV-1 Tat stimulates transcription complex assembly through recruitment of TBP in the absence of TAFs. PLoS Biol (2005) 1.50

A 10 residue motif at the C-terminus of the RNA pol II CTD is required for transcription, splicing and 3' end processing. EMBO J (2003) 1.50

The SWI/SNF chromatin-remodeling factor stimulates repair by human excision nuclease in the mononucleosome core particle. Mol Cell Biol (2002) 1.49

Engineering gene networks to emulate Drosophila embryonic pattern formation. PLoS Biol (2005) 1.48

Modulation of RNA polymerase assembly dynamics in transcriptional regulation. Mol Cell (2008) 1.47

Transcription-coupled and DNA damage-dependent ubiquitination of RNA polymerase II in vitro. Proc Natl Acad Sci U S A (2002) 1.45

CIITA regulates transcription onset viaSer5-phosphorylation of RNA Pol II. EMBO J (2003) 1.39

GAGA factor and the TFIID complex collaborate in generating an open chromatin structure at the Drosophila melanogaster hsp26 promoter. Mol Cell Biol (2002) 1.36

TRF3, a TATA-box-binding protein-related factor, is vertebrate-specific and widely expressed. Proc Natl Acad Sci U S A (2003) 1.34

The yeast FACT complex has a role in transcriptional initiation. Mol Cell Biol (2005) 1.33

Formation of a carboxy-terminal domain phosphatase (Fcp1)/TFIIF/RNA polymerase II (pol II) complex in Schizosaccharomyces pombe involves direct interaction between Fcp1 and the Rpb4 subunit of pol II. Mol Cell Biol (2002) 1.33

TRAP/SMCC/mediator-dependent transcriptional activation from DNA and chromatin templates by orphan nuclear receptor hepatocyte nuclear factor 4. Mol Cell Biol (2002) 1.31

Structural and functional organization of TRAP220, the TRAP/mediator subunit that is targeted by nuclear receptors. Mol Cell Biol (2004) 1.31

Activation domain-mediator interactions promote transcription preinitiation complex assembly on promoter DNA. Proc Natl Acad Sci U S A (2003) 1.28

Positive and negative TAF(II) functions that suggest a dynamic TFIID structure and elicit synergy with traps in activator-induced transcription. Mol Cell Biol (2001) 1.26

Dysregulation of the basal RNA polymerase transcription apparatus in cancer. Nat Rev Cancer (2013) 1.26

A subunit of the mediator complex regulates vertebrate neuronal development. Proc Natl Acad Sci U S A (2006) 1.25

The Ccr4-not complex and yTAF1 (yTaf(II)130p/yTaf(II)145p) show physical and functional interactions. Mol Cell Biol (2002) 1.23

Comparative genomics of cyclin-dependent kinases suggest co-evolution of the RNAP II C-terminal domain and CTD-directed CDKs. BMC Genomics (2004) 1.22

Identification of sparsely distributed clusters of cis-regulatory elements in sets of co-expressed genes. Nucleic Acids Res (2004) 1.21

Dynamics of pyrophosphate ion release and its coupled trigger loop motion from closed to open state in RNA polymerase II. J Am Chem Soc (2012) 1.20

Transcriptional regulation of protein complexes in yeast. Genome Biol (2004) 1.20

Gene expression in trypanosomatid parasites. J Biomed Biotechnol (2010) 1.18

RNA polymerase II trigger loop residues stabilize and position the incoming nucleotide triphosphate in transcription. Proc Natl Acad Sci U S A (2010) 1.17

Human mediator enhances activator-facilitated recruitment of RNA polymerase II and promoter recognition by TATA-binding protein (TBP) independently of TBP-associated factors. Mol Cell Biol (2003) 1.16

Transcriptional regulation constrains the organization of genes on eukaryotic chromosomes. Proc Natl Acad Sci U S A (2008) 1.15

Antineoplastic effects of the DNA methylation inhibitor hydralazine and the histone deacetylase inhibitor valproic acid in cancer cell lines. Cancer Cell Int (2006) 1.15

Genes with internal repeats require the THO complex for transcription. Proc Natl Acad Sci U S A (2006) 1.11

The new core promoter element XCPE1 (X Core Promoter Element 1) directs activator-, mediator-, and TATA-binding protein-dependent but TFIID-independent RNA polymerase II transcription from TATA-less promoters. Mol Cell Biol (2007) 1.11

Structural and functional characterization of PC2 and RNA polymerase II-associated subpopulations of metazoan Mediator. Mol Cell Biol (2005) 1.10

Transcriptomic signatures of ash (Fraxinus spp.) phloem. PLoS One (2011) 1.07

Interaction between human respiratory syncytial virus (RSV) M2-1 and P proteins is required for reconstitution of M2-1-dependent RSV minigenome activity. J Virol (2003) 1.07

TcoF-DB: dragon database for human transcription co-factors and transcription factor interacting proteins. Nucleic Acids Res (2010) 1.05

RNA polymerase II (Pol II)-TFIIF and Pol II-mediator complexes: the major stable Pol II complexes and their activity in transcription initiation and reinitiation. Mol Cell Biol (2004) 1.05

Transcriptional activation domains of the Candida albicans Gcn4p and Gal4p homologs. Eukaryot Cell (2006) 1.03

Redefining the modular organization of the core Mediator complex. Cell Res (2014) 1.02

Active chromatin and noncoding RNAs: an intimate relationship. Curr Opin Genet Dev (2011) 1.02

In vivo association of adenovirus large E1A protein with the human mediator complex in adenovirus-infected and -transformed cells. J Virol (2002) 1.02

Toward a general model for the evolutionary dynamics of gene duplicates. Genome Biol Evol (2011) 1.02

DEEP: a general computational framework for predicting enhancers. Nucleic Acids Res (2014) 1.01

A new chapter in the transcription SAGA. Curr Opin Struct Biol (2011) 1.01

Applying whole-genome studies of epigenetic regulation to study human disease. Cytogenet Genome Res (2006) 1.01

In vivo dynamics of chromatin-associated complex formation in mammalian nucleotide excision repair. Proc Natl Acad Sci U S A (2004) 1.00

Rtr1 is the Saccharomyces cerevisiae homolog of a novel family of RNA polymerase II-binding proteins. Eukaryot Cell (2008) 0.99

The Ras/PKA signaling pathway of Saccharomyces cerevisiae exhibits a functional interaction with the Sin4p complex of the RNA polymerase II holoenzyme. Genetics (2001) 0.99

Polyglutamine expansion reduces the association of TATA-binding protein with DNA and induces DNA binding-independent neurotoxicity. J Biol Chem (2008) 0.98

A role for gcn5-mediated global histone acetylation in transcriptional regulation. Mol Cell Biol (2006) 0.98

RNA polymerase transcription machinery in trypanosomes. Eukaryot Cell (2007) 0.98

Specific TATAA and bZIP requirements suggest that HTLV-I Tax has transcriptional activity subsequent to the assembly of an initiation complex. Retrovirology (2004) 0.98

The Ras/PKA signaling pathway may control RNA polymerase II elongation via the Spt4p/Spt5p complex in Saccharomyces cerevisiae. Genetics (2003) 0.98

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