Published in Mol Cell on November 05, 2004
Unbiased location analysis of E2F1-binding sites suggests a widespread role for E2F1 in the human genome. Genome Res (2006) 6.54
Myc stimulates nuclearly encoded mitochondrial genes and mitochondrial biogenesis. Mol Cell Biol (2005) 4.99
Emerging roles of E2Fs in cancer: an exit from cell cycle control. Nat Rev Cancer (2009) 4.66
An initial blueprint for myogenic differentiation. Genes Dev (2005) 4.22
From the Cover: Location analysis of estrogen receptor alpha target promoters reveals that FOXA1 defines a domain of the estrogen response. Proc Natl Acad Sci U S A (2005) 4.16
Dissecting the unique role of the retinoblastoma tumor suppressor during cellular senescence. Cancer Cell (2010) 3.81
Reprogramming of 3' untranslated regions of mRNAs by alternative polyadenylation in generation of pluripotent stem cells from different cell types. PLoS One (2009) 2.64
Whole-genome maps of USF1 and USF2 binding and histone H3 acetylation reveal new aspects of promoter structure and candidate genes for common human disorders. Genome Res (2008) 2.62
Molecular mechanisms underlying RB protein function. Nat Rev Mol Cell Biol (2013) 2.58
Reconstructing dynamic regulatory maps. Mol Syst Biol (2007) 2.36
Genomic analyses of transcription factor binding, histone acetylation, and gene expression reveal mechanistically distinct classes of estrogen-regulated promoters. Mol Cell Biol (2007) 2.33
Nuclear control of respiratory chain expression by nuclear respiratory factors and PGC-1-related coactivator. Ann N Y Acad Sci (2008) 2.27
The tumor suppressors Ink4c and p53 collaborate independently with Patched to suppress medulloblastoma formation. Genes Dev (2005) 2.14
Homotypic clusters of transcription factor binding sites are a key component of human promoters and enhancers. Genome Res (2010) 2.12
Rb intrinsically promotes erythropoiesis by coupling cell cycle exit with mitochondrial biogenesis. Genes Dev (2008) 2.05
E2F-associated chromatin modifiers and cell cycle control. Curr Opin Cell Biol (2007) 2.04
Cyclin D1 repression of nuclear respiratory factor 1 integrates nuclear DNA synthesis and mitochondrial function. Proc Natl Acad Sci U S A (2006) 1.96
DYRK1A protein kinase promotes quiescence and senescence through DREAM complex assembly. Genes Dev (2011) 1.82
Pocket protein complexes are recruited to distinct targets in quiescent and proliferating cells. Mol Cell Biol (2005) 1.81
Identification of novel functional TBP-binding sites and general factor repertoires. EMBO J (2007) 1.77
Cyclin D1 determines mitochondrial function in vivo. Mol Cell Biol (2006) 1.75
A computational genomics approach to identify cis-regulatory modules from chromatin immunoprecipitation microarray data--a case study using E2F1. Genome Res (2006) 1.74
Retinoblastoma tumor suppressor protein-dependent methylation of histone H3 lysine 27 is associated with irreversible cell cycle exit. J Cell Biol (2007) 1.72
Metabolism and proliferation share common regulatory pathways in cancer cells. Oncogene (2010) 1.68
Peroxisome proliferator-activated receptor gamma coactivator 1alpha or 1beta overexpression inhibits muscle protein degradation, induction of ubiquitin ligases, and disuse atrophy. J Biol Chem (2010) 1.66
Regulation of late G1/S phase transition and APC Cdh1 by reactive oxygen species. Mol Cell Biol (2006) 1.65
Genome-wide transcriptional analysis of the human cell cycle identifies genes differentially regulated in normal and cancer cells. Proc Natl Acad Sci U S A (2008) 1.53
The CDK4-pRB-E2F1 pathway controls insulin secretion. Nat Cell Biol (2009) 1.45
Wide-ranging functions of E2F4 in transcriptional activation and repression revealed by genome-wide analysis. Nucleic Acids Res (2011) 1.43
A review of imaging techniques for systems biology. BMC Syst Biol (2008) 1.42
Minireview: the PGC-1 coactivator networks: chromatin-remodeling and mitochondrial energy metabolism. Mol Endocrinol (2008) 1.37
Estrogenic control of mitochondrial function and biogenesis. J Cell Biochem (2008) 1.37
The BTB and CNC homology 1 (BACH1) target genes are involved in the oxidative stress response and in control of the cell cycle. J Biol Chem (2011) 1.36
BMI1 is a target gene of E2F-1 and is strongly expressed in primary neuroblastomas. Nucleic Acids Res (2006) 1.34
A gene signature-based approach identifies mTOR as a regulator of p73. Mol Cell Biol (2008) 1.34
Redox regulation of mitochondrial function. Antioxid Redox Signal (2012) 1.34
Human papillomavirus E7 repression in cervical carcinoma cells initiates a transcriptional cascade driven by the retinoblastoma family, resulting in senescence. J Virol (2006) 1.33
PGC-1-related coactivator: immediate early expression and characterization of a CREB/NRF-1 binding domain associated with cytochrome c promoter occupancy and respiratory growth. Mol Cell Biol (2006) 1.32
Regulation of global genome nucleotide excision repair by SIRT1 through xeroderma pigmentosum C. Proc Natl Acad Sci U S A (2010) 1.30
Global rank-invariant set normalization (GRSN) to reduce systematic distortions in microarray data. BMC Bioinformatics (2008) 1.29
The circadian clock in cancer development and therapy. Prog Mol Biol Transl Sci (2013) 1.28
Characterizing disease states from topological properties of transcriptional regulatory networks. BMC Bioinformatics (2006) 1.27
Direct control of cell cycle gene expression by proto-oncogene product ACTR, and its autoregulation underlies its transforming activity. Mol Cell Biol (2006) 1.22
ATF2 - at the crossroad of nuclear and cytosolic functions. J Cell Sci (2012) 1.20
PGC-1-related coactivator complexes with HCF-1 and NRF-2beta in mediating NRF-2(GABP)-dependent respiratory gene expression. J Biol Chem (2008) 1.18
Nucleus-encoded regulators of mitochondrial function: integration of respiratory chain expression, nutrient sensing and metabolic stress. Biochim Biophys Acta (2011) 1.14
Redox regulation of mitochondrial biogenesis. Free Radic Biol Med (2012) 1.11
Allegro: analyzing expression and sequence in concert to discover regulatory programs. Nucleic Acids Res (2009) 1.11
Short hairpin RNA-mediated silencing of PRC (PGC-1-related coactivator) results in a severe respiratory chain deficiency associated with the proliferation of aberrant mitochondria. J Biol Chem (2008) 1.09
Gene expression meta-analysis identifies metastatic pathways and transcription factors in breast cancer. BMC Cancer (2008) 1.09
The role of the RB tumour suppressor pathway in oxidative stress responses in the haematopoietic system. Nat Rev Cancer (2008) 1.08
Retinoblastoma/p107/p130 pocket proteins: protein dynamics and interactions with target gene promoters. J Biol Chem (2009) 1.07
Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor. PLoS One (2007) 1.07
Transcriptional autoregulation by BRCA1. Cancer Res (2010) 1.05
Ldb1-nucleated transcription complexes function as primary mediators of global erythroid gene activation. Blood (2013) 1.05
Perspectives on mechanisms of gene regulation by 1,25-dihydroxyvitamin D3 and its receptor. J Steroid Biochem Mol Biol (2007) 1.04
Nuclear respiratory factor 1 controls myocyte enhancer factor 2A transcription to provide a mechanism for coordinate expression of respiratory chain subunits. J Biol Chem (2008) 1.04
G1 arrest and differentiation can occur independently of Rb family function. J Cell Biol (2010) 1.02
Identifying new human oocyte marker genes: a microarray approach. Reprod Biomed Online (2007) 1.02
Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. Gene Regul Syst Bio (2013) 1.00
Transcriptional Regulation of SDHa flavoprotein by nuclear respiratory factor-1 prevents pseudo-hypoxia in aerobic cardiac cells. J Biol Chem (2008) 1.00
Characterization of cis- and trans-acting elements in the imprinted human SNURF-SNRPN locus. Nucleic Acids Res (2005) 1.00
Proteomic analysis of pRb loss highlights a signature of decreased mitochondrial oxidative phosphorylation. Genes Dev (2015) 0.98
Rb/E2F regulates expression of neogenin during neuronal migration. Mol Cell Biol (2010) 0.97
E2F1 death pathways as targets for cancer therapy. J Cell Mol Med (2007) 0.97
Neil3, the final frontier for the DNA glycosylases that recognize oxidative damage. Mutat Res (2012) 0.96
Integrative bioinformatics analysis of transcriptional regulatory programs in breast cancer cells. BMC Bioinformatics (2008) 0.96
Comparative analysis of regulatory motif discovery tools for transcription factor binding sites. Genomics Proteomics Bioinformatics (2007) 0.95
Unraveling condition specific gene transcriptional regulatory networks in Saccharomyces cerevisiae. BMC Bioinformatics (2006) 0.95
Physical and functional interaction between PML and TBX2 in the establishment of cellular senescence. EMBO J (2011) 0.94
Overexpression of cyclin E/CDK2 complexes overcomes FGF-induced cell cycle arrest in the presence of hypophosphorylated Rb proteins. Cell Cycle (2012) 0.94
Nuclear respiratory factor 2 induces the expression of many but not all human proteins acting in mitochondrial DNA transcription and replication. J Biol Chem (2009) 0.94
Mitochondrial biogenesis through activation of nuclear signaling proteins. Cold Spring Harb Perspect Biol (2013) 0.94
RB1: a prototype tumor suppressor and an enigma. Genes Dev (2016) 0.93
Drosophila RB proteins repress differentiation-specific genes via two different mechanisms. Mol Cell Biol (2010) 0.93
Combined expressional analysis, bioinformatics and targeted proteomics identify new potential therapeutic targets in glioblastoma stem cells. Oncotarget (2015) 0.93
Nrf1 CNC-bZIP protein promotes cell survival and nucleotide excision repair through maintaining glutathione homeostasis. J Biol Chem (2012) 0.93
MYC and mitochondrial biogenesis. Cold Spring Harb Perspect Med (2014) 0.93
Deregulation of XPC and CypA by cyclosporin A: an immunosuppression-independent mechanism of skin carcinogenesis. Cancer Prev Res (Phila) (2012) 0.92
ARF stimulates XPC to trigger nucleotide excision repair by regulating the repressor complex of E2F4. EMBO Rep (2009) 0.92
Re-thinking cell cycle regulators: the cross-talk with metabolism. Front Oncol (2013) 0.92
Reciprocal regulation of p63 by C/EBP delta in human keratinocytes. BMC Mol Biol (2007) 0.91
RNAi-mediated knock-down of arylamine N-acetyltransferase-1 expression induces E-cadherin up-regulation and cell-cell contact growth inhibition. PLoS One (2011) 0.90
Polo-like kinase 4 transcription is activated via CRE and NRF1 elements, repressed by DREAM through CDE/CHR sites and deregulated by HPV E7 protein. Nucleic Acids Res (2013) 0.89
Unraveling transcriptional control and cis-regulatory codes using the software suite GeneACT. Genome Biol (2006) 0.89
EWS-FLI1 employs an E2F switch to drive target gene expression. Nucleic Acids Res (2015) 0.89
The role of YY1 in reduced HP1alpha gene expression in invasive human breast cancer cells. Breast Cancer Res (2009) 0.88
The p107/E2F pathway regulates fibroblast growth factor 2 responsiveness in neural precursor cells. Mol Cell Biol (2009) 0.88
Analysis of the MTHFD1 promoter and risk of neural tube defects. Hum Genet (2009) 0.87
PGC-1-related coactivator modulates mitochondrial-nuclear crosstalk through endogenous nitric oxide in a cellular model of oncocytic thyroid tumours. PLoS One (2009) 0.87
A quantitative proteomic analysis of mitochondrial participation in p19 cell neuronal differentiation. J Proteome Res (2007) 0.87
A signature-based method for indexing cell cycle phase distribution from microarray profiles. BMC Genomics (2009) 0.86
Emerging links between E2F control and mitochondrial function. Cancer Res (2015) 0.86
Mn porphyrin regulation of aerobic glycolysis: implications on the activation of diabetogenic immune cells. Antioxid Redox Signal (2013) 0.85
Identification of co-occurring transcription factor binding sites from DNA sequence using clustered position weight matrices. Nucleic Acids Res (2011) 0.85
TF-centered downstream gene set enrichment analysis: Inference of causal regulators by integrating TF-DNA interactions and protein post-translational modifications information. BMC Bioinformatics (2010) 0.85
Impaired cardiovascular function caused by different stressors elicits a common pathological and transcriptional response in zebrafish embryos. Zebrafish (2013) 0.85
Integrated transcriptome and binding sites analysis implicates E2F in the regulation of self-renewal in human pluripotent stem cells. PLoS One (2011) 0.85
The effects of aging, physical training, and a single bout of exercise on mitochondrial protein expression in human skeletal muscle. Exp Gerontol (2012) 0.85
OKVAR-Boost: a novel boosting algorithm to infer nonlinear dynamics and interactions in gene regulatory networks. Bioinformatics (2013) 0.85
Stem cells, the molecular circuitry of pluripotency and nuclear reprogramming. Cell (2008) 14.17
A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science (2003) 12.07
E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints. Genes Dev (2002) 10.06
Transcriptional regulatory circuits controlling mitochondrial biogenesis and function. Genes Dev (2004) 6.98
Oxygen sensing requires mitochondrial ROS but not oxidative phosphorylation. Cell Metab (2005) 5.61
XBP1 controls diverse cell type- and condition-specific transcriptional regulatory networks. Mol Cell (2007) 4.93
PLX4032, a selective BRAF(V600E) kinase inhibitor, activates the ERK pathway and enhances cell migration and proliferation of BRAF melanoma cells. Pigment Cell Melanoma Res (2010) 4.50
Ezh1 and Ezh2 maintain repressive chromatin through different mechanisms. Mol Cell (2008) 4.44
An initial blueprint for myogenic differentiation. Genes Dev (2005) 4.22
PCGF homologs, CBX proteins, and RYBP define functionally distinct PRC1 family complexes. Mol Cell (2012) 3.28
Cep97 and CP110 suppress a cilia assembly program. Cell (2007) 3.15
E2F mediates cell cycle-dependent transcriptional repression in vivo by recruitment of an HDAC1/mSin3B corepressor complex. Genes Dev (2002) 3.12
CP110, a cell cycle-dependent CDK substrate, regulates centrosome duplication in human cells. Dev Cell (2002) 2.74
Constructing transcriptional regulatory networks. Genes Dev (2005) 2.50
Overly long centrioles and defective cell division upon excess of the SAS-4-related protein CPAP. Curr Biol (2009) 2.48
Genome-wide remodeling of the epigenetic landscape during myogenic differentiation. Proc Natl Acad Sci U S A (2011) 2.48
Control of mitochondrial transcription specificity factors (TFB1M and TFB2M) by nuclear respiratory factors (NRF-1 and NRF-2) and PGC-1 family coactivators. Mol Cell Biol (2005) 2.46
CP110 suppresses primary cilia formation through its interaction with CEP290, a protein deficient in human ciliary disease. Dev Cell (2008) 2.35
Centriolar kinesin Kif24 interacts with CP110 to remodel microtubules and regulate ciliogenesis. Cell (2011) 2.34
Emerging roles for E2F: beyond the G1/S transition and DNA replication. Cancer Cell (2003) 2.20
UTX mediates demethylation of H3K27me3 at muscle-specific genes during myogenesis. EMBO J (2010) 2.11
Hitting their targets: an emerging picture of E2F and cell cycle control. Curr Opin Genet Dev (2004) 2.01
USP33 regulates centrosome biogenesis via deubiquitination of the centriolar protein CP110. Nature (2013) 1.94
Effect of the artificial sweetener, sucralose, on gastric emptying and incretin hormone release in healthy subjects. Am J Physiol Gastrointest Liver Physiol (2009) 1.91
High HSP90 expression is associated with decreased survival in breast cancer. Cancer Res (2007) 1.88
Pocket protein complexes are recruited to distinct targets in quiescent and proliferating cells. Mol Cell Biol (2005) 1.81
Integrative analysis of epigenetic modulation in melanoma cell response to decitabine: clinical implications. PLoS One (2009) 1.80
Wnt glycoproteins regulate the expression of FoxN1, the gene defective in nude mice. Nat Immunol (2002) 1.73
Retinoblastoma tumor suppressor protein-dependent methylation of histone H3 lysine 27 is associated with irreversible cell cycle exit. J Cell Biol (2007) 1.72
In vitro characterization of ephedrine-related stereoisomers at biogenic amine transporters and the receptorome reveals selective actions as norepinephrine transporter substrates. J Pharmacol Exp Ther (2003) 1.70
New insights into cyclins, CDKs, and cell cycle control. Semin Cell Dev Biol (2005) 1.70
A role for mammalian Sin3 in permanent gene silencing. Mol Cell (2008) 1.59
Expression of Aurora A (but not Aurora B) is predictive of survival in breast cancer. Clin Cancer Res (2008) 1.50
Picking ChIP-seq peak detectors for analyzing chromatin modification experiments. Nucleic Acids Res (2012) 1.49
E2F4 loss suppresses tumorigenesis in Rb mutant mice. Cancer Cell (2002) 1.48
Inter- and intra-combinatorial regulation by transcription factors and microRNAs. BMC Genomics (2007) 1.45
Assembling a primary cilium. Curr Opin Cell Biol (2013) 1.45
Quantitative assessment of effect of preanalytic cold ischemic time on protein expression in breast cancer tissues. J Natl Cancer Inst (2012) 1.42
Identification and correction of spurious spatial correlations in microarray data. Biotechniques (2003) 1.38
Tissue engineering--a shifting paradigm. Burns (2002) 1.38
Cooperation between myogenic regulatory factors and SIX family transcription factors is important for myoblast differentiation. Nucleic Acids Res (2010) 1.36
PGC-1-related coactivator: immediate early expression and characterization of a CREB/NRF-1 binding domain associated with cytochrome c promoter occupancy and respiratory growth. Mol Cell Biol (2006) 1.32
Experimental evidence of competitive release in sympatric carnivores. Biol Lett (2008) 1.28
Characterizing disease states from topological properties of transcriptional regulatory networks. BMC Bioinformatics (2006) 1.27
CP110 cooperates with two calcium-binding proteins to regulate cytokinesis and genome stability. Mol Biol Cell (2006) 1.27
Behavioral and biochemical investigations of bupropion metabolites. Eur J Pharmacol (2003) 1.25
TrAp: a tree approach for fingerprinting subclonal tumor composition. Nucleic Acids Res (2013) 1.23
Close proximity to Igh is a contributing factor to AID-mediated translocations. Mol Cell (2012) 1.23
Gene expression in mature neutrophils: early responses to inflammatory stimuli. J Leukoc Biol (2003) 1.23
Genomic and proteomic analysis of the myeloid differentiation program: global analysis of gene expression during induced differentiation in the MPRO cell line. Blood (2002) 1.22
Overexpression of a dominant negative type II bone morphogenetic protein receptor inhibits the growth of human breast cancer cells. Cancer Res (2003) 1.21
Using a xenograft model of human breast cancer metastasis to find genes associated with clinically aggressive disease. Cancer Res (2005) 1.20
PGC-1-related coactivator complexes with HCF-1 and NRF-2beta in mediating NRF-2(GABP)-dependent respiratory gene expression. J Biol Chem (2008) 1.18
SCAPER, a novel cyclin A-interacting protein that regulates cell cycle progression. J Cell Biol (2007) 1.17
The mammalian Sin3 proteins are required for muscle development and sarcomere specification. Mol Cell Biol (2010) 1.17
Cep76, a centrosomal protein that specifically restrains centriole reduplication. Dev Cell (2009) 1.16
Plasma markers for identifying patients with metastatic melanoma. Clin Cancer Res (2011) 1.12
Expression patterns and prognostic value of Bag-1 and Bcl-2 in breast cancer. Breast Cancer Res (2008) 1.11
Short hairpin RNA-mediated silencing of PRC (PGC-1-related coactivator) results in a severe respiratory chain deficiency associated with the proliferation of aberrant mitochondria. J Biol Chem (2008) 1.09
E2f3b plays an essential role in myogenic differentiation through isoform-specific gene regulation. Genes Dev (2009) 1.07
Antibodies targeted to TRAIL receptor-2 and ErbB-2 synergize in vivo and induce an antitumor immune response. Proc Natl Acad Sci U S A (2008) 1.07
Six1 and Six4 gene expression is necessary to activate the fast-type muscle gene program in the mouse primary myotome. Dev Biol (2009) 1.06
Phosphatidylinositol-3-kinase as a therapeutic target in melanoma. Clin Cancer Res (2009) 1.06
The CP110-interacting proteins Talpid3 and Cep290 play overlapping and distinct roles in cilia assembly. J Cell Biol (2014) 1.06
SOX15 and SOX7 differentially regulate the myogenic program in P19 cells. Stem Cells (2009) 1.05
cDNA microarray analysis of invasive and tumorigenic phenotypes in a breast cancer model. Lab Invest (2004) 1.05
Gene expression in human neutrophils during activation and priming by bacterial lipopolysaccharide. J Cell Biochem (2003) 1.04
Microtubule stability, Golgi organization, and transport flux require dystonin-a2-MAP1B interaction. J Cell Biol (2012) 1.03
Detecting copy number status and uncovering subclonal markers in heterogeneous tumor biopsies. BMC Genomics (2011) 1.02
Two types of precursor cells in a multipotential hematopoietic cell line. Proc Natl Acad Sci U S A (2005) 1.02
RUNX transcription factor-mediated association of Cd4 and Cd8 enables coordinate gene regulation. Immunity (2011) 1.02
Epigenetic regulation of satellite cell activation during muscle regeneration. Stem Cell Res Ther (2011) 1.01
Retinoic acid enhances skeletal myogenesis in human embryonic stem cells by expanding the premyogenic progenitor population. Stem Cell Rev (2012) 1.00
SFMBT1 functions with LSD1 to regulate expression of canonical histone genes and chromatin-related factors. Genes Dev (2013) 0.97
Photon-mediated interactions between distant artificial atoms. Science (2013) 0.97
PGC-1-related coactivator (PRC), a sensor of metabolic stress, orchestrates a redox-sensitive program of inflammatory gene expression. J Biol Chem (2011) 0.95
Unraveling condition specific gene transcriptional regulatory networks in Saccharomyces cerevisiae. BMC Bioinformatics (2006) 0.95
VDA, a method of choosing a better algorithm with fewer validations. PLoS One (2011) 0.94
Ten years of genetics and genomics: what have we achieved and where are we heading? Nat Rev Genet (2010) 0.93
The Rb/E2F pathway modulates neurogenesis through direct regulation of the Dlx1/Dlx2 bigene cluster. J Neurosci (2012) 0.93
The RAG2 C-terminus and ATM protect genome integrity by controlling antigen receptor gene cleavage. Nat Commun (2013) 0.92
Lipin - The bridge between hepatic glycerolipid biosynthesis and lipoprotein metabolism. Biochim Biophys Acta (2010) 0.90
Higher-order looping and nuclear organization of Tcra facilitate targeted rag cleavage and regulated rearrangement in recombination centers. Cell Rep (2013) 0.90
Crystal structure of the trithorax group protein ASH2L reveals a forkhead-like DNA binding domain. Nat Struct Mol Biol (2011) 0.90
A p⁴ report: effect of curriculum innovation on residency applications and match performance. Fam Med (2011) 0.89
Plasma cell-free DNA as an indicator of severity of injury in burn patients. Clin Chem Lab Med (2006) 0.88
Discovery, optimization and validation of an optimal DNA-binding sequence for the Six1 homeodomain transcription factor. Nucleic Acids Res (2012) 0.88
Self-reported racial discrimination, response to unfair treatment, and coronary calcification in asymptomatic adults--the North Texas Healthy Heart study. BMC Public Health (2010) 0.88
Six1 regulates MyoD expression in adult muscle progenitor cells. PLoS One (2013) 0.87
Differential (18)F-FDG and 3'-deoxy-3'-(18)F-fluorothymidine PET responses to pharmacologic inhibition of the c-MET receptor in preclinical tumor models. J Nucl Med (2011) 0.87
Prevalence rate of myopia in schoolchildren in rural Mongolia. Optom Vis Sci (2006) 0.87