Published in PLoS One on March 08, 2013
A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells. Elife (2014) 1.10
Regulation of mRNA translation during mitosis. Elife (2015) 1.00
Nanoparticle growth and surface chemistry changes in cell-conditioned culture medium. Philos Trans R Soc Lond B Biol Sci (2015) 0.77
Graded requirement for the spliceosome in cell cycle progression. Cell Cycle (2015) 0.75
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc (2009) 137.99
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res (2008) 54.83
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol (2008) 38.00
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteomics (2002) 30.58
Lysine acetylation targets protein complexes and co-regulates major cellular functions. Science (2009) 20.49
Identification of genes periodically expressed in the human cell cycle and their expression in tumors. Mol Biol Cell (2002) 17.32
In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nat Protoc (2006) 16.56
Andromeda: a peptide search engine integrated into the MaxQuant environment. J Proteome Res (2011) 14.82
DNA replication in eukaryotic cells. Annu Rev Biochem (2001) 13.39
Understanding alternative splicing: towards a cellular code. Nat Rev Mol Cell Biol (2005) 13.21
A quantitative atlas of mitotic phosphorylation. Proc Natl Acad Sci U S A (2008) 10.07
Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. Sci Signal (2010) 8.61
A 20S complex containing CDC27 and CDC16 catalyzes the mitosis-specific conjugation of ubiquitin to cyclin B. Cell (1995) 8.34
Systematic and quantitative assessment of the ubiquitin-modified proteome. Mol Cell (2011) 7.30
Geminin, an inhibitor of DNA replication, is degraded during mitosis. Cell (1998) 6.69
The cyclosome, a large complex containing cyclin-selective ubiquitin ligase activity, targets cyclins for destruction at the end of mitosis. Mol Biol Cell (1995) 6.23
Analysis of promoter binding by the E2F and pRB families in vivo: distinct E2F proteins mediate activation and repression. Genes Dev (2000) 6.07
Transcriptional regulation and function during the human cell cycle. Nat Genet (2001) 5.89
A family of diverse Cul4-Ddb1-interacting proteins includes Cdt2, which is required for S phase destruction of the replication factor Cdt1. Mol Cell (2006) 5.51
Deep proteome and transcriptome mapping of a human cancer cell line. Mol Syst Biol (2011) 5.48
Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. Mol Cell (2008) 5.38
A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. Mol Cell Proteomics (2011) 4.40
Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry. Proc Natl Acad Sci U S A (2007) 4.01
The protein that binds the 3' end of histone mRNA: a novel RNA-binding protein required for histone pre-mRNA processing. Genes Dev (1996) 3.99
Intronic binding sites for hnRNP A/B and hnRNP F/H proteins stimulate pre-mRNA splicing. PLoS Biol (2006) 3.99
Two E3 ubiquitin ligases, SCF-Skp2 and DDB1-Cul4, target human Cdt1 for proteolysis. EMBO J (2006) 3.53
Exon identity established through differential antagonism between exonic splicing silencer-bound hnRNP A1 and enhancer-bound SR proteins. Mol Cell (2001) 3.34
PCNA functions as a molecular platform to trigger Cdt1 destruction and prevent re-replication. Nat Cell Biol (2005) 3.18
Profiling of UV-induced ATM/ATR signaling pathways. Proc Natl Acad Sci U S A (2007) 3.12
PCNA is a cofactor for Cdt1 degradation by CUL4/DDB1-mediated N-terminal ubiquitination. J Biol Chem (2006) 2.96
Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. Sci Signal (2009) 2.92
Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins. Cell Rep (2012) 2.76
Cell cycle- and cell growth-regulated proteolysis of mammalian CDC6 is dependent on APC-CDH1. Genes Dev (2000) 2.58
A genome-wide homologous recombination screen identifies the RNA-binding protein RBMX as a component of the DNA-damage response. Nat Cell Biol (2012) 2.51
A quantitative spatial proteomics analysis of proteome turnover in human cells. Mol Cell Proteomics (2011) 2.22
Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. Anal Chem (2009) 2.10
Dynamic protein-protein interaction wiring of the human spliceosome. Mol Cell (2012) 2.04
Differential inhibition of calpain and proteasome activities by peptidyl aldehydes of di-leucine and tri-leucine. J Biochem (1996) 2.00
An open-label, single-arm, phase 2 study of single-agent carfilzomib in patients with relapsed and/or refractory multiple myeloma who have been previously treated with bortezomib. Br J Haematol (2012) 1.94
An evolutionarily conserved function of proliferating cell nuclear antigen for Cdt1 degradation by the Cul4-Ddb1 ubiquitin ligase in response to DNA damage. J Biol Chem (2006) 1.90
Controlled protein degradation regulates ribonucleotide reductase activity in proliferating mammalian cells during the normal cell cycle and in response to DNA damage and replication blocks. J Biol Chem (2000) 1.87
Deregulated overexpression of hCdt1 and hCdc6 promotes malignant behavior. Cancer Res (2007) 1.79
Mouse ribonucleotide reductase R2 protein: a new target for anaphase-promoting complex-Cdh1-mediated proteolysis. Proc Natl Acad Sci U S A (2003) 1.77
An exonic splicing silencer represses spliceosome assembly after ATP-dependent exon recognition. Nat Struct Mol Biol (2006) 1.76
Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis. J Proteome Res (2008) 1.67
Oncogenic potential of the DNA replication licensing protein CDT1. Oncogene (2002) 1.62
Phosphorylation of stem-loop binding protein (SLBP) on two threonines triggers degradation of SLBP, the sole cell cycle-regulated factor required for regulation of histone mRNA processing, at the end of S phase. Mol Cell Biol (2003) 1.61
Amino acid residue specific stable isotope labeling for quantitative proteomics. Rapid Commun Mass Spectrom (2002) 1.54
Identification of CDK2 substrates in human cell lysates. Genome Biol (2008) 1.52
Recruitment of the cell cycle checkpoint kinase ATR to chromatin during S-phase. J Biol Chem (2004) 1.51
Cyclebase.org--a comprehensive multi-organism online database of cell-cycle experiments. Nucleic Acids Res (2007) 1.50
The regulated association of Cdt1 with minichromosome maintenance proteins and Cdc6 in mammalian cells. J Biol Chem (2003) 1.46
A general role for splicing enhancers in exon definition. RNA (2002) 1.43
Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules. Nat Struct Mol Biol (2012) 1.36
Site-specific mass tagging with stable isotopes in proteins for accurate and efficient protein identification. Anal Chem (2000) 1.32
Cdt1 and geminin are down-regulated upon cell cycle exit and are over-expressed in cancer-derived cell lines. Eur J Biochem (2004) 1.27
Phosphorylation of threonine 61 by cyclin a/Cdk1 triggers degradation of stem-loop binding protein at the end of S phase. Mol Cell Biol (2008) 1.27
S Phase-specific transcription of the mouse ribonucleotide reductase R2 gene requires both a proximal repressive E2F-binding site and an upstream promoter activating region. J Biol Chem (2003) 1.27
Pointed-end capping by tropomodulin3 negatively regulates endothelial cell motility. J Cell Biol (2003) 1.21
Cyclebase.org: version 2.0, an updated comprehensive, multi-species repository of cell cycle experiments and derived analysis results. Nucleic Acids Res (2009) 1.20
Purification and characterization of a Z-Leu-Leu-Leu-MCA degrading protease expected to regulate neurite formation: a novel catalytic activity in proteasome. Biochem Biophys Res Commun (1993) 1.13
Automated phosphoproteome analysis for cultured cancer cells by two-dimensional nanoLC-MS using a calcined titania/C18 biphasic column. Anal Sci (2008) 1.08
The effect of MG132, a proteasome inhibitor on HeLa cells in relation to cell growth, reactive oxygen species and GSH. Oncol Rep (2009) 1.04
Mechanistic control of carcinoembryonic antigen-related cell adhesion molecule-1 (CEACAM1) splice isoforms by the heterogeneous nuclear ribonuclear proteins hnRNP L, hnRNP A1, and hnRNP M. J Biol Chem (2011) 0.97
Coordinate regulation of histone mRNA metabolism and DNA replication: cyclin A/cdk1 is involved in inactivation of histone mRNA metabolism and DNA replication at the end of S phase. Cell Cycle (2010) 0.94
Carfilzomib: in relapsed, or relapsed and refractory, multiple myeloma. Drugs (2012) 0.89
Landscape of transcription in human cells. Nature (2012) 20.18
Regulation of cellular metabolism by protein lysine acetylation. Science (2010) 10.55
Circular RNAs are abundant, conserved, and associated with ALU repeats. RNA (2012) 5.16
Degradation of histone mRNA requires oligouridylation followed by decapping and simultaneous degradation of the mRNA both 5' to 3' and 3' to 5'. Genes Dev (2008) 3.30
Long noncoding RNAs are rarely translated in two human cell lines. Genome Res (2012) 2.64
The polyadenylation factor CPSF-73 is involved in histone-pre-mRNA processing. Cell (2005) 2.37
Regulated degradation of replication-dependent histone mRNAs requires both ATR and Upf1. Nat Struct Mol Biol (2005) 2.34
A 3' exonuclease that specifically interacts with the 3' end of histone mRNA. Mol Cell (2003) 2.24
Enhanced reversibility and unusual microstructure of a phase-transforming material. Nature (2013) 2.21
Formation of the 3' end of histone mRNA: getting closer to the end. Gene (2007) 2.07
The stem-loop binding protein is required for efficient translation of histone mRNA in vivo and in vitro. Mol Cell Biol (2002) 1.84
A unified phylogeny-based nomenclature for histone variants. Epigenetics Chromatin (2012) 1.82
Comprehensive proteomic profiling of the membrane constituents of a Mycobacterium tuberculosis strain. Mol Cell Proteomics (2003) 1.77
Rare codons regulate KRas oncogenesis. Curr Biol (2012) 1.74
Mycobacterium tuberculosis functional network analysis by global subcellular protein profiling. Mol Biol Cell (2004) 1.73
A genome-wide RNA interference screen reveals that variant histones are necessary for replication-dependent histone pre-mRNA processing. Mol Cell (2007) 1.71
Cdc6 stability is regulated by the Huwe1 ubiquitin ligase after DNA damage. Mol Biol Cell (2007) 1.65
A CPSF-73 homologue is required for cell cycle progression but not cell growth and interacts with a protein having features of CPSF-100. Mol Cell Biol (2005) 1.65
Phosphorylation of stem-loop binding protein (SLBP) on two threonines triggers degradation of SLBP, the sole cell cycle-regulated factor required for regulation of histone mRNA processing, at the end of S phase. Mol Cell Biol (2003) 1.61
Developmental control of histone mRNA and dSLBP synthesis during Drosophila embryogenesis and the role of dSLBP in histone mRNA 3' end processing in vivo. Mol Cell Biol (2002) 1.59
Amino acid residue specific stable isotope labeling for quantitative proteomics. Rapid Commun Mass Spectrom (2002) 1.54
A novel zinc finger protein is associated with U7 snRNP and interacts with the stem-loop binding protein in the histone pre-mRNP to stimulate 3'-end processing. Genes Dev (2002) 1.49
FLASH, a proapoptotic protein involved in activation of caspase-8, is essential for 3' end processing of histone pre-mRNAs. Mol Cell (2009) 1.49
The histone 3'-terminal stem-loop-binding protein enhances translation through a functional and physical interaction with eukaryotic initiation factor 4G (eIF4G) and eIF3. Mol Cell Biol (2002) 1.48
Novel potent human ether-a-go-go-related gene (hERG) potassium channel enhancers and their in vitro antiarrhythmic activity. Mol Pharmacol (2005) 1.47
Inhibition of histone deacetylases potentiates BMP9-induced osteogenic signaling in mouse mesenchymal stem cells. Cell Physiol Biochem (2013) 1.47
Modifications of superoxide dismutase (SOD1) in human erythrocytes: a possible role in amyotrophic lateral sclerosis. J Biol Chem (2009) 1.46
The mitochondrial proteins NLRX1 and TUFM form a complex that regulates type I interferon and autophagy. Immunity (2012) 1.44
Inactivation of a bacterial virulence pheromone by phagocyte-derived oxidants: new role for the NADPH oxidase in host defense. Proc Natl Acad Sci U S A (2004) 1.42
Staged assembly of histone gene expression machinery at subnuclear foci in the abbreviated cell cycle of human embryonic stem cells. Proc Natl Acad Sci U S A (2008) 1.41
Jmjd1a demethylase-regulated histone modification is essential for cAMP-response element modulator-regulated gene expression and spermatogenesis. J Biol Chem (2009) 1.38
Whole human genome proteogenomic mapping for ENCODE cell line data: identifying protein-coding regions. BMC Genomics (2013) 1.38
Human immunodeficiency virus type 1 Vpr-binding protein VprBP, a WD40 protein associated with the DDB1-CUL4 E3 ubiquitin ligase, is essential for DNA replication and embryonic development. Mol Cell Biol (2008) 1.36
Knockdown of SLBP results in nuclear retention of histone mRNA. RNA (2009) 1.36
A core complex of CPSF73, CPSF100, and Symplekin may form two different cleavage factors for processing of poly(A) and histone mRNAs. Mol Cell (2009) 1.35
Characterization of 3'hExo, a 3' exonuclease specifically interacting with the 3' end of histone mRNA. J Biol Chem (2006) 1.33
SLIP1, a factor required for activation of histone mRNA translation by the stem-loop binding protein. Mol Cell Biol (2007) 1.33
Translation termination is involved in histone mRNA degradation when DNA replication is inhibited. Mol Cell Biol (2005) 1.30
Developmental and cell cycle regulation of the Drosophila histone locus body. Mol Biol Cell (2007) 1.30
Structural characterization of formaldehyde-induced cross-links between amino acids and deoxynucleosides and their oligomers. J Am Chem Soc (2010) 1.28
Nuclear autoantigenic sperm protein (NASP), a linker histone chaperone that is required for cell proliferation. J Biol Chem (2006) 1.28
Phosphorylation of threonine 61 by cyclin a/Cdk1 triggers degradation of stem-loop binding protein at the end of S phase. Mol Cell Biol (2008) 1.27
Drosophila histone locus bodies form by hierarchical recruitment of components. J Cell Biol (2011) 1.25
Nuclear import of the stem-loop binding protein and localization during the cell cycle. Mol Biol Cell (2005) 1.25
Genome-wide analysis of mRNAs bound to the histone stem-loop binding protein. RNA (2006) 1.25
PUMA overexpression induces reactive oxygen species generation and proteasome-mediated stathmin degradation in colorectal cancer cells. Cancer Res (2005) 1.23
Pentamidine reduces hERG expression to prolong the QT interval. Br J Pharmacol (2005) 1.23
Origin licensing and p53 status regulate Cdk2 activity during G(1). Cell Cycle (2009) 1.20
U7 snRNA mutations in Drosophila block histone pre-mRNA processing and disrupt oogenesis. RNA (2006) 1.20
Combined top-down and bottom-up proteomics identifies a phosphorylation site in stem-loop-binding proteins that contributes to high-affinity RNA binding. Proc Natl Acad Sci U S A (2006) 1.20
Steroid receptor coactivator 3 maintains circulating insulin-like growth factor I (IGF-I) by controlling IGF-binding protein 3 expression. Mol Cell Biol (2008) 1.17
SLBP is associated with histone mRNA on polyribosomes as a component of the histone mRNP. Nucleic Acids Res (2004) 1.16
HDA18 affects cell fate in Arabidopsis root epidermis via histone acetylation at four kinase genes. Plant Cell (2013) 1.16
Drosophila stem-loop binding protein intracellular localization is mediated by phosphorylation and is required for cell cycle-regulated histone mRNA expression. Mol Biol Cell (2004) 1.15
Prolactin modulates the naive B cell repertoire. J Clin Invest (2003) 1.14
Thermodynamics of the fragile X mental retardation protein RGG box interactions with G quartet forming RNA. Biochemistry (2006) 1.14
Comparative proteomic analysis of all-trans-retinoic acid treatment reveals systematic posttranscriptional control mechanisms in acute promyelocytic leukemia. Blood (2004) 1.13
A subset of Drosophila integrator proteins is essential for efficient U7 snRNA and spliceosomal snRNA 3'-end formation. Mol Cell Biol (2010) 1.13
A Golgi-localized hexose transporter is involved in heterotrimeric G protein-mediated early development in Arabidopsis. Mol Biol Cell (2006) 1.11
Replication licensing promotes cyclin D1 expression and G1 progression in untransformed human cells. Cell Cycle (2009) 1.11
Flightless I homolog negatively modulates the TLR pathway. J Immunol (2006) 1.11
3' end processing of Drosophila melanogaster histone pre-mRNAs: requirement for phosphorylated Drosophila stem-loop binding protein and coevolution of the histone pre-mRNA processing system. Mol Cell Biol (2002) 1.10
A new and facile synthesis of quinazoline-2,4(1H,3H)-diones. Org Lett (2009) 1.10
Systematic reconstruction of RNA functional motifs with high-throughput microfluidics. Nat Methods (2012) 1.09
Steroid receptor coactivator-1 upregulates integrin α₅ expression to promote breast cancer cell adhesion and migration. Cancer Res (2011) 1.08
ZFP100, a component of the active U7 snRNP limiting for histone pre-mRNA processing, is required for entry into S phase. Mol Cell Biol (2006) 1.07
Structure of histone mRNA stem-loop, human stem-loop binding protein, and 3'hExo ternary complex. Science (2013) 1.07
Nuclear export of metazoan replication-dependent histone mRNAs is dependent on RNA length and is mediated by TAP. RNA (2005) 1.06
Modulation of TLR signaling by multiple MyD88-interacting partners including leucine-rich repeat Fli-I-interacting proteins. J Immunol (2009) 1.06
Stress-stimulated mitogen-activated protein kinases control the stability and activity of the Cdt1 DNA replication licensing factor. Mol Cell Biol (2011) 1.06
Amino acid-coded tagging approaches in quantitative proteomics. Expert Rev Proteomics (2007) 1.06
The dynamic alterations of H2AX complex during DNA repair detected by a proteomic approach reveal the critical roles of Ca(2+)/calmodulin in the ionizing radiation-induced cell cycle arrest. Mol Cell Proteomics (2006) 1.06
Studies of the 5' exonuclease and endonuclease activities of CPSF-73 in histone pre-mRNA processing. Mol Cell Biol (2008) 1.06
Cloning and characterization of the Drosophila U7 small nuclear RNA. Proc Natl Acad Sci U S A (2003) 1.06
Synthesis of metal-selenide nanocrystals using selenium dioxide as the selenium precursor. Angew Chem Int Ed Engl (2008) 1.06
Nucleosomes in the neighborhood: new roles for chromatin modifications in replication origin control. Epigenetics (2011) 1.05
Recruitment of the human Cdt1 replication licensing protein by the loop domain of Hec1 is required for stable kinetochore-microtubule attachment. Nat Cell Biol (2012) 1.05
In vivo dual-tagging proteomic approach in studying signaling pathways in immune response. J Proteome Res (2005) 1.04
Cdt1 and Cdc6 are destabilized by rereplication-induced DNA damage. J Biol Chem (2008) 1.02
A complex containing the CPSF73 endonuclease and other polyadenylation factors associates with U7 snRNP and is recruited to histone pre-mRNA for 3'-end processing. Mol Cell Biol (2012) 1.01
Improvement of image quality and radiation dose of CT perfusion of the brain by means of low-tube voltage (70 KV). Eur Radiol (2014) 1.00
Crosstalk between Wnt/β-catenin and estrogen receptor signaling synergistically promotes osteogenic differentiation of mesenchymal progenitor cells. PLoS One (2013) 1.00
S100A8 and S100A9 are associated with colorectal carcinoma progression and contribute to colorectal carcinoma cell survival and migration via Wnt/β-catenin pathway. PLoS One (2013) 0.99
An RNAi screen identifies additional members of the Drosophila Integrator complex and a requirement for cyclin C/Cdk8 in snRNA 3'-end formation. RNA (2012) 0.98
mRNAs containing the histone 3' stem-loop are degraded primarily by decapping mediated by oligouridylation of the 3' end. RNA (2012) 0.98
Interaction of the histone mRNA hairpin with stem-loop binding protein (SLBP) and regulation of the SLBP-RNA complex by phosphorylation and proline isomerization. Biochemistry (2012) 0.98
Noggin resistance contributes to the potent osteogenic capability of BMP9 in mesenchymal stem cells. J Orthop Res (2013) 0.98
Global investigation of p53-induced apoptosis through quantitative proteomic profiling using comparative amino acid-coded tagging. Mol Cell Proteomics (2004) 0.98
Interaction between FLASH and Lsm11 is essential for histone pre-mRNA processing in vivo in Drosophila. RNA (2011) 0.97
Stem-loop binding protein accumulates during oocyte maturation and is not cell-cycle-regulated in the early mouse embryo. J Cell Sci (2002) 0.97
Three proteins of the U7-specific Sm ring function as the molecular ruler to determine the site of 3'-end processing in mammalian histone pre-mRNA. Mol Cell Biol (2009) 0.96
Upconverting near-infrared light through energy management in core-shell-shell nanoparticles. Angew Chem Int Ed Engl (2013) 0.96
SRC-2 coactivator deficiency decreases functional reserve in response to pressure overload of mouse heart. PLoS One (2012) 0.96