Published in Mob Genet Elements on March 01, 2013
Genome-wide distribution of RNA-DNA hybrids identifies RNase H targets in tRNA genes, retrotransposons and mitochondria. PLoS Genet (2014) 1.08
The Ty1 LTR-retrotransposon of budding yeast, Saccharomyces cerevisiae. Microbiol Spectr (2015) 0.86
Determinants of Genomic RNA Encapsidation in the Saccharomyces cerevisiae Long Terminal Repeat Retrotransposons Ty1 and Ty3. Viruses (2016) 0.77
Characterizing the functions of Ty1 Gag and the Gag-derived restriction factor p22/p18. Mob Genet Elements (2016) 0.75
Multiple molecular determinants for retrotransposition in a primer tRNA. Mol Cell Biol (1995) 4.95
Initiator methionine tRNA is essential for Ty1 transposition in yeast. Proc Natl Acad Sci U S A (1992) 2.03
Automated 3D structure composition for large RNAs. Nucleic Acids Res (2012) 1.85
Structural determinants and mechanism of HIV-1 genome packaging. J Mol Biol (2011) 1.83
Localization of sequences required in cis for yeast Ty1 element transposition near the long terminal repeats: analysis of mini-Ty1 elements. Mol Cell Biol (1990) 1.55
Definition of a high-affinity Gag recognition structure mediating packaging of a retroviral RNA genome. Proc Natl Acad Sci U S A (2010) 1.46
The GAG-like protein of the yeast Ty1 retrotransposon contains a nucleic acid chaperone domain analogous to retroviral nucleocapsid proteins. J Biol Chem (2000) 1.39
Extended interactions between the primer tRNAi(Met) and genomic RNA of the yeast Ty1 retrotransposon. Nucleic Acids Res (1996) 1.26
A 5'-3' long-range interaction in Ty1 RNA controls its reverse transcription and retrotransposition. EMBO J (2002) 1.20
The genomic RNA in Ty1 virus-like particles is dimeric. J Virol (2000) 1.14
Posttranslational interference of Ty1 retrotransposition by antisense RNAs. Proc Natl Acad Sci U S A (2009) 1.07
Identification and characterization of critical cis-acting sequences within the yeast Ty1 retrotransposon. RNA (2005) 0.98
Exploring Ty1 retrotransposon RNA structure within virus-like particles. Nucleic Acids Res (2012) 0.95
The in vitro loose dimer structure and rearrangements of the HIV-2 leader RNA. Nucleic Acids Res (2011) 0.94
Retrotransposon Ty1 RNA contains a 5'-terminal long-range pseudoknot required for efficient reverse transcription. RNA (2013) 0.89
Ty1 gag enhances the stability and nuclear export of Ty1 mRNA. Traffic (2012) 0.85
Sequence requirements for localization and packaging of Ty3 retroelement RNA. Virus Res (2012) 0.79
Functional profiling of the Saccharomyces cerevisiae genome. Nature (2002) 36.10
Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets. Nat Genet (2006) 6.74
A DNA integrity network in the yeast Saccharomyces cerevisiae. Cell (2006) 6.61
Transcriptional disruption by the L1 retrotransposon and implications for mammalian transcriptomes. Nature (2004) 5.15
Human l1 retrotransposition is associated with genetic instability in vivo. Cell (2002) 4.79
A robust toolkit for functional profiling of the yeast genome. Mol Cell (2004) 4.69
The biochemistry of sirtuins. Annu Rev Biochem (2006) 4.32
SIRT3, a human SIR2 homologue, is an NAD-dependent deacetylase localized to mitochondria. Proc Natl Acad Sci U S A (2002) 4.27
DNA helicase gene interaction network defined using synthetic lethality analyzed by microarray. Nat Genet (2003) 4.14
Mobile interspersed repeats are major structural variants in the human genome. Cell (2010) 3.60
Human L1 element target-primed reverse transcription in vitro. EMBO J (2002) 3.54
The sirtuins hst3 and Hst4p preserve genome integrity by controlling histone h3 lysine 56 deacetylation. Curr Biol (2006) 3.37
Total synthesis of a functional designer eukaryotic chromosome. Science (2014) 3.31
Nucleocytosolic acetyl-coenzyme a synthetase is required for histone acetylation and global transcription. Mol Cell (2006) 3.22
Mighty Piwis defend the germline against genome intruders. Cell (2007) 3.06
Protein acetylation microarray reveals that NuA4 controls key metabolic target regulating gluconeogenesis. Cell (2009) 2.99
Dynamic binding orientations direct activity of HIV reverse transcriptase. Nature (2008) 2.94
Synthetic chromosome arms function in yeast and generate phenotypic diversity by design. Nature (2011) 2.81
Functional genomics of genes with small open reading frames (sORFs) in S. cerevisiae. Genome Res (2006) 2.81
Slide into action: dynamic shuttling of HIV reverse transcriptase on nucleic acid substrates. Science (2008) 2.78
Regulated nucleosome mobility and the histone code. Nat Struct Mol Biol (2004) 2.76
A core nucleosome surface crucial for transcriptional silencing. Nat Genet (2002) 2.67
A highly active synthetic mammalian retrotransposon. Nature (2004) 2.51
Toward a comprehensive temperature-sensitive mutant repository of the essential genes of Saccharomyces cerevisiae. Mol Cell (2008) 2.39
Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae. Mol Cell Biol (2005) 2.33
LINE-1 retrotransposons: modulators of quantity and quality of mammalian gene expression? Bioessays (2005) 2.24
Molecular archeology of L1 insertions in the human genome. Genome Biol (2002) 2.14
Glucose and weight control in mice with a designed ghrelin O-acyltransferase inhibitor. Science (2010) 2.12
Acetylation of yeast AMPK controls intrinsic aging independently of caloric restriction. Cell (2011) 2.10
Orientation-dependent regulation of integrated HIV-1 expression by host gene transcriptional readthrough. Cell Host Microbe (2008) 2.08
Gene function prediction from congruent synthetic lethal interactions in yeast. Mol Syst Biol (2005) 2.04
A comprehensive synthetic genetic interaction network governing yeast histone acetylation and deacetylation. Genes Dev (2008) 2.01
Structure of a Sir2 enzyme bound to an acetylated p53 peptide. Mol Cell (2002) 2.00
Probing nucleosome function: a highly versatile library of synthetic histone H3 and H4 mutants. Cell (2008) 1.99
Transposon-mediated genome manipulation in vertebrates. Nat Methods (2009) 1.96
Lysine succinylation and lysine malonylation in histones. Mol Cell Proteomics (2012) 1.95
Genome-wide identification of Isw2 chromatin-remodeling targets by localization of a catalytically inactive mutant. Genes Dev (2005) 1.92
GeneDesign: rapid, automated design of multikilobase synthetic genes. Genome Res (2006) 1.87
A fluorescence-based high-throughput screening assay for inhibitors of human immunodeficiency virus-1 reverse transcriptase-associated ribonuclease H activity. Anal Biochem (2003) 1.87
Global synthetic-lethality analysis and yeast functional profiling. Trends Genet (2005) 1.82
Human transposon tectonics. Cell (2012) 1.81
Genome-wide consequences of deleting any single gene. Mol Cell (2013) 1.76
Selective inhibition of HIV-1 reverse transcriptase-associated ribonuclease H activity by hydroxylated tropolones. Nucleic Acids Res (2005) 1.75
Short-chain fatty acid activation by acyl-coenzyme A synthetases requires SIR2 protein function in Salmonella enterica and Saccharomyces cerevisiae. Genetics (2003) 1.73
Transcriptional interactions between yeast tRNA genes, flanking genes and Ty elements: a genomic point of view. Genome Res (2003) 1.71
Rapid identification of monospecific monoclonal antibodies using a human proteome microarray. Mol Cell Proteomics (2012) 1.65
Altering the RNase H primer grip of human immunodeficiency virus reverse transcriptase modifies cleavage specificity. Biochemistry (2002) 1.64
Polyubiquitin-sensor proteins reveal localization and linkage-type dependence of cellular ubiquitin signaling. Nat Methods (2012) 1.62
Finding friends and enemies in an enemies-only network: a graph diffusion kernel for predicting novel genetic interactions and co-complex membership from yeast genetic interactions. Genome Res (2008) 1.61
Telomeric and rDNA silencing in Saccharomyces cerevisiae are dependent on a nuclear NAD(+) salvage pathway. Genetics (2002) 1.60
Gene-breaking: a new paradigm for human retrotransposon-mediated gene evolution. Genome Res (2005) 1.58
Microarray-based genetic screen defines SAW1, a gene required for Rad1/Rad10-dependent processing of recombination intermediates. Mol Cell (2008) 1.56
A cis-acting element in retroviral genomic RNA links Gag-Pol ribosomal frameshifting to selective viral RNA encapsidation. Cell Host Microbe (2013) 1.56
Multimode, cooperative mechanism of action of allosteric HIV-1 integrase inhibitors. J Biol Chem (2012) 1.55
A microarray-based genetic screen for yeast chronological aging factors. PLoS Genet (2010) 1.53
Efficient Tor signaling requires a functional class C Vps protein complex in Saccharomyces cerevisiae. Genetics (2007) 1.52
Active transposition in genomes. Annu Rev Genet (2012) 1.51
Active retrotransposition by a synthetic L1 element in mice. Proc Natl Acad Sci U S A (2006) 1.48
'Binding, bending and bonding': polypurine tract-primed initiation of plus-strand DNA synthesis in human immunodeficiency virus. Int J Biochem Cell Biol (2004) 1.46
Use of mixture models in a microarray-based screening procedure for detecting differentially represented yeast mutants. Stat Appl Genet Mol Biol (2003) 1.45
Pre-existing distortions in nucleic acid structure aid polypurine tract selection by HIV-1 reverse transcriptase. J Biol Chem (2002) 1.45
Teaching synthetic biology, bioinformatics and engineering to undergraduates: the interdisciplinary Build-a-Genome course. Genetics (2008) 1.41
Using pyrrolo-deoxycytosine to probe RNA/DNA hybrids containing the human immunodeficiency virus type-1 3' polypurine tract. Nucleic Acids Res (2004) 1.39
Structural basis for the mechanism and regulation of Sir2 enzymes. Mol Cell (2004) 1.37
Affinity proteomics reveals human host factors implicated in discrete stages of LINE-1 retrotransposition. Cell (2013) 1.34
Reconstitution of papillomavirus E2-mediated plasmid maintenance in Saccharomyces cerevisiae by the Brd4 bromodomain protein. Proc Natl Acad Sci U S A (2005) 1.34
TFIIIB subunit Bdp1p is required for periodic integration of the Ty1 retrotransposon and targeting of Isw2p to S. cerevisiae tDNAs. Genes Dev (2005) 1.33
Retracted Functional dissection of lysine deacetylases reveals that HDAC1 and p300 regulate AMPK. Nature (2012) 1.29
dSLAM analysis of genome-wide genetic interactions in Saccharomyces cerevisiae. Methods (2007) 1.28
Identification of specific HIV-1 reverse transcriptase contacts to the viral RNA:tRNA complex by mass spectrometry and a primary amine selective reagent. Proc Natl Acad Sci U S A (2002) 1.26
An unusual topological structure of the HIV-1 Rev response element. Cell (2013) 1.26
P-body components are required for Ty1 retrotransposition during assembly of retrotransposition-competent virus-like particles. Mol Cell Biol (2009) 1.25
Synthesis, activity, and structural analysis of novel α-hydroxytropolone inhibitors of human immunodeficiency virus reverse transcriptase-associated ribonuclease H. J Med Chem (2011) 1.24
Resistance to RevM10 inhibition reflects a conformational switch in the HIV-1 Rev response element. Proc Natl Acad Sci U S A (2008) 1.22
Local definition of Ty1 target preference by long terminal repeats and clustered tRNA genes. Genome Res (2004) 1.21
Improved microarray methods for profiling the Yeast Knockout strain collection. Nucleic Acids Res (2005) 1.21
Chromatin-associated genes protect the yeast genome from Ty1 insertional mutagenesis. Genetics (2008) 1.19
Dissecting APOBEC3G substrate specificity by nucleoside analog interference. J Biol Chem (2009) 1.17
Histone H3 K56 hyperacetylation perturbs replisomes and causes DNA damage. Genetics (2008) 1.16
Inhibition of reverse transcription in vivo by elevated manganese ion concentration. Mol Cell (2002) 1.16
Retrotransposon Ty1 integration targets specifically positioned asymmetric nucleosomal DNA segments in tRNA hotspots. Genome Res (2012) 1.16
Initiation complex dynamics direct the transitions between distinct phases of early HIV reverse transcription. Nat Struct Mol Biol (2010) 1.15
Mutations in the ribonuclease H active site of HIV-RT reveal a role for this site in stabilizing enzyme-primer-template binding. Biochemistry (2002) 1.15
Transposon insertion site profiling chip (TIP-chip). Proc Natl Acad Sci U S A (2006) 1.14
Specificity of the BRISC deubiquitinating enzyme is not due to selective binding to Lys63-linked polyubiquitin. J Biol Chem (2009) 1.13
Identification of an inhibitor-binding site to HIV-1 integrase with affinity acetylation and mass spectrometry. Proc Natl Acad Sci U S A (2004) 1.13
A Sleeping Beauty mutagenesis screen reveals a tumor suppressor role for Ncoa2/Src-2 in liver cancer. Proc Natl Acad Sci U S A (2012) 1.12
SIR2 family of NAD(+)-dependent protein deacetylases. Methods Enzymol (2002) 1.09
Multiple sources of contamination in samples from patients reported to have XMRV infection. PLoS One (2012) 1.08
Role of the Reverse Transcriptase, Nucleocapsid Protein, and Template Structure in the Two-step Transfer Mechanism in Retroviral Recombination. J Biol Chem (2003) 1.07
Posttranslational interference of Ty1 retrotransposition by antisense RNAs. Proc Natl Acad Sci U S A (2009) 1.07
The LRS and SIN domains: two structurally equivalent but functionally distinct nucleosomal surfaces required for transcriptional silencing. Mol Cell Biol (2006) 1.06
Mutations M184V and Y115F in HIV-1 reverse transcriptase discriminate against "nucleotide-competing reverse transcriptase inhibitors". J Biol Chem (2008) 1.06
Ty1 mobilizes subtelomeric Y' elements in telomerase-negative Saccharomyces cerevisiae survivors. Mol Cell Biol (2004) 1.05
Effect of reverse transcriptase inhibitors on LINE-1 and Ty1 reverse transcriptase activities and on LINE-1 retrotransposition. BMC Biochem (2011) 1.05
GeneDesign 3.0 is an updated synthetic biology toolkit. Nucleic Acids Res (2010) 1.05
The RNA transport element of the murine musD retrotransposon requires long-range intramolecular interactions for function. J Biol Chem (2010) 1.04
HistoneHits: a database for histone mutations and their phenotypes. Genome Res (2009) 1.04
Structure-activity analysis of vinylogous urea inhibitors of human immunodeficiency virus-encoded ribonuclease H. Antimicrob Agents Chemother (2010) 1.03