Published in Nat Rev Microbiol on November 01, 2005
Insertional oncogenesis in 4 patients after retrovirus-mediated gene therapy of SCID-X1. J Clin Invest (2008) 9.42
HIV integration site selection: analysis by massively parallel pyrosequencing reveals association with epigenetic modifications. Genome Res (2007) 4.72
LEDGF/p75 functions downstream from preintegration complex formation to effect gene-specific HIV-1 integration. Genes Dev (2007) 3.96
Molecular evolution of a novel hyperactive Sleeping Beauty transposase enables robust stable gene transfer in vertebrates. Nat Genet (2009) 3.86
The genotoxic potential of retroviral vectors is strongly modulated by vector design and integration site selection in a mouse model of HSC gene therapy. J Clin Invest (2009) 3.34
Selection of target sites for mobile DNA integration in the human genome. PLoS Comput Biol (2006) 3.21
HIV latency. Proliferation of cells with HIV integrated into cancer genes contributes to persistent infection. Science (2014) 3.17
DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs. Cell Stem Cell (2011) 3.10
Multilineage hematopoietic reconstitution without clonal selection in ADA-SCID patients treated with stem cell gene therapy. J Clin Invest (2007) 2.63
Role of PSIP1/LEDGF/p75 in lentiviral infectivity and integration targeting. PLoS One (2007) 2.48
LEDGF/p75 interacts with divergent lentiviral integrases and modulates their enzymatic activity in vitro. Nucleic Acids Res (2006) 2.22
Ex vivo gene transfer and correction for cell-based therapies. Nat Rev Genet (2011) 2.13
The host genomic environment of the provirus determines the abundance of HTLV-1-infected T-cell clones. Blood (2011) 2.11
Functional and structural characterization of the integrase from the prototype foamy virus. Nucleic Acids Res (2008) 2.07
The lentiviral integrase binding protein LEDGF/p75 and HIV-1 replication. PLoS Pathog (2008) 2.00
Preferential delivery of the Sleeping Beauty transposon system to livers of mice by hydrodynamic injection. Nat Protoc (2007) 1.73
HIV DNA integration. Cold Spring Harb Perspect Med (2012) 1.73
Human T-cell leukemia virus type 1 integration target sites in the human genome: comparison with those of other retroviruses. J Virol (2007) 1.69
Applications of next-generation sequencing technologies to diagnostic virology. Int J Mol Sci (2011) 1.64
Integration target site selection by a resurrected human endogenous retrovirus. Genes Dev (2009) 1.62
Retroviral integration and human gene therapy. J Clin Invest (2007) 1.56
Genome-wide mapping of PiggyBac transposon integrations in primary human T cells. J Immunother (2009) 1.52
Integrase, LEDGF/p75 and HIV replication. Cell Mol Life Sci (2008) 1.50
L1 integration in a transgenic mouse model. Genome Res (2005) 1.50
Structure-based prediction of insertion-site preferences of transposons into chromosomes. Nucleic Acids Res (2006) 1.48
Transcription factor binding sites are genetic determinants of retroviral integration in the human genome. PLoS One (2009) 1.46
Genotoxic potential of lineage-specific lentivirus vectors carrying the beta-globin locus control region. Mol Ther (2009) 1.46
Repeated recruitment of LTR retrotransposons as promoters by the anti-apoptotic locus NAIP during mammalian evolution. PLoS Genet (2006) 1.46
HIV integration site distributions in resting and activated CD4+ T cells infected in culture. AIDS (2009) 1.46
HTLV-1 integration into transcriptionally active genomic regions is associated with proviral expression and with HAM/TSP. PLoS Pathog (2008) 1.45
Quantitative evolutionary dynamics using high-resolution lineage tracking. Nature (2015) 1.41
Nuclear landscape of HIV-1 infection and integration. Nat Rev Microbiol (2016) 1.41
Transcriptional enhancers induce insertional gene deregulation independently from the vector type and design. Mol Ther (2009) 1.39
Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet (2012) 1.38
Bromo- and extraterminal domain chromatin regulators serve as cofactors for murine leukemia virus integration. J Virol (2013) 1.34
Technology transfer from worms and flies to vertebrates: transposition-based genome manipulations and their future perspectives. Genome Biol (2007) 1.29
Identification and characterization of PWWP domain residues critical for LEDGF/p75 chromatin binding and human immunodeficiency virus type 1 infectivity. J Virol (2008) 1.27
DNA transposons: nature and applications in genomics. Curr Genomics (2010) 1.25
Differential effects of human immunodeficiency virus type 1 capsid and cellular factors nucleoporin 153 and LEDGF/p75 on the efficiency and specificity of viral DNA integration. J Virol (2012) 1.24
Germline transgenic pigs by Sleeping Beauty transposition in porcine zygotes and targeted integration in the pig genome. PLoS One (2011) 1.23
Cancer-associated genomic regions (CAGRs) and noncoding RNAs: bioinformatics and therapeutic implications. Mamm Genome (2008) 1.23
Methods for integration site distribution analyses in animal cell genomes. Methods (2008) 1.21
Retroviral integrase proteins and HIV-1 DNA integration. J Biol Chem (2012) 1.20
Analysis of XMRV integration sites from human prostate cancer tissues suggests PCR contamination rather than genuine human infection. Retrovirology (2011) 1.20
Lentiviral vector integration in the human genome induces alternative splicing and generates aberrant transcripts. J Clin Invest (2012) 1.19
HRP2 determines the efficiency and specificity of HIV-1 integration in LEDGF/p75 knockout cells but does not contribute to the antiviral activity of a potent LEDGF/p75-binding site integrase inhibitor. Nucleic Acids Res (2012) 1.18
In vivo selection of hematopoietic progenitor cells and temozolomide dose intensification in rhesus macaques through lentiviral transduction with a drug resistance gene. J Clin Invest (2009) 1.17
Clonal tracking of rhesus macaque hematopoiesis highlights a distinct lineage origin for natural killer cells. Cell Stem Cell (2014) 1.15
Postintegrative gene silencing within the Sleeping Beauty transposition system. Mol Cell Biol (2007) 1.15
Targeted plasmid integration into the human genome by an engineered zinc-finger recombinase. Nucleic Acids Res (2011) 1.13
Reduced genotoxicity of avian sarcoma leukosis virus vectors in rhesus long-term repopulating cells compared to standard murine retrovirus vectors. Mol Ther (2008) 1.12
Integration preferences of wildtype AAV-2 for consensus rep-binding sites at numerous loci in the human genome. PLoS Pathog (2010) 1.12
A look to future directions in gene therapy research for monogenic diseases. PLoS Genet (2006) 1.11
Hematopoietic stem cell engineering at a crossroads. Blood (2011) 1.10
Retroviral integration site selection. Viruses (2010) 1.10
Correction of beta-thalassemia major by gene transfer in haematopoietic progenitors of pediatric patients. EMBO Mol Med (2010) 1.10
Human immunodeficiency virus integration efficiency and site selection in quiescent CD4+ T cells. J Virol (2009) 1.09
Insertional oncogenesis by non-acute retroviruses: implications for gene therapy. Viruses (2011) 1.09
Predicting preferential DNA vector insertion sites: implications for functional genomics and gene therapy. Genome Biol (2007) 1.08
Efficacy and safety of Sleeping Beauty transposon-mediated gene transfer in preclinical animal studies. Curr Gene Ther (2011) 1.08
Chromosomal integration of adenoviral vector DNA in vivo. J Virol (2010) 1.07
High-definition mapping of retroviral integration sites defines the fate of allogeneic T cells after donor lymphocyte infusion. PLoS One (2010) 1.07
Germline transgenesis and insertional mutagenesis in Schistosoma mansoni mediated by murine leukemia virus. PLoS Pathog (2012) 1.05
Histone demethylases and cancer. Adv Cancer Res (2009) 1.05
SIN retroviral vectors expressing COL7A1 under human promoters for ex vivo gene therapy of recessive dystrophic epidermolysis bullosa. Mol Ther (2010) 1.01
Integration site selection by retroviral vectors: molecular mechanism and clinical consequences. Hum Gene Ther (2008) 1.01
Functional coupling between HIV-1 integrase and the SWI/SNF chromatin remodeling complex for efficient in vitro integration into stable nucleosomes. PLoS Pathog (2011) 1.00
Paucity and preferential suppression of transgenes in late replication domains of the D. melanogaster genome. BMC Genomics (2010) 1.00
Porcine endogenous retrovirus integration sites in the human genome: features in common with those of murine leukemia virus. J Virol (2006) 0.99
No evidence for clonal selection due to lentiviral integration sites in human induced pluripotent stem cells. Stem Cells (2010) 0.99
Fidelity of target site duplication and sequence preference during integration of xenotropic murine leukemia virus-related virus. PLoS One (2010) 0.99
Long-term stability and safety of transgenic cultured epidermal stem cells in gene therapy of junctional epidermolysis bullosa. Stem Cell Reports (2013) 0.97
Gene editing of human embryonic stem cells via an engineered baculoviral vector carrying zinc-finger nucleases. Mol Ther (2011) 0.97
The molecular biology of HIV integrase. Future Virol (2012) 0.97
Lost in transcription: molecular mechanisms that control HIV latency. Viruses (2013) 0.96
Integrase residues that determine nucleotide preferences at sites of HIV-1 integration: implications for the mechanism of target DNA binding. Nucleic Acids Res (2014) 0.96
Modeling insertional mutagenesis using gene length and expression in murine embryonic stem cells. PLoS One (2007) 0.95
Integration of human immunodeficiency virus type 1 in untreated infection occurs preferentially within genes. J Virol (2006) 0.95
A high-throughput method for cloning and sequencing human immunodeficiency virus type 1 integration sites. J Virol (2006) 0.94
HTLV-1 clonality in adult T-cell leukaemia and non-malignant HTLV-1 infection. Semin Cancer Biol (2013) 0.94
VISPA: a computational pipeline for the identification and analysis of genomic vector integration sites. Genome Med (2014) 0.94
High-throughput, library-based selection of a murine leukemia virus variant to infect nondividing cells. J Virol (2006) 0.94
Genotypic features of lentivirus transgenic mice. J Virol (2008) 0.94
Common threads in persistent viral infections. J Virol (2009) 0.93
Rediscovering the chick embryo as a model to study retinal development. Neural Dev (2012) 0.92
An S/MAR-based infectious episomal genomic DNA expression vector provides long-term regulated functional complementation of LDLR deficiency. Nucleic Acids Res (2007) 0.92
Retroviral vectors: post entry events and genomic alterations. Viruses (2011) 0.92
Gene expression in lung and liver after intravenous infusion of polyethylenimine complexes of Sleeping Beauty transposons. Hum Gene Ther (2010) 0.92
Computational identification of insertional mutagenesis targets for cancer gene discovery. Nucleic Acids Res (2011) 0.92
Estimated comparative integration hotspots identify different behaviors of retroviral gene transfer vectors. PLoS Comput Biol (2011) 0.92
Gammaretroviral vectors: biology, technology and application. Viruses (2011) 0.91
Orthologous microRNA genes are located in cancer-associated genomic regions in human and mouse. PLoS One (2007) 0.89
Redirecting lentiviral vectors by insertion of integrin-tageting peptides into envelope proteins. J Gene Med (2009) 0.89
Retroviral integration process in the human genome: is it really non-random? A new statistical approach. PLoS Comput Biol (2008) 0.89
Direct reprogramming of human fibroblasts to hepatocyte-like cells by synthetic modified mRNAs. PLoS One (2014) 0.88
Development of a hybrid baculoviral vector for sustained transgene expression. Mol Ther (2009) 0.88
Baculovirus transduction of mesenchymal stem cells: in vitro responses and in vivo immune responses after cell transplantation. Mol Ther (2009) 0.87
Improving TCR Gene Therapy for Treatment of Haematological Malignancies. Adv Hematol (2012) 0.87
Podocyte-specific RAP1GAP expression contributes to focal segmental glomerulosclerosis-associated glomerular injury. J Clin Invest (2014) 0.87
Linking long-term dietary patterns with gut microbial enterotypes. Science (2011) 17.30
DNA bar coding and pyrosequencing to identify rare HIV drug resistance mutations. Nucleic Acids Res (2007) 6.89
Whole-genome shotgun assembly and comparison of human genome assemblies. Proc Natl Acad Sci U S A (2004) 6.08
The macaque gut microbiome in health, lentiviral infection, and chronic enterocolitis. PLoS Pathog (2008) 5.28
De novo mutations in histone-modifying genes in congenital heart disease. Nature (2013) 5.15
High-fat diet determines the composition of the murine gut microbiome independently of obesity. Gastroenterology (2009) 5.08
Sampling and pyrosequencing methods for characterizing bacterial communities in the human gut using 16S sequence tags. BMC Microbiol (2010) 4.97
A role for LEDGF/p75 in targeting HIV DNA integration. Nat Med (2005) 4.88
HIV integration site selection: analysis by massively parallel pyrosequencing reveals association with epigenetic modifications. Genome Res (2007) 4.72
Retroviral DNA integration: viral and cellular determinants of target-site selection. PLoS Pathog (2006) 3.67
Selection of target sites for mobile DNA integration in the human genome. PLoS Comput Biol (2006) 3.21
DNA bar coding and pyrosequencing to analyze adverse events in therapeutic gene transfer. Nucleic Acids Res (2008) 2.64
Impact of CYP2B6 983T>C polymorphism on non-nucleoside reverse transcriptase inhibitor plasma concentrations in HIV-infected patients. J Antimicrob Chemother (2008) 2.52
KRAB-zinc finger proteins and KAP1 can mediate long-range transcriptional repression through heterochromatin spreading. PLoS Genet (2010) 2.44
Effects of interleukin-2 plus highly active antiretroviral therapy on HIV-1 replication and proviral DNA (COSMIC trial). AIDS (2002) 2.40
Associating microbiome composition with environmental covariates using generalized UniFrac distances. Bioinformatics (2012) 2.19
Cxcr2 and Cxcl5 regulate the IL-17/G-CSF axis and neutrophil homeostasis in mice. J Clin Invest (2012) 2.18
Mycobacterial outer membranes: in search of proteins. Trends Microbiol (2010) 2.05
Cumulative HIV viremia during highly active antiretroviral therapy is a strong predictor of AIDS-related lymphoma. J Infect Dis (2009) 2.03
Identification of transcription factor binding sites in the human genome sequence. Mamm Genome (2002) 2.00
24 hours in the life of HIV-1 in a T cell line. PLoS Pathog (2013) 1.89
Integration site selection by HIV-based vectors in dividing and growth-arrested IMR-90 lung fibroblasts. Mol Ther (2005) 1.85
The growth rate of Mycobacterium smegmatis depends on sufficient porin-mediated influx of nutrients. Mol Microbiol (2005) 1.76
HIV integration site selection: targeting in macrophages and the effects of different routes of viral entry. Mol Ther (2006) 1.75
Combination of tenofovir and lamivudine versus tenofovir after lamivudine failure for therapy of hepatitis B in HIV-coinfection. AIDS (2006) 1.68
Genomic analysis of sleep deprivation reveals translational regulation in the hippocampus. Physiol Genomics (2012) 1.64
Massively parallel pyrosequencing in HIV research. AIDS (2008) 1.63
Integration targeting by avian sarcoma-leukosis virus and human immunodeficiency virus in the chicken genome. J Virol (2005) 1.61
Association of ABCC10 polymorphisms with nevirapine plasma concentrations in the German Competence Network for HIV/AIDS. Pharmacogenet Genomics (2012) 1.50
Micromachining tools and correlative approaches for cellular cryo-electron tomography. J Struct Biol (2010) 1.49
Gene coexpression network topology of cardiac development, hypertrophy, and failure. Circ Cardiovasc Genet (2010) 1.46
HTLV-1 integration into transcriptionally active genomic regions is associated with proviral expression and with HAM/TSP. PLoS Pathog (2008) 1.45
Stage-adapted treatment of HIV-associated Hodgkin lymphoma: results of a prospective multicenter study. J Clin Oncol (2012) 1.41
Continuous stereo self-calibration by camera parameter tracking. IEEE Trans Image Process (2009) 1.39
GATA and Nkx factors synergistically regulate tissue-specific gene expression and development in vivo. Development (2007) 1.39
CTCF binding site classes exhibit distinct evolutionary, genomic, epigenomic and transcriptomic features. Genome Biol (2009) 1.38
Hopx and Hdac2 interact to modulate Gata4 acetylation and embryonic cardiac myocyte proliferation. Dev Cell (2010) 1.38
Gene profiling of human adipose tissue during evoked inflammation in vivo. Diabetes (2009) 1.34
Maternal depletion of CTCF reveals multiple functions during oocyte and preimplantation embryo development. Development (2008) 1.32
Estimating the net contribution of interleukin-28B variation to spontaneous hepatitis C virus clearance. Hepatology (2011) 1.30
Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation. Nucleic Acids Res (2007) 1.28
Antiviral activity, pharmacokinetics and safety of vicriviroc, an oral CCR5 antagonist, during 14-day monotherapy in HIV-infected adults. AIDS (2007) 1.27
Cytochrome P450 2B6 (CYP2B6) and constitutive androstane receptor (CAR) polymorphisms are associated with early discontinuation of efavirenz-containing regimens. J Antimicrob Chemother (2011) 1.26
Analysis of HIV-1 expression level and sense of transcription by high-throughput sequencing of the infected cell. J Virol (2011) 1.25
Evolutionary trajectories of primate genes involved in HIV pathogenesis. Mol Biol Evol (2009) 1.23
In vitro whole-genome analysis identifies a susceptibility locus for HIV-1. PLoS Biol (2008) 1.22
Functional analysis of Hes-1 in preadipocytes. Mol Endocrinol (2005) 1.21
Survival in dementia and predictors of mortality: a review. Int J Geriatr Psychiatry (2013) 1.21
Young proteins experience more variable selection pressures than old proteins. Genome Res (2010) 1.19
A tool kit for quantifying eukaryotic rRNA gene sequences from human microbiome samples. Genome Biol (2012) 1.17
Phase II study of vicriviroc versus efavirenz (both with zidovudine/lamivudine) in treatment-naive subjects with HIV-1 infection. J Infect Dis (2008) 1.17
Molecular mechanisms of HIV-1 proviral latency. Expert Rev Anti Infect Ther (2005) 1.16
Differential transcriptional response to nonassociative and associative components of classical fear conditioning in the amygdala and hippocampus. Learn Mem (2006) 1.14
Regulation of lung endoderm progenitor cell behavior by miR302/367. Development (2011) 1.14
Regulation of Foxo-1 and the angiopoietin-2/Tie2 system by shear stress. FEBS Lett (2007) 1.14
Genetic and physiological activation of osmosensitive gene expression mimics transcriptional signatures of pathogen infection in C. elegans. PLoS One (2010) 1.13
Treatment of AIDS-related lymphomas: rituximab is beneficial even in severely immunosuppressed patients. AIDS (2012) 1.12
A mammalian promoter model links cis elements to genetic networks. Biochem Biophys Res Commun (2006) 1.11
Fungi of the murine gut: episodic variation and proliferation during antibiotic treatment. PLoS One (2013) 1.11
Retroviral integration site selection. Viruses (2010) 1.10
Interferometric biosensor based on planar optical waveguide sensor chips for label-free detection of surface bound bioreactions. Biosens Bioelectron (2006) 1.09
Why transcription factor binding sites are ten nucleotides long. Genetics (2012) 1.07
Genome-wide expression profiling and bioinformatics analysis of diurnally regulated genes in the mouse prefrontal cortex. Genome Biol (2007) 1.05
ZNRD1 (zinc ribbon domain-containing 1) is a host cellular factor that influences HIV-1 replication and disease progression. Clin Infect Dis (2010) 1.03
Progressive multifocal leukencephalopathy in patients on highly active antiretroviral therapy: survival and risk factors of death. J Acquir Immune Defic Syndr (2004) 1.02
Genome-wide analysis of natural selection on human cis-elements. PLoS One (2008) 1.00
Functional diversification of paralogous transcription factors via divergence in DNA binding site motif and in expression. PLoS One (2008) 0.99
Noninvasive time-dependent cytometry monitoring by digital holography. J Biomed Opt (2007) 0.98
A review of bioinformatic pipeline frameworks. Brief Bioinform (2017) 0.98
Antiretroviral activity of ancestral TRIM5alpha. J Virol (2007) 0.97
Recurring genomic breaks in independent lineages support genomic fragility. BMC Evol Biol (2006) 0.96
Genome-wide analysis of interferon regulatory factor I binding in primary human monocytes. Gene (2011) 0.96
Sex and age dimorphism of myocardial gene expression in nonischemic human heart failure. Circ Cardiovasc Genet (2008) 0.96
A gene-rich, transcriptionally active environment and the pre-deposition of repressive marks are predictive of susceptibility to KRAB/KAP1-mediated silencing. BMC Genomics (2011) 0.96
Application of a new color detection based method for the fast parallel screening of DeNO(x) catalysts. J Am Chem Soc (2002) 0.96
Presence of broadly reactive and group-specific neutralizing epitopes on newly described isolates of Crimean-Congo hemorrhagic fever virus. J Gen Virol (2005) 0.96
MetaProm: a neural network based meta-predictor for alternative human promoter prediction. BMC Genomics (2007) 0.94
Evidence for coregulation of myocardial gene expression by MEF2 and NFAT in human heart failure. Circ Cardiovasc Genet (2009) 0.94
Unraveling the structure of membrane proteins in situ by transfer function corrected cryo-electron tomography. J Struct Biol (2012) 0.94
Resistin gene variation is associated with systemic inflammation but not plasma adipokine levels, metabolic syndrome or coronary atherosclerosis in nondiabetic Caucasians. Clin Endocrinol (Oxf) (2008) 0.93
Intrinsically disordered proteins and conformational noise: implications in cancer. Cell Cycle (2012) 0.92
CTCF binding site sequence differences are associated with unique regulatory and functional trends during embryonic stem cell differentiation. Nucleic Acids Res (2013) 0.92
Genome-wide survey of natural selection on functional, structural, and network properties of polymorphic sites in Saccharomyces paradoxus. Mol Biol Evol (2011) 0.92
Waif1/5T4 inhibits Wnt/β-catenin signaling and activates noncanonical Wnt pathways by modifying LRP6 subcellular localization. Dev Cell (2011) 0.91
Protection from HIV-1 infection of primary CD4 T cells by CCR5 silencing is effective for the full spectrum of CCR5 expression. Antivir Ther (2003) 0.91
Fungal Signature in the Gut Microbiota of Pediatric Patients With Inflammatory Bowel Disease. Inflamm Bowel Dis (2015) 0.91
Fatal cerebral lymphomatoid granulomatosis in an HIV-1-infected patient. J Infect (2006) 0.90
Motifs and cis-regulatory modules mediating the expression of genes co-expressed in presynaptic neurons. Genome Biol (2009) 0.90
Determinants of expression variability. Nucleic Acids Res (2014) 0.89
Variola virus topoisomerase: DNA cleavage specificity and distribution of sites in Poxvirus genomes. Virology (2007) 0.88
Epigenomic and RNA structural correlates of polyadenylation. RNA Biol (2011) 0.87
Derepression of Cancer/testis antigens in cancer is associated with distinct patterns of DNA hypomethylation. BMC Cancer (2013) 0.87