No evidence of human genome integration of SARS-CoV-2 found by long-read DNA sequencing

Unraveling the features of somatic transposition in the Drosophila intestine

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An Optimized High-Throughput Immuno-Plaque Assay for SARS-CoV-2

(2021) Alberto A. Amarilla et al.   Frontiers in Microbiology

Host-virus chimeric events in SARS-CoV2 infected cells are infrequent and artifactual

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100-My history of bornavirus infections hidden in vertebrate genomes

(2021) Junna Kawasaki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SARS-CoV-2-Host Chimeric RNA-Sequencing Reads Do Not Necessarily Arise From Virus Integration Into the Host DNA

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A new coronavirus associated with human respiratory disease in China

(2020) Fan Wu et al.   NATURE

Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition

(2020) Bernardo Rodriguez-Martin et al.   NATURE GENETICS

Endothelial cell infection and endotheliitis in COVID-19

(2020) Zsuzsanna Varga et al.   LANCET

SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes

(2020) Waradon Sungnak et al.   NATURE MEDICINE

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(2020) W. Joost Wiersinga et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Synergism of TNF-α and IFN-γ Triggers Inflammatory Cell Death, Tissue Damage, and Mortality in SARS-CoV-2 Infection and Cytokine Shock Syndromes

(2020) Rajendra Karki et al.   CELL

Nanopore Sequencing Enables Comprehensive Transposable Element Epigenomic Profiling

(2020) Adam D. Ewing et al.   MOLECULAR CELL

Author Correction: Regulation of transposable elements by DNA modifications

(2019) Özgen Deniz et al.   NATURE REVIEWS GENETICS

Genome-wide de novo L1 Retrotransposition Connects Endonuclease Activity with Replication

(2019) Diane A. Flasch et al.   CELL

The Landscape of L1 Retrotransposons in the Human Genome Is Shaped by Pre-insertion Sequence Biases and Post-insertion Selection

(2019) Tania Sultana et al.   MOLECULAR CELL

LINE-1 Evasion of Epigenetic Repression in Humans

(2019) Francisco J. Sanchez-Luque et al.   MOLECULAR CELL

Pedigree-based estimation of human mobile element retrotransposition rates

(2019) Julie Feusier et al.   GENOME RESEARCH

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis

(2018) Stephanie N. Schauer et al.   GENOME RESEARCH

Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles

(2018) Thomas Tu et al.   JOURNAL OF VIROLOGY

L1 Retrotransposon Heterogeneity in Ovarian Tumor Cell Evolution

(2018) Thu H.M. Nguyen et al.   Cell Reports

L1 retrotransposition in the soma: a field jumping ahead

(2018) Geoffrey J. Faulkner et al.   Mobile DNA

Mobile DNA in Health and Disease

(2017) Haig H. Kazazian et al.   NEW ENGLAND JOURNAL OF MEDICINE

Resolving the prevalence of somatic transposition in Drosophila

(2017) Christoph D Treiber et al.   eLife

HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant

(2016) William S. Mason et al.   GASTROENTEROLOGY

A hot L1 retrotransposon evades somatic repression and initiates human colorectal cancer

(2016) Emma C. Scott et al.   GENOME RESEARCH

Reprogramming triggers endogenous L1 and Alu retrotransposition in human induced pluripotent stem cells

(2016) Sabine Klawitter et al.   Nature Communications

Activation of individual L1 retrotransposon instances is restricted to cell-type dependent permissive loci

(2016) Claude Philippe et al.   eLife

Retrotransposition and Crystal Structure of an Alu RNP in the Ribosome-Stalling Conformation

(2015) Valentina Ahl et al.   MOLECULAR CELL

A 3′ Poly(A) Tract Is Required for LINE-1 Retrotransposition

(2015) Aurélien J. Doucet et al.   MOLECULAR CELL

Cell Lineage Analysis in Human Brain Using Endogenous Retroelements

(2015) Gilad D. Evrony et al.   NEURON

Endogenous Retrotransposition Activates Oncogenic Pathways in Hepatocellular Carcinoma

(2013) Ruchi Shukla et al.   CELL

Modulation of LINE-1 and Alu/SVA Retrotransposition by Aicardi-Goutières Syndrome-Related SAMHD1

(2013) Ke Zhao et al.   Cell Reports

The Specificity and Flexibility of L1 Reverse Transcription Priming at Imperfect T-Tracts

(2013) Clément Monot et al.   PLoS Genetics

The effects of hepatitis B virus integration into the genomes of hepatocellular carcinoma patients

(2012) Z. Jiang et al.   GENOME RESEARCH

Whole-genome sequencing of liver cancers identifies etiological influences on mutation patterns and recurrent mutations in chromatin regulators

(2012) Akihiro Fujimoto et al.   NATURE GENETICS

Endogenous viruses: insights into viral evolution and impact on host biology

(2012) Cédric Feschotte et al.   NATURE REVIEWS GENETICS

Primer3—new capabilities and interfaces

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Retrotransposition of marked SVA elements by human L1s in cultured cells

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SAMHD1 is the dendritic- and myeloid-cell-specific HIV-1 restriction factor counteracted by Vpx

(2011) Nadine Laguette et al.   NATURE

Vpx relieves inhibition of HIV-1 infection of macrophages mediated by the SAMHD1 protein

(2011) Kasia Hrecka et al.   NATURE

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(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

The non-autonomous retrotransposon SVA is trans -mobilized by the human LINE-1 protein machinery

(2011) Julija Raiz et al.   NUCLEIC ACIDS RESEARCH

Endogenous non-retroviral RNA virus elements in mammalian genomes

(2010) Masayuki Horie et al.   NATURE

Unexpected Inheritance: Multiple Integrations of Ancient Bornavirus and Ebolavirus/Marburgvirus Sequences in Vertebrate Genomes

(2010) Vladimir A. Belyi et al.   PLoS Pathogens

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(2009) H. Li et al.   BIOINFORMATICS

Exon-trapping mediated by the human retrotransposon SVA

(2009) D. C. Hancks et al.   GENOME RESEARCH

Recombination of Retrotransposon and Exogenous RNA Virus Results in Nonretroviral cDNA Integration

(2009) M. B. Geuking et al.   SCIENCE