| # | Title | Journal | Year | Citations |
|---|
| 1 | Repbase Update, a database of repetitive elements in eukaryotic genomes | Mobile DNA | 2015 | 2,243 |
| 2 | Roles for retrotransposon insertions in human disease | Mobile DNA | 2016 | 499 |
| 3 | Restricting retrotransposons: a review | Mobile DNA | 2016 | 341 |
| 4 | The Dfam community resource of transposable element families, sequence models, and genome annotations | Mobile DNA | 2021 | 279 |
| 5 | Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification | Mobile DNA | 2019 | 265 |
| 6 | Plant centromeric retrotransposons: a structural and cytogenetic perspective | Mobile DNA | 2011 | 186 |
| 7 | Endogenous retroviral promoter exaptation in human cancer | Mobile DNA | 2016 | 178 |
| 8 | Revisiting the evolution of mouse LINE-1 in the genomic era | Mobile DNA | 2013 | 149 |
| 9 | “One code to find them all”: a perl tool to conveniently parse RepeatMasker output files | Mobile DNA | 2014 | 139 |
| 10 | Transposable element detection from whole genome sequence data | Mobile DNA | 2015 | 139 |
| 11 | Homing endonucleases from mobile group I introns: discovery to genome engineering | Mobile DNA | 2014 | 134 |
| 12 | Evolution of group II introns | Mobile DNA | 2015 | 130 |
| 13 | Insertion site preference of Mu, Tn5, and Tn7 transposons | Mobile DNA | 2012 | 123 |
| 14 | Viral communities of the human gut: metagenomic analysis of composition and dynamics | Mobile DNA | 2017 | 119 |
| 15 | The Transposon Registry | Mobile DNA | 2019 | 115 |
| 16 | The expanding universe of transposon technologies for gene and cell engineering | Mobile DNA | 2010 | 113 |
| 17 | Extrachromosomal circles of satellite repeats and 5S ribosomal DNA in human cells | Mobile DNA | 2010 | 108 |
| 18 | Prevalence of SOS-mediated control of integron integrase expression as an adaptive trait of chromosomal and mobile integrons | Mobile DNA | 2011 | 104 |
| 19 | Using bioinformatic and phylogenetic approaches to classify transposable elements and understand their complex evolutionary histories | Mobile DNA | 2017 | 103 |
| 20 | Spotting the enemy within: Targeted silencing of foreign DNA in mammalian genomes by the Krüppel-associated box zinc finger protein family | Mobile DNA | 2015 | 100 |
| 21 | LTR_FINDER_parallel: parallelization of LTR_FINDER enabling rapid identification of long terminal repeat retrotransposons | Mobile DNA | 2019 | 99 |
| 22 | A revised nomenclature for transcribed human endogenous retroviral loci | Mobile DNA | 2011 | 94 |
| 23 | Diseases of the nERVous system: retrotransposon activity in neurodegenerative disease | Mobile DNA | 2019 | 91 |
| 24 | Non-long terminal repeat (non-LTR) retrotransposons: mechanisms, recent developments, and unanswered questions | Mobile DNA | 2010 | 87 |
| 25 | piRNA clusters and open chromatin structure | Mobile DNA | 2014 | 86 |
| 26 | Transposable elements in a marginal plant population: temporal fluctuations provide new insights into genome evolution of wild diploid wheat | Mobile DNA | 2010 | 85 |
| 27 | Bacterial group I introns: mobile RNA catalysts | Mobile DNA | 2014 | 85 |
| 28 | Recent advances in in vivo applications of intein-mediated protein splicing | Mobile DNA | 2014 | 85 |
| 29 | Mobile DNA and the TE-Thrust hypothesis: supporting evidence from the primates | Mobile DNA | 2011 | 83 |
| 30 | A call for benchmarking transposable element annotation methods | Mobile DNA | 2015 | 83 |
| 31 | Mouse germ line mutations due to retrotransposon insertions | Mobile DNA | 2019 | 81 |
| 32 | Human transposable elements in Repbase: genomic footprints from fish to humans | Mobile DNA | 2018 | 79 |
| 33 | Mammalian-wide interspersed repeat (MIR)-derived enhancers and the regulation of human gene expression | Mobile DNA | 2014 | 72 |
| 34 | Twenty years of transposable element analysis in the Arabidopsis thaliana genome | Mobile DNA | 2020 | 72 |
| 35 | The contribution of transposable elements to size variations between four teleost genomes | Mobile DNA | 2016 | 71 |
| 36 | Variation in proviral content among human genomes mediated by LTR recombination | Mobile DNA | 2018 | 71 |
| 37 | Mobile DNA and evolution in the 21st century | Mobile DNA | 2010 | 70 |
| 38 | Transcriptionally promiscuous “blurry” promoters in Tc1/mariner transposons allow transcription in distantly related genomes | Mobile DNA | 2019 | 70 |
| 39 | Mobilizing diversity: transposable element insertions in genetic variation and disease | Mobile DNA | 2010 | 67 |
| 40 | Homologues of bacterial TnpB_IS605 are widespread in diverse eukaryotic transposable elements | Mobile DNA | 2013 | 66 |
| 41 | Biotechnological applications of mobile group II introns and their reverse transcriptases: gene targeting, RNA-seq, and non-coding RNA analysis | Mobile DNA | 2014 | 66 |
| 42 | L1 retrotransposition in the soma: a field jumping ahead | Mobile DNA | 2018 | 63 |
| 43 | Tools and best practices for retrotransposon analysis using high-throughput sequencing data | Mobile DNA | 2019 | 63 |
| 44 | HERV-K(HML-2) rec and np9 transcripts not restricted to disease but present in many normal human tissues | Mobile DNA | 2015 | 62 |
| 45 | Transposable element-derived sequences in vertebrate development | Mobile DNA | 2021 | 62 |
| 46 | Epigenetic histone modifications of human transposable elements: genome defense versus exaptation | Mobile DNA | 2010 | 60 |
| 47 | Characterization of a synthetic human LINE-1 retrotransposon ORFeus-Hs | Mobile DNA | 2011 | 60 |
| 48 | Sex and the TEs: transposable elements in sexual development and function in animals | Mobile DNA | 2019 | 60 |
| 49 | Retrotransposition in tumors and brains | Mobile DNA | 2014 | 58 |
| 50 | Transposable element polymorphisms recapitulate human evolution | Mobile DNA | 2015 | 58 |
