Mobile elements inserted in the distant past have taken on important functions

Gene Regulation for Higher Cells: A Theory

Britten, R. J., & Davidson, E. H. (1969) · Science · doi:10.1126/science.165.3891.349 · Cited by 2,078

Repetitive and Non-Repetitive DNA Sequences and a Speculation on the Origins of Evolutionary Novelty

Britten, R. J., & Davidson, E. H. (1971) · The Quarterly Review of Biology · doi:10.1086/406830 · Cited by 789

Transposable elements as sources of variation in animals and plants

KIDWELL, M. G., & Lisch, D. R. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.15.7704 · Cited by 597

An Alu Element in the Myeloperoxidase Promoter Contains a Composite SP1-Thyroid Hormone-Retinoic Acid Response Element

Piedrafita, F. J., Molander, R. B., Vansant, G., Orlova, E. A., Pfahl, M., & Reynolds, W. F. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.24.14412 · Cited by 413

Plant retrotransposons: Turned on by stress

Wessler, S. R. (1996) · Current Biology · doi:10.1016/s0960-9822(02)00638-3 · Cited by 352

Endogenous retroviral sequences are required for tissue-specific expression of a human salivary amylase gene.Preprint

Ting, C.-N., Rosenberg, M. P., Snow, C., Samuelson, L. C., & Meisler, M. H. (1992) · Genes & Development · doi:10.1101/gad.6.8.1457 · Cited by 284

Capture of retrotransposon DNA at the sites of chromosomal double-strand breaks

Moore, J. K., & Haber, J. E. (1996) · Nature · doi:10.1038/383644a0 · Cited by 251

MIRs are classic, tRNA-derived SINEs that amplified before the mammalian radiation

Smit, A. F. A., & Riggs, A. D. (1995) · Nucleic Acids Research · doi:10.1093/nar/23.1.98 · Cited by 239

Retrotransposon reverse-transcriptase-mediated repair of chromosomal breaks

Teng, S., Kim, B., & Gabriel, A. (1996) · Nature · doi:10.1038/383641a0 · Cited by 238

Identification of a New Subclass of Alu DNA Repeats Which Can Function as Estrogen Receptor-dependent Transcriptional Enhancers

Norris, J. D., Fan, D., Alemán, C., Marks, J. R., Futreal, P. A., Wiseman, R. W., Iglehart, J. D., Deininger, P. L., & McDonnell, D. P. (1995) · Journal of Biological Chemistry · doi:10.1074/jbc.270.39.22777 · Cited by 230

The unusual telomeres of Drosophila

Mason, J. M., & Biessmann, H. (1995) · Trends in Genetics · doi:10.1016/s0168-9525(00)88998-2 · Cited by 216

Evolution and consequences of transposable elements

McDonald, J. F. (1993) · Current Opinion in Genetics & Development · doi:10.1016/0959-437x(93)90005-a · Cited by 212

The consensus sequence of a major Alu subfamily contains a functional retinoic acid response element.

Vansant, G. A. A. M., & Reynolds, W. F. (1995) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.92.18.8229 · Cited by 176

Retroviral and Pseudogene Insertion Sites Reveal the Lineage of Human Salivary and Pancreatic Amylase Genes from a Single Gene during Primate Evolution

Samuelson, L. C., Wiebauer, K., Snow, C. M., & Meisler, M. H. (1990) · Molecular and Cellular Biology · doi:10.1128/mcb.10.6.2513 · Cited by 150

BC200 RNA: a neural RNA polymerase III product encoded by a monomeric Alu element.

Martignetti, J. A., & Brosius, J. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.24.11563 · Cited by 149

Transposition of the LINE-like retrotransposon TART to Drosophila chromosome termini.

Sheen, F.-M., & Levis, R. W. (1994) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.91.26.12510 · Cited by 143

Identification and characterization of an Alu-containing, T-cell-specific enhancer located in the last intron of the human CD8 alpha gene.

Hambor, J., Mennone, J., Coon, M. E., Hanke, J. H., & Kavathas, P. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.11.7056 · Cited by 138

Gene regulatory factors of the sea urchin embryo: I. Purification by affinity chromatography and cloning of P3A2, a novel DNA-binding protein

Calzone, F. J., Höög, C., Teplow, D. B., Cutting, A. E., Zeller, R. W., Britten, R. J., & Davidson, E. H. (1991) · Development · doi:10.1242/dev.112.1.335 · Cited by 101

Retroviral long terminal repeat is the promoter of the gene encoding the tumor-associated calcium-binding protein oncomodulin in the rat

Banville, D., & Boie, Y. (1989) · Journal of Molecular Biology · doi:10.1016/0022-2836(89)90458-0 · Cited by 91

Negative regulation of immunoglobulin kappa light-chain gene transcription by a short sequence homologous to the murine B1 repetitive element.

Saksela, K., & Baltimore, D. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.6.3698 · Cited by 85

Involvement of Alu sequences in the cell-specific regulation of transcription of the gamma chain of Fc and T cell receptors.

Brini, A. T., Lee, G. M., & Kinet, J. (1993) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)54083-7 · Cited by 82

Transcriptional Silencer of the Wilms' Tumor Gene WT1 Contains an Alu Repeat

Hewitt, S. M., Fraizer, G. C., & Saunders, G. F. (1995) · Journal of Biological Chemistry · doi:10.1074/jbc.270.30.17908 · Cited by 67

Expression of the human amylase genes: recent origin of a salivary amylase promoter from an actin pseudogene

Samuelson, L. C., Wiebauer, K., Gumucio, D. L., & Meisler, M. H. (1988) · Nucleic Acids Research · doi:10.1093/nar/16.17.8261 · Cited by 66

Amylase gene structures in primates: retroposon insertions and promoter evolution

Samuelson, L. C., Phillips, R. S., & Swanberg, L. J. (1996) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a025637 · Cited by 64

Multiple Otx Binding Sites Required for Expression of the Strongylocentrotus purpuratus Spec2a Gene

Mao, C., Gan, L., & Klein, W. H. (1994) · Developmental Biology · doi:10.1006/dbio.1994.1249 · Cited by 62

Cases of Ancient Mobile Element DNA Insertions That Now Affect Gene Regulation

Britten, R. J. (1996) · Molecular Phylogenetics and Evolution · doi:10.1006/mpev.1996.0003 · Cited by 59

Alu sequence involvement in transcriptional insulation of the keratin 18 gene in transgenic mice.

Thorey, I. S., Ceceña, G., Reynolds, W. F., & Oshima, R. G. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.11.6742 · Cited by 59

Spatially regulated expression of retrovirus-like transposons duringDrosophila melanogasterembryogenesis

Ding, D., & Lipshitz, H. D. (1994) · Genetics Research · doi:10.1017/s0016672300032833 · Cited by 54

Repetitive DNA sequences linked to the sea urchin spec genes contain transcriptional enhancer-like elements

Gan, L., Zhang, W., & Klein, W. H. (1990) · Developmental Biology · doi:10.1016/0012-1606(90)90287-s · Cited by 44

Origin of a negative calcium response element in an ALU-repeat: Implications for regulation of gene expression by extracellular calcium

McHaffie, G. S., & Ralston, S. H. (1995) · Bone · doi:10.1016/8756-3282(95)00131-v · Cited by 40

Use of a mammalian interspersed repetitive (MIR) element in the coding and processing sequences of mammalian genes

Murnane, J. P., & Morales, J. F. (1995) · Nucleic Acids Research · doi:10.1093/nar/23.15.2837 · Cited by 38

Ingrowth by photoreceptor axons induces transcription of a retrotransposon in the developing Drosophila brain

Mozer, B. A., & Benzer, S. (1994) · Development · doi:10.1242/dev.120.5.1049 · Cited by 37

Polyadenylylation signal of the mouse thymidylate synthase gene was created by insertion of an L1 repetitive element downstream of the open reading frame.

Harendza, C. J., & Johnson, L. F. (1990) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.87.7.2531 · Cited by 35

Transcriptional Inhibition of the Murine Erythropoietin Receptor Gene by an Upstream Repetitive element

Youssoufian, H., & Lodish, H. F. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.1.98-104.1993 · Cited by 32

Drosophila telomere transposon HeT-A produces a transcript with tightly bound protein.

Danilevskaya, O. N., Slot, F., Traverse, K. L., Hogan, N. C., & Pardue, M. L. (1994) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.91.14.6679 · Cited by 32

Intersecting batteries of differentially expressed genes in the early sea urchin embryo.Preprint

Thiébaud, P., Goodstein, M., Calzone, F. J., Thézé, N., Britten, R. J., & Davidson, E. H. (1990) · Genes & Development · doi:10.1101/gad.4.11.1999 · Cited by 30

The gene encoding the MOK-2 zinc-finger protein: characterization of its promoter and negative regulation by mouse Alu type-2 repetitive elements

Arranz, V., Kress, M., & Ernoult‐Lange, M. (1994) · Gene · doi:10.1016/0378-1119(94)90164-3 · Cited by 22

Spatial regulation of SpMTA metallothionein gene expression in sea urchin embryos by a regulatory cassette in intron 1

Nemer, M. J., Stuebing, E. W., Bai, G., & Parker, H. R. (1995) · Mechanisms of Development · doi:10.1016/0925-4773(94)00330-p · Cited by 18

Highly identical cassettes of gene regulatory elements, genomically repetitive and present in RNA.

Nemer, M., Bai, G., & Stuebing, E. W. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.22.10851 · Cited by 10

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

Siepel, A., Bejerano, G., Pedersen, J. S., Hinrichs, A. S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L. W., Richards, S., et al. (2005) · Genome Research · doi:10.1101/gr.3715005 · Cited by 3,971

Alu repeats and human genomic diversity

Batzer, M., & Deininger, P. (2002) · Nature reviews genetics · doi:10.1038/nrg798 · Cited by 1,522

Distribution and intensity of constraint in mammalian genomic sequence

Cooper, G. M., Stone, E. A., Asimenos, G., Green, E. D., Batzoglou, S., & Sidow, A. (2005) · Genome Research · doi:10.1101/gr.3577405 · Cited by 1,359

The Evolution of Transcriptional Regulation in Eukaryotes

Wray, G. A. (2003) · Molecular Biology and Evolution · doi:10.1093/molbev/msg140 · Cited by 1,229

Alu Repeats and Human Disease

Deininger, P. L., & Batzer, M. A. (1999) · Molecular Genetics and Metabolism · doi:10.1006/mgme.1999.2864 · Cited by 911

DNA sequence insertion and evolutionary variation in gene regulation.

Britten, R. J. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.18.9374 · Cited by 253

Cases of Ancient Mobile Element DNA Insertions That Now Affect Gene Regulation

Britten, R. J. (1996) · Molecular Phylogenetics and Evolution · doi:10.1006/mpev.1996.0003 · Cited by 59

Mobile elements and mammalian genome evolution

Deininger, P. L., Moran, J. V., Batzer, M. A., & Kazazian, H. H. (2003) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2003.10.013 · Cited by 479

Drosophila functional elements are embedded in structurally constrained sequences. PLoS Genet

Kenigsberg, E., & Tanay, A. (2016)

Drosophila Functional Elements Are Embedded in Structurally Constrained Sequences

Kenigsberg, E., & Tanay, A. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003512 · Cited by 12