Items where Subject is "transposable elements"

Paper

Athma, P., Grotewold, E., Peterson, T. (May 1992) Insertional mutagenesis of the maize P gene by intragenic transposition of Ac. Genetics, 131 (1). pp. 199-209. ISSN 0016-6731 (Print)0016-6731 (Linking)

Athma, P., Peterson, T. (May 1991) Ac induces homologous recombination at the maize P locus. Genetics, 128 (1). pp. 163-73. ISSN 0016-6731 (Print)0016-6731 (Linking)

Barkan, A., Martienssen, R. A. (April 1991) Inactivation of maize transposon Mu suppresses a mutant phenotype by activating an outward-reading promoter near the end of Mu1. Proceedings of the National Academy of Sciences of the United States of America, 88 (8). pp. 3502-3506. ISSN 0027-8424

Benoit, M., Drost, H. G., Catoni, M., Gouil, Q., Lopez-Gomollon, S., Baulcombe, D., Paszkowski, J. (September 2019) Environmental and epigenetic regulation of Rider retrotransposons in tomato. PLoS Genet, 15 (9). e1008370. ISSN 1553-7390

Benoit, Matthias, Drost, Hajk-Georg (April 2021) A Predictive Approach to Infer the Activity and Natural Variation of Retrotransposon Families in Plants. Methods in Molecular Biology, 2250. pp. 1-14. ISSN 1064-3745

Bourque, G., Burns, K. H., Gehring, M., Gorbunova, V., Seluanov, A., Hammell, M., Imbeault, M., Izsvak, Z., Levin, H. L., Macfarlan, T. S., Mager, D. L., Feschotte, C. (November 2018) Ten things you should know about transposable elements. Genome Biol, 19 (1). p. 199. ISSN 1474-7596

Calarco, J. P., Martienssen, R. A. (February 2011) Genome reprogramming and small interfering RNA in the Arabidopsis germline. Curr Opin Genet Dev, 21 (2). pp. 134-9. ISSN 1879-0380 (Electronic) 0959-437X (Linking)

Clouston, W. M. (November 1990) The angiotensinogen gene of Swiss mice is closely linked to a retrovirus-like element. DNA and Cell Biology, 9 (9). pp. 623-630. ISSN 1044-5498

Comfort, N. C. (August 1995) Two genes, no enzyme: a second look at Barbara McClintock and the 1951 Cold Spring Harbor Symposium. Genetics, 140 (4). pp. 1161-6. ISSN 0016-6731 (Print)

Dennenmoser, S., Sedlazeck, F. J., Schatz, M. C., Altmuller, J., Zytnicki, M., Nolte, A. W. (December 2018) Genome-wide patterns of transposon proliferation in an evolutionary young hybrid fish. Mol Ecol, 28 (6). pp. 1491-1505. ISSN 0962-1083

Doseff, A., Martienssen, R., Sundaresan, V. (February 1991) Somatic excision of the Mu1 transposable element of maize. Nucleic Acids Research, 19 (3). pp. 579-584. ISSN 0305-1048

Grant, S. G., Jessee, J., Bloom, F. R., Hanahan, D. (June 1990) Differential plasmid rescue from transgenic mouse DNAs into Escherichia coli methylation-restriction mutants. Proc Natl Acad Sci U S A, 87 (12). pp. 4645-9. ISSN 0027-8424 (Print)0027-8424 (Linking)

Grotewold, E., Athma, P., Peterson, T. (November 1991) A possible hot spot for Ac insertion in the maize P gene. Mol Gen Genet, 230 (1-2). pp. 329-31. ISSN 0026-8925 (Print)0026-8925 (Linking)

Hicks, J., Strathern, J. N., Klar, A. J. S. (1979) Transposable mating type genes in Saccharomyces cerevisiae. Nature, 282 (5738). pp. 478-483. ISSN 00280836 (ISSN)

Holt, C., Campbell, M., Keays, D. A., Edelman, N., Kapusta, A., Maclary, E., Domyan, E. T., Suh, A., Warren, W. C., Yandell, M., Gilbert, M. T. P., Shapiro, M. D. (May 2018) Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia). G3-Genes Genomes Genetics, 8 (5). pp. 1391-1398. ISSN 2160-1836

Ipsaro, Jonathan J, O'Brien, Paul A, Bhattacharya, Shibani, Palmer, Arthur G, Joshua-Tor, Leemor (March 2021) Asterix/Gtsf1 links tRNAs and piRNA silencing of retrotransposons. Cell Reports, 34 (13). p. 108914. ISSN 2211-1247

Jin, Y., Hammell, M. (February 2018) Analysis of RNA-Seq Data Using TEtranscripts. Methods Mol Biol, 1751. pp. 153-167. ISSN 1064-3745

Jin, Y., Tam, O. H., Paniagua, E., Hammell, M. (November 2015) TEtranscripts: A package for including transposable elements in differential expression analysis of RNA-seq datasets. Bioinformatics, 31 (22). pp. 3593-3599. ISSN 1367-4811 (Electronic)1367-4803 (Linking)

Kamp, D., Chow, L. T., Broker, T. R., Kwoh, D., Zipser, D., Kahmann, R. (1979) Site-specific recombination in phage mu. Cold Spring Harb Symp Quant Biol, 43 (2). pp. 1159-67. ISSN 0091-7451 (Print)0091-7451 (Linking)

Kim, S. B., Karre, S., Wu, Q., Park, M., Meyers, E., Claeys, H., Wisser, R., Jackson, D., Balint-Kurti, P. (August 2020) Multiple insertions of COIN, a novel maize Foldback transposable element, in the Conring gene cause a spontaneous progressive cell death phenotype. Plant J. ISSN 0960-7412

Krug, L., Chatterjee, N., Borges-Monroy, R., Hearn, S., Liao, W. W., Morrill, K., Prazak, L., Rozhkov, N., Theodorou, D., Hammell, M., Dubnau, J. (March 2017) Retrotransposon activation contributes to neurodegeneration in a Drosophila TDP-43 model of ALS. PLoS Genet, 13 (3). e1006635. ISSN 1553-7390 (Public Dataset)

Kurtz, S., Narechania, A., Stein, J. C., Ware, D. H. (October 2008) A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes. BMC Genomics, 9. p. 517.

Lee, S.C., Ernst, E., Berube, B., Borges, F., Parent, J. S., Ledon, P., Schorn, A., Martienssen, R. A. (April 2020) Arabidopsis Retrotransposon Virus-Like Particles and Their Regulation by Epigenetically Activated Small RNA. Genome Research, 30 (4). pp. 576-588. ISSN 1088-9051

Li, W., Prazak, L., Chatterjee, N., Gruninger, S., Krug, L., Theodorou, D., Dubnau, J. (April 2013) Activation of transposable elements during aging and neuronal decline in Drosophila. Nature Neuroscience, 16. pp. 529-531. ISSN 1546-1726 (Electronic)1097-6256 (Linking)

Lister, C., Jackson, D., Martin, C. (November 1993) Transposon-induced inversion in Antirrhinum modifies nivea gene expression to give a novel flower color pattern under the control of cycloidearadialis. Plant Cell, 5 (11). pp. 1541-53. ISSN 1040-4651 (Print)1040-4651

Martienssen, R., Barkan, A., Taylor, W. C., Freeling, M. (1990) Somatically heritable switches in the DNA modification of Mu transposable elements monitored with a suppressible mutant in maize. Genes and Development, 4 (3). pp. 331-343. ISSN 08909369 (ISSN)

Martienssen, R. A. (August 2008) Great leap forward? Transposable elements, small interfering RNA and adaptive Lamarckian evolution. New Phytologist, 179 (3). pp. 570-572. ISSN 0028-646X

McClintock, Barbara (1955) Transposition sequences of Ac. Maize Genetics Cooperation News Letter, 29. p. 16.

O'Neill, K., Brocks, D., Hammell, M. G. (March 2020) Mobile Genomics: Tools and Techniques for Tackling Transposons. Philos Trans R Soc Lond B Biol Sci, 375 (1795). ISSN 0962-8436

Oh, S. A., Park, S. K., Jang, I., Howden, R., Moore, J. M., Grossniklaus, U., Twell, D. (July 2003) halfman, an Arabidopsis male gametophytic mutant associated with a 150 kb chromosomal deletion adjacent to an introduced Ds transposable element. Sexual Plant Reproduction, 16 (2). pp. 99-102. ISSN 0934-0882

Ou, S., Su, W., Liao, Y., Chougule, K., Agda, J. R. A., Hellinga, A. J., Lugo, C. S. B., Elliott, T. A., Ware, D., Peterson, T., Jiang, N., Hirsch, C. N., Hufford, M. B. (December 2019) Benchmarking transposable element annotation methods for creation of a streamlined, comprehensive pipeline. Genome Biol, 20 (1). p. 275. ISSN 1474-7596 (Public Dataset)

Ou, S. J., Liu, J. N., Chougule, K. M., Fungtammasan, A., Seetharam, A.S., Stein, J. C., Llaca, V., Manchanda, N., Gilbert, A. M., Wei, S. R., Chin, C. S., Hufnagel, D. E., Pedersen, S., Snodgrass, S. J., Fengler, K., Woodhouse, M., Walenz, B. P., Koren, S., Phillippy, A. M., Hannigan, B. T., Dawe, R. K., Hirsch, C. N., Hufford, M. B., Ware, D. (May 2020) Effect of sequence depth and length in long-read assembly of the maize inbred NC358. Nature Communications, 11 (1). p. 2288. ISSN 2041-1723

Parent, Jean-Sébastien, Cahn, Jonathan, Herridge, Rowan P, Grimanelli, Daniel, Martienssen, Robert A (June 2021) Small RNAs guide histone methylation in Arabidopsis embryos. Genes and Development. ISSN 0890-9369

Peterson, T. (October 1990) Intragenic transposition of Ac generates a new allele of the maize P gene. Genetics, 126 (2). pp. 469-76. ISSN 0016-6731 (Print)0016-6731 (Linking)

Pfeifer, F., Betlach, M., Martienssen, R., Friedman, J., Boyer, H. W. (1983) Transposable elements of halobacterium-halobium. Molecular & General Genetics, 191 (2). pp. 182-188. ISSN 0026-8925

Quadrana, L., Bortolini Silveira, A., Mayhew, G. F., LeBlanc, C., Martienssen, R. A., Jeddeloh, J. A., Colot, V. (June 2016) The Arabidopsis thaliana mobilome and its impact at the species level. Elife, 5. ISSN 2050-084X (Electronic)2050-084X (Linking)

Rabinowicz, P. D. (July 2000) Are obese plant genomes on a diet? Genome Research, 10 (7). pp. 893-894. ISSN 1088-9051

Rabinowicz, P. D., Grotewold, E. (November 2000) A novel reverse-genetic approach (SIMF) identifies Mutator insertions in new Myb genes. Planta, 211 (6). pp. 887-893. ISSN 0032-0935

Rangan, P., Malone, Colin D. , Navarro, C., Newbold, S. P, Hayes, P. S, Sachidanandam, R., Hannon, G. J., Lehmann, R. (August 2011) piRNA Production Requires Heterochromatin Formation in Drosophila. Current Biology, 21 (16). pp. 1373-1379. ISSN 0960-9822

Reilly, M. T., Faulkner, G. J., Dubnau, J., Ponomarev, I., Gage, F. H. (November 2013) The role of transposable elements in health and diseases of the central nervous system. Journal of Neuroscience, 33 (45). pp. 17577-86. ISSN 0270-6474

Sabot, F., Picault, N., Elbaidouri, M., Llauro, C., Chaparro, C., Piegu, B., Roulin, A., Guiderdoni, E., Delabastide, M., McCombie, W. R., Panaud, O. (January 2011) Transpositional landscape of rice genome revealed by Paired-End Mapping of high-throughput resequencing data. Plant Journal, 66 (2). pp. 241-246. ISSN 0960-7412

Schorn, A. J., Martienssen, R. (May 2019) Getting in LINE with Replication. Molecular Cell, 74 (3). pp. 415-417. ISSN 10972765 (ISSN)

Settles, A. M., Baron, A., Barkan, A., Martienssen, R. A. (January 2001) Duplication and suppression of chloroplast protein translocation genes in maize. Genetics, 157 (1). pp. 349-360. ISSN 0016-6731

Singer, T., Yordan, C., Martienssen, R. A. (March 2001) Robertson's Mutator transposons in A-thaliana are regulated by the chromatin-remodeling gene Decrease in DNA Methylation (DDM1). Genes & Development, 15 (5). pp. 591-602. ISSN 0890-9369

Singh, P. K., Bourque, G., Craig, N. L., Dubnau, J. T., Feschotte, C., Flasch, D. A., Gunderson, K. L., Malik, H. S., Moran, J. V., Peters, J. E., Slotkin, R. K., Levin, H. L. (November 2014) Mobile genetic elements and genome evolution 2014. Mobile DNA, 5. ISSN 1759-8753

Slotkin, R. K., Vaughn, M., Borges, F., Tanurdzic, M., Becker, J. D., Feijo, J. A., Martienssen, R. A. (February 2009) Epigenetic reprogramming and small RNA silencing of transposable elements in pollen. Cell, 136 (3). pp. 461-72. ISSN 1097-4172 (Electronic)0092-8674 (Linking)

Slotkin, R. Keith, Martienssen, Robert (April 2007) Transposable elements and the epigenetic regulation of the genome. Nat Rev Genet, 8 (4). pp. 272-85. ISSN 1471-0056 (Print)

Strathern, J. N., Spatola, E., McGill, C., Hicks, J. B. (1980) Structure and organization of transposable mating type cassettes in Saccharomyces yeasts. Proceedings of the National Academy of Sciences of the United States of America, 77 (5 I). pp. 2839-2843. ISSN 00278424 (ISSN)

Sundaresan, V., Springer, P., Volpe, T., Haward, S., Jones, J. D. G., Dean, C., Ma, H., Martienssen, R. (July 1995) Patterns of Gene-Action in Plant Development Revealed by Enhancer Trap and Gene Trap Transposable Elements. Genes & development, 9 (14). pp. 1797-1810. ISSN 0890-9369

Sundaresan, V., Springer, P., Volpe, T., Haward, S., Jones, J. D. G., Dean, C., Ma, H., Martienssen, R. (July 1995) Patterns of gene action in plant development revealed by enhancer trap and gene trap transposable elements. Genes & Development, 9 (14). pp. 1797-1810. ISSN 0890-9369

Tam, O. H., Ostrow, L. W., Hammell, M. G. (July 2019) Diseases of the nERVous system: retrotransposon activity in neurodegenerative disease. Mob DNA, 10. p. 32. ISSN 1759-8753 (Print)

Tam, O. H., Rozhkov, N. V., Shaw, R., Kim, D., Hubbard, I., Fennessey, S., Propp, N., Fagegaltier, D., Harris, B. T., Ostrow, L. W., Phatnani, H., Ravits, J., Dubnau, J., Gale Hammell, M. (October 2019) Postmortem Cortex Samples Identify Distinct Molecular Subtypes of ALS: Retrotransposon Activation, Oxidative Stress, and Activated Glia. Cell Rep, 29 (5). 1164-1177.e5.

Underwood, C. J., Martienssen, R. A. (January 2015) Argonautes team up to silence transposable elements in Arabidopsis. Embo Journal, 34 (5). pp. 579-580. ISSN 0261-4189

Underwood, Charles J., Henderson, Ian R., Martienssen, Robert A. (April 2017) Genetic and epigenetic variation of transposable elements in Arabidopsis. Current Opinion in Plant Biology, 36. pp. 135-141. ISSN 1369-5266

Vaughn, Justin N, Korani, Walid, Stein, Joshua C, Edwards, Jeremy D, Peterson, Daniel G, Simpson, Sheron A, Youngblood, Ramey C, Grimwood, Jane, Chougule, Kapeel, Ware, Doreen H, McClung, Anna M, Scheffler, Brian E (March 2021) Gene disruption by structural mutations drives selection in US rice breeding over the last century. PLoS Genetics, 17 (3). e1009389. ISSN 1553-7404

Vongs, A., Kakutani, T., Martienssen, R. A., Richards, E. J. (June 1993) Arabidopsis thaliana DNA methylation mutants. Science, 260 (5116). pp. 1926-1928. ISSN 0036-8075

Walisko, O., Schorn, A. J., Rolfs, F., Devaraj, A., Miskey, C., Izsvak, Z., Ivics, Z. (February 2008) Transcriptional activities of the Sleeping Beauty transposon and shielding its genetic cargo with insulators. Molecular Therapy, 16 (2). pp. 359-69. ISSN 1525-0016

Wang, Zhenxing, Butel, Nicolas, Santos-González, Juan, Borges, Filipe, Yi, Jun, Martienssen, Robert A, Martinez, German, Köhler, Claudia (April 2020) Polymerase IV Plays a Crucial Role in Pollen Development in Capsella. The Plant Cell, 32 (4). pp. 950-966. ISSN 1040-4651

Xie, W. W., Liang, C. Z., Birchler, J. A. (August 2011) Inhibition of RNA Interference and Modulation of Transposable Element Expression by Cell Death in Drosophila. Genetics, 188 (4). pp. 823-834. ISSN 0016-6731

Zhao, Z. Y., Sundaresan, V. (September 1991) Binding sites for maize nuclear proteins in the terminal inverted repeats of the Mu1 transposable element. Mol Gen Genet, 229 (1). pp. 17-26. ISSN 0026-8925 (Print)0026-8925 (Linking)

Book Section

Martienssen, R. A. (1996) Epigenetic Silencing of Mu Transposable Elements in Maize. In: Epigenetic Mechanisms of Gene Regulation. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y., p. 593. ISBN 0270-1847

McClintock, Barbara (1980) Modified gene expressions induced by transposable elements. In: Mobilization and reassembly of genetic information: Proceedings of the Miami Winter Symposium, January, 1980. Academic Press, New York, pp. 11-19.

Conference or Workshop Item

Gryder, Berkley E, Wachtel, Marco, Ewert, Winston, Chang, Kenneth, El Demerdash, Osama, Song, Young, Schafer, Beat W, Vakoc, Christopher R, Khan, Javed (July 2020) PAX3 translocations co-opt super enhancers and intrinsically disordered fusion partners in rhabdomyosarcoma. In: AACR Special Conference on the Advances in Pediatric Cancer Research.

Thesis

Krug, L. (March 2016) The Role of Transposable Elements in TDP-43-Mediated Neurodegeneration. PhD thesis, Cold Spring Harbor Laboratory.

Video

Hannon, G. J. (November 2012) Talk from Greg Hannon at the Cold Spring Harbor Laboratory In-House Symposium (2012). [Video] (Unpublished)

Dataset

Krug, L., Chatterjee, N., Borges-Monroy, R., Hearn, S., Liao, W., Morrill, K., Prazak, L., Rozhkov, N., Theodorou, D., Hammell, M., Dubnau, J. (2017) Datasets from "Krug, L., Chatterjee, N., Borges-Monroy, R., Hearn, S., Liao, W. W., Morrill, K., Prazak, L., Rozhkov, N., Theodorou, D., Hammell, M., Dubnau, J. (2017) Retrotransposon activation contributes to neurodegeneration in a Drosophila TDP-43 model of ALS. PLoS Genet". [Dataset]