The piRNA Response to Retroviral Invasion of the Koala Genome
暂无分享,去创建一个
Z. Weng | J. Luban | W. Theurkauf | Tianxiong Yu | K. Chappell | S. Johnston | B. S. Koppetsch | Sara Pagliarani | N. J. Silverstein | Noah J. Silverstein | S. Pagliarani | Keith J. Chappell
[1] Peter R Andersen,et al. A Heterochromatin-Specific RNA Export Pathway Facilitates piRNA Production , 2019, Cell.
[2] W. Theurkauf,et al. Rapid evolution and conserved function of the piRNA pathway , 2018, Royal Society Open Biology.
[3] Z. Weng,et al. Co-dependent Assembly of Drosophila piRNA Precursor Complexes and piRNA Cluster Heterochromatin. , 2018, Cell reports.
[4] Graham J. Etherington,et al. Adaptation and conservation insights from the koala genome , 2018, Nature Genetics.
[5] J. Luban,et al. Primate immunodeficiency virus Vpx and Vpr counteract transcriptional repression of proviruses by the HUSH complex , 2018, bioRxiv.
[6] Zhiping Weng,et al. The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology , 2018, eLife.
[7] D. Odom,et al. The emergence of piRNAs against transposon invasion to preserve mammalian genome integrity , 2017, Nature Communications.
[8] Z. Weng,et al. Adaptive Evolution Leads to Cross-Species Incompatibility in the piRNA Transposon Silencing Machinery. , 2017, Developmental cell.
[9] A. Hayward,et al. Origin of the retroviruses: when, where, and how? , 2017, Current opinion in virology.
[10] S. Waddell,et al. Resolving the prevalence of somatic transposition in Drosophila , 2017, eLife.
[11] E. Holmes,et al. Phylogenetic Diversity of Koala Retrovirus within a Wild Koala Population , 2016, Journal of Virology.
[12] A. Aravin,et al. Splicing-independent loading of TREX on nascent RNA is required for efficient expression of dual-strand piRNA clusters in Drosophila , 2016, Genes & development.
[13] A. Roca,et al. Comprehensive profiling of retroviral integration sites using target enrichment methods from historical koala samples without an assembled reference genome , 2016, PeerJ.
[14] F. He,et al. Nonsense-Mediated mRNA Decay: Degradation of Defective Transcripts Is Only Part of the Story. , 2015, Annual review of genetics.
[15] W. Johnson,et al. Endogenous Retroviruses in the Genomics Era. , 2015, Annual review of virology.
[16] M. Mougel,et al. Insights into the nuclear export of murine leukemia virus intron-containing RNA , 2015, RNA biology.
[17] Oliver H. Tam,et al. RNF17 blocks promiscuous activity of PIWI proteins in mouse testes , 2015, Genes & development.
[18] Zhiping Weng,et al. piRNA-guided transposon cleavage initiates Zucchini-dependent, phased piRNA production , 2015, Science.
[19] Julius Brennecke,et al. piRNA-guided slicing specifies transcripts for Zucchini-dependent, phased piRNA biogenesis , 2015, Science.
[20] Sky W. Brubaker,et al. Innate immune pattern recognition: a cell biological perspective. , 2015, Annual review of immunology.
[21] R. Ketting,et al. Piwi proteins and piRNAs in mammalian oocytes and early embryos. , 2015, Cell reports.
[22] P. Alexiou,et al. The RNA helicase MOV10L1 binds piRNA precursors to initiate piRNA processing , 2015, Genes & development.
[23] Steven L Salzberg,et al. HISAT: a fast spliced aligner with low memory requirements , 2015, Nature Methods.
[24] A. Roca,et al. Proliferation of endogenous retroviruses in the early stages of a host germ line invasion. , 2015, Molecular biology and evolution.
[25] E. Miska,et al. piRNAs: from biogenesis to function , 2014, Development.
[26] M. Wilkins,et al. A transcriptome resource for the koala (Phascolarctos cinereus): insights into koala retrovirus transcription and sequence diversity , 2014, BMC Genomics.
[27] Paul Theodor Pyl,et al. HTSeq—a Python framework to work with high-throughput sequencing data , 2014, bioRxiv.
[28] R. Sachidanandam,et al. Transgenerationally inherited piRNAs trigger piRNA biogenesis by changing the chromatin of piRNA clusters and inducing precursor processing , 2014, Genes & development.
[29] Fabio Mohn,et al. The Rhino-Deadlock-Cutoff Complex Licenses Noncanonical Transcription of Dual-Strand piRNA Clusters in Drosophila , 2014, Cell.
[30] Z. Weng,et al. The HP1 Homolog Rhino Anchors a Nuclear Complex that Suppresses piRNA Precursor Splicing , 2014, Cell.
[31] Zhiping Weng,et al. TEMP: a computational method for analyzing transposable element polymorphism in populations , 2014, Nucleic acids research.
[32] Y. Ikeda,et al. Murine Leukemia Virus Uses TREX Components for Efficient Nuclear Export of Unspliced Viral Transcripts , 2014, Viruses.
[33] Q. Fu,et al. Mammalian piRNAs , 2014, Spermatogenesis.
[34] Matthias Zytnicki,et al. Distribution, evolution, and diversity of retrotransposons at the flamenco locus reflect the regulatory properties of piRNA clusters , 2013, Proceedings of the National Academy of Sciences.
[35] P. Young,et al. Koala retroviruses: characterization and impact on the life of koalas , 2013, Retrovirology.
[36] T. Mikkelsen,et al. Cellular source and mechanisms of high transcriptome complexity in the mammalian testis. , 2013, Cell reports.
[37] Aviv Regev,et al. Comprehensive comparative analysis of RNA sequencing methods for degraded or low input samples , 2013, Nature Methods.
[38] Zhiping Weng,et al. An ancient transcription factor initiates the burst of piRNA production during early meiosis in mouse testes. , 2013, Molecular cell.
[39] D. Bartel,et al. Stalled Spliceosomes Are a Signal for RNAi-Mediated Genome Defense , 2013, Cell.
[40] S. Ho,et al. One Hundred Twenty Years of Koala Retrovirus Evolution Determined from Museum Skins , 2012, Molecular biology and evolution.
[41] Thomas R. Gingeras,et al. STAR: ultrafast universal RNA-seq aligner , 2013, Bioinform..
[42] P. Khaitovich,et al. Birth and expression evolution of mammalian microRNA genes , 2013, Genome research.
[43] Z. Weng,et al. Strand-specific libraries for high throughput RNA sequencing (RNA-Seq) prepared without poly(A) selection , 2012, Silence.
[44] Harrison W. Gabel,et al. Small RNA pathway genes identified by patterns of phylogenetic conservation and divergence , 2012, Nature.
[45] C. Burge,et al. Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues , 2012, Science.
[46] C. Brun,et al. piRNA-mediated transgenerational inheritance of an acquired trait , 2012, Genome research.
[47] Kunbin Qu,et al. Selective Depletion of rRNA Enables Whole Transcriptome Profiling of Archival Fixed Tissue , 2012, PloS one.
[48] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[49] Sebastian D. Mackowiak,et al. miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades , 2011, Nucleic acids research.
[50] Zhiping Weng,et al. Adaptation to P Element Transposon Invasion in Drosophila melanogaster , 2011, Cell.
[51] W. Paul,et al. Bridging Innate and Adaptive Immunity , 2011, Cell.
[52] Marcel Martin. Cutadapt removes adapter sequences from high-throughput sequencing reads , 2011 .
[53] A. Aravin,et al. PIWI-interacting small RNAs: the vanguard of genome defence , 2011, Nature Reviews Molecular Cell Biology.
[54] B. Langmead,et al. Aligning Short Sequencing Reads with Bowtie , 2010, Current protocols in bioinformatics.
[55] Robert C. Edgar,et al. BIOINFORMATICS APPLICATIONS NOTE , 2001 .
[56] Andrew F. Neuwald,et al. Natural Mutagenesis of Human Genomes by Endogenous Retrotransposons , 2010, Cell.
[57] Aaron R. Quinlan,et al. Bioinformatics Applications Note Genome Analysis Bedtools: a Flexible Suite of Utilities for Comparing Genomic Features , 2022 .
[58] F. Bonilla,et al. Adaptive immunity. , 2010, The Journal of allergy and clinical immunology.
[59] S. Kurtz,et al. Fine-grained annotation and classification of de novo predicted LTR retrotransposons , 2009, Nucleic acids research.
[60] Z. Weng,et al. The Drosophila HP1 Homolog Rhino Is Required for Transposon Silencing and piRNA Production by Dual-Strand Clusters , 2009, Cell.
[61] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[62] Richard Durbin,et al. Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .
[63] Z. Weng,et al. Collapse of Germline piRNAs in the Absence of Argonaute3 Reveals Somatic piRNAs in Flies , 2009, Cell.
[64] R. Sachidanandam,et al. An Epigenetic Role for Maternally Inherited piRNAs in Transposon Silencing , 2008, Science.
[65] C. Brun,et al. piRNA-mediated nuclear accumulation of retrotransposon transcripts in the Drosophila female germline , 2008, Proceedings of the National Academy of Sciences.
[66] Ravi Sachidanandam,et al. A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice. , 2008, Molecular cell.
[67] P. Deininger,et al. Mammalian non-LTR retrotransposons: for better or worse, in sickness and in health. , 2008, Genome research.
[68] Stefan Kurtz,et al. LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons , 2008, BMC Bioinformatics.
[69] G. Hannon,et al. The Piwi-piRNA Pathway Provides an Adaptive Defense in the Transposon Arms Race , 2007, Science.
[70] Peng Wang,et al. The Drosophila RNA Methyltransferase, DmHen1, Modifies Germline piRNAs and Single-Stranded siRNAs in RISC , 2007, Current Biology.
[71] Kuniaki Saito,et al. Pimet, the Drosophila homolog of HEN1, mediates 2'-O-methylation of Piwi- interacting RNAs at their 3' ends. , 2007, Genes & development.
[72] Ravi Sachidanandam,et al. Developmentally Regulated piRNA Clusters Implicate MILI in Transposon Control , 2007, Science.
[73] Peter F. Hallin,et al. RNAmmer: consistent and rapid annotation of ribosomal RNA genes , 2007, Nucleic acids research.
[74] Zissimos Mourelatos,et al. Mouse Piwi-interacting RNAs are 2′-O-methylated at their 3′ termini , 2007, Nature Structural &Molecular Biology.
[75] A. Pélisson,et al. The flamenco Locus Controls the gypsy and ZAM Retroviruses and Is Required for Drosophila Oogenesis , 2007, Genetics.
[76] Manolis Kellis,et al. Discrete Small RNA-Generating Loci as Master Regulators of Transposon Activity in Drosophila , 2007, Cell.
[77] Kuniaki Saito,et al. A Slicer-Mediated Mechanism for Repeat-Associated siRNA 5' End Formation in Drosophila , 2007, Science.
[78] Michael Ashburner,et al. Recurrent insertion and duplication generate networks of transposable element sequences in the Drosophila melanogaster genome , 2006, Genome Biology.
[79] Kuniaki Saito,et al. Specific association of Piwi with rasiRNAs derived from retrotransposon and heterochromatic regions in the Drosophila genome. , 2006, Genes & development.
[80] J. Meers,et al. Retroviral invasion of the koala genome , 2006, Nature.
[81] N. Bannert,et al. Transspecies Transmission of the Endogenous Koala Retrovirus , 2006, Journal of Virology.
[82] G. Kao,et al. Gamma radiation increases endonuclease-dependent L1 retrotransposition in a cultured cell assay , 2006, Nucleic acids research.
[83] B. Finlay,et al. Anti-Immunology: Evasion of the Host Immune System by Bacterial and Viral Pathogens , 2006, Cell.
[84] A. Pélisson,et al. Evidence for a piwi-Dependent RNA Silencing of the gypsy Endogenous Retrovirus by the Drosophila melanogaster flamenco Gene , 2004, Genetics.
[85] K. McEntee,et al. DNA damage activates transcription and transposition of yeast Ty retrotransposons , 1989, Molecular and General Genetics MGG.
[86] Peter Libby,et al. Innate and Adaptive Immunity in the Pathogenesis of Atherosclerosis , 2002, Circulation research.
[87] L. Bromham,et al. The Nucleotide Sequence of Koala (Phascolarctos cinereus) Retrovirus: a Novel Type C Endogenous Virus Related to Gibbon Ape Leukemia Virus , 2000, Journal of Virology.
[88] A. Bucheton,et al. Flamenco, a gene controlling the gypsy retrovirus of Drosophila melanogaster. , 1995, Genetics.
[89] D. Rio. Regulation of Drosophila P element transposition. , 1991, Trends in genetics : TIG.
[90] B. Mcclintock,et al. The significance of responses of the genome to challenge. , 1984, Science.
[91] C. Kozak,et al. Germ-line reinsertions of AKR murine leukemia virus genomes in Akv-1 congenic mice. , 1980, Proceedings of the National Academy of Sciences of the United States of America.
[92] J. Hartley,et al. Genetic Mapping of a Murine Leukemia Virus-Inducing Locus of AKR Mice , 1972, Science.