XenopusPiwi proteins interact with a broad proportion of the oocyte transcriptome

Amyloid-like Self-Assembly of a Cellular Compartment

(2016) Elvan Boke et al.   CELL

mTAIL-seq reveals dynamic poly(A) tail regulation in oocyte-to-embryo development

(2016) Jaechul Lim et al.   GENES & DEVELOPMENT

PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from Cytosolic Targets of the Mouse piRNA Pathway

(2016) Zhaolin Yang et al.   MOLECULAR CELL

Comprehensive Identification of RNA-Binding Domains in Human Cells

(2016) Alfredo Castello et al.   MOLECULAR CELL

Sequence-dependent but not sequence-specific piRNA adhesion traps mRNAs to the germ plasm

(2016) Anastassios Vourekas et al.   NATURE

Genome evolution in the allotetraploid frog Xenopus laevis

(2016) Adam M. Session et al.   NATURE

mRNA poly(A)-tail changes specified by deadenylation broadly reshape translation in Drosophila oocytes and early embryos

(2016) Stephen W Eichhorn et al.   eLife

piRNA-guided slicing of transposon transcripts enforces their transcriptional silencing via specifying the nuclear piRNA repertoire

(2015) Kirsten-André Senti et al.   GENES & DEVELOPMENT

Xenbase: Core features, data acquisition, and data processing

(2015) Christina James-Zorn et al.   GENESIS

Global analysis of asymmetric RNA enrichment in oocytes reveals low conservation between closely related Xenopus species

(2015) Maike Claußen et al.   MOLECULAR BIOLOGY OF THE CELL

Slicing and Binding by Ago3 or Aub Trigger Piwi-Bound piRNA Production by Distinct Mechanisms

(2015) Wei Wang et al.   MOLECULAR CELL

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

Specifying and protecting germ cell fate

(2015) Susan Strome et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

piRNA-guided slicing specifies transcripts for Zucchini-dependent, phased piRNA biogenesis

(2015) F. Mohn et al.   SCIENCE

piRNA-guided transposon cleavage initiates Zucchini-dependent, phased piRNA production

(2015) B. W. Han et al.   SCIENCE

Aubergine iCLIP Reveals piRNA-Dependent Decay of mRNAs Involved in Germ Cell Development in the Early Embryo

(2015) Bridlin Barckmann et al.   Cell Reports

Discovery and Characterization of piRNAs in the Human Fetal Ovary

(2015) Zev Williams et al.   Cell Reports

Conserved piRNA Expression from a Distinct Set of piRNA Cluster Loci in Eutherian Mammals

(2015) Gung-wei Chirn et al.   PLoS Genetics

Balbiani body, nuage and sponge bodies – The germ plasm pathway players

(2014) Malgorzata Kloc et al.   ARTHROPOD STRUCTURE & DEVELOPMENT

piRNAs

(2014) Bo W. Han et al.   CURRENT BIOLOGY

Deep Proteomics of the Xenopus laevis Egg using an mRNA-Derived Reference Database

(2014) Martin Wühr et al.   CURRENT BIOLOGY

Transposable element dynamics and PIWI regulation impacts lncRNA and gene expression diversity inDrosophilaovarian cell cultures

(2014) Yuliya A. Sytnikova et al.   GENOME RESEARCH

Unambiguous Identification of miRNA:Target Site Interactions by Different Types of Ligation Reactions

(2014) Stefanie Grosswendt et al.   MOLECULAR CELL

InParanoid 8: orthology analysis between 273 proteomes, mostly eukaryotic

(2014) Erik L.L. Sonnhammer et al.   NUCLEIC ACIDS RESEARCH

The capacity of target silencing byDrosophilaPIWI and piRNAs

(2014) Christina Post et al.   RNA

PIWI proteins are essential for early Drosophila embryogenesis

(2013) Sneha Ramesh Mani et al.   DEVELOPMENTAL BIOLOGY

RNA-binding protein Vg1RBP regulates terminal arbor formation but not long-range axon navigation in the developing visual system

(2013) Adrianna Kalous et al.   Developmental Neurobiology

Ubiquitously transcribed genes use alternative polyadenylation to achieve tissue-specific expression

(2013) S. Lianoglou et al.   GENES & DEVELOPMENT

Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state

(2013) A. Le Thomas et al.   GENES & DEVELOPMENT

Homoeologous chromosomes of Xenopus laevis are highly conserved after whole-genome duplication

(2013) Y Uno et al.   HEREDITY

An Ancient Transcription Factor Initiates the Burst of piRNA Production during Early Meiosis in Mouse Testes

(2013) Xin Zhiguo Li et al.   MOLECULAR CELL

miR-TRAP: A Benchtop Chemical Biology Strategy to Identify microRNA Targets

(2012) Huricha Baigude et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Extensive alternative polyadenylation during zebrafish development

(2012) I. Ulitsky et al.   GENOME RESEARCH

Structure and function of Zucchini endoribonuclease in piRNA biogenesis

(2012) Hiroshi Nishimasu et al.   NATURE

The structural biochemistry of Zucchini implicates it as a nuclease in piRNA biogenesis

(2012) Jonathan J. Ipsaro et al.   NATURE

Differential analysis of gene regulation at transcript resolution with RNA-seq

(2012) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments

(2012) Nicholas T Ingolia et al.   Nature Protocols

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Mili and Miwi target RNA repertoire reveals piRNA biogenesis and function of Miwi in spermiogenesis

(2012) Anastassios Vourekas et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

An alternative mode of microRNA target recognition

(2012) Sung Wook Chi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Crystal structure of the primary piRNA biogenesis factor Zucchini reveals similarity to the bacterial PLD endonuclease Nuc

(2012) F. Voigt et al.   RNA

Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila

(2012) Peter Smibert et al.   Cell Reports

Uniting Germline and Stem Cells: The Function of Piwi Proteins and the piRNA Pathway in Diverse Organisms

(2011) Celina Juliano et al.   Annual Review of Genetics

Identification of a Polo-like Kinase 4-Dependent Pathway for De Novo Centriole Formation

(2011) Frank Eckerdt et al.   CURRENT BIOLOGY

Vreteno, a gonad-specific protein, is essential for germline development and primary piRNA biogenesis in Drosophila

(2011) A. L. Zamparini et al.   DEVELOPMENT

MITOPLD Is a Mitochondrial Protein Essential for Nuage Formation and piRNA Biogenesis in the Mouse Germline

(2011) Toshiaki Watanabe et al.   DEVELOPMENTAL CELL

piRNA-Associated Germline Nuage Formation and Spermatogenesis Require MitoPLD Profusogenic Mitochondrial-Surface Lipid Signaling

(2011) Huiyan Huang et al.   DEVELOPMENTAL CELL

PIWI-interacting small RNAs: the vanguard of genome defence

(2011) Mikiko C. Siomi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Genome-wide identification of Ago2 binding sites from mouse embryonic stem cells with and without mature microRNAs

(2011) Anthony K L Leung et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

piRNA profiling during specific stages of mouse spermatogenesis

(2011) H. Gan et al.   RNA

Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP

(2010) Markus Hafner et al.   CELL

Aubergine is a component of a nanos mRNA localization complex

(2010) Agata N. Becalska et al.   DEVELOPMENTAL BIOLOGY

Identification of germ plasm-associated transcripts by microarray analysis of Xenopus vegetal cortex RNA

(2010) Tawny N. Cuykendall et al.   DEVELOPMENTAL DYNAMICS

Probing the initiation and effector phases of the somatic piRNA pathway in Drosophila

(2010) A. D. Haase et al.   GENES & DEVELOPMENT

Roles for the Yb body components Armitage and Yb in primary piRNA biogenesis in Drosophila

(2010) K. Saito et al.   GENES & DEVELOPMENT

Arginine Methylation of Vasa Protein Is Conserved across Phyla

(2010) Yohei Kirino et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Identification of vegetal RNA-localization elements in Xenopus oocytes

(2010) Maike Claußen et al.   METHODS

Maternal mRNA deadenylation and decay by the piRNA pathway in the early Drosophila embryo

(2010) Christel Rouget et al.   NATURE

Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans

(2010) Dimitrios G Zisoulis et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A new bioinformatics analysis tools framework at EMBL-EBI

(2010) M. Goujon et al.   NUCLEIC ACIDS RESEARCH

The Genome of the Western Clawed Frog Xenopus tropicalis

(2010) U. Hellsten et al.   SCIENCE

Specialized piRNA Pathways Act in Germline and Somatic Tissues of the Drosophila Ovary

(2009) Colin D. Malone et al.   CELL

A Broadly Conserved Pathway Generates 3′UTR-Directed Primary piRNAs

(2009) Nicolas Robine et al.   CURRENT BIOLOGY

Suppression of the immune response potentiates tadpole tail regeneration during the refractory period

(2009) T. Fukazawa et al.   DEVELOPMENT

The maternal-to-zygotic transition: a play in two acts

(2009) W. Tadros et al.   DEVELOPMENT

Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi

(2009) Nelson C Lau et al.   EMBO JOURNAL

Proteomic analysis of murine Piwi proteins reveals a role for arginine methylation in specifying interaction with Tudor family members

(2009) V. V. Vagin et al.   GENES & DEVELOPMENT

Abundant primary piRNAs, endo-siRNAs, and microRNAs in a Drosophila ovary cell line

(2009) N. C. Lau et al.   GENOME RESEARCH

Abundant and dynamically expressed miRNAs, piRNAs, and other small RNAs in the vertebrate Xenopus tropicalis

(2009) J. Armisen et al.   GENOME RESEARCH

Action at a distance during cytokinesis

(2009) George von Dassow et al.   JOURNAL OF CELL BIOLOGY

A regulatory circuit for piwi by the large Maf gene traffic jam in Drosophila

(2009) Kuniaki Saito et al.   NATURE

Argonaute HITS-CLIP decodes microRNA–mRNA interaction maps

(2009) Sung Wook Chi et al.   NATURE

Arginine methylation of Piwi proteins catalysed by dPRMT5 is required for Ago3 and Aub stability

(2009) Yohei Kirino et al.   NATURE CELL BIOLOGY

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Two Piwi proteins, Xiwi and Xili, are expressed in the Xenopus female germline

(2009) A. Wilczynska et al.   RNA

Cytoplasmic Compartmentalization of the Fetal piRNA Pathway in Mice

(2009) Alexei A. Aravin et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Translational control by cytoplasmic polyadenylation in Xenopus oocytes

(2008) Helois E. Radford et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Zili is required for germ cell differentiation and meiosis in zebrafish

(2008) Saskia Houwing et al.   EMBO JOURNAL

MILI, a PIWI-interacting RNA-binding Protein, Is Required for Germ Line Stem Cell Self-renewal and Appears to Positively Regulate Translation

(2008) Yingdee Unhavaithaya et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A piRNA Pathway Primed by Individual Transposons Is Linked to De Novo DNA Methylation in Mice

(2008) Alexei A. Aravin et al.   MOLECULAR CELL

HITS-CLIP yields genome-wide insights into brain alternative RNA processing

(2008) Donny D. Licatalosi et al.   NATURE

Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals

(2008) Andrew Grimson et al.   NATURE

A universal classification of eukaryotic transposable elements implemented in Repbase

(2008) Vladimir V. Kapitonov et al.   NATURE REVIEWS GENETICS

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH

Endogenous siRNAs Derived from Transposons and mRNAs in Drosophila Somatic Cells

(2008) M. Ghildiyal et al.   SCIENCE