Small RNA-mediated regulation of DNA dosage in the ciliate Oxytricha

Transgenerational function ofTetrahymenaPiwi protein Twi8p at distinctive noncoding RNA loci

(2017) Brian M. Farley et al.   RNA

Thousands of RNA-cached copies of whole chromosomes are present in the ciliate Oxytricha during development

(2017) Kelsi A. Lindblad et al.   RNA

Combinatorial DNA rearrangement facilitates the origin of new genes in ciliates

(2015) Xiao Chen et al.   Genome Biology and Evolution

The Architecture of a Scrambled Genome Reveals Massive Levels of Genomic Rearrangement during Development

(2014) Xiao Chen et al.   CELL

Dicer Promotes Transcription Termination at Sites of Replication Stress to Maintain Genome Stability

(2014) Stephane E. Castel et al.   CELL

Partial inhibition of Cdk1 in G2phase overrides the SAC and decouples mitotic events

(2014) Rachael A McCloy et al.   CELL CYCLE

Transcription-Independent Functions of an RNA Polymerase II Subunit, Rpb2, During Genome Rearrangement in the Ciliate, Oxytricha trifallax

(2014) J. S. Khurana et al.   GENETICS

Classification and Comparison of Small RNAs from Plants

(2013) Michael J. Axtell   Annual Review of Plant Biology

The sub-nanomolar binding of DNA-RNA hybrids by the single-chain Fv fragment of antibody S9.6

(2013) Damilola D. Phillips et al.   JOURNAL OF MOLECULAR RECOGNITION

RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond

(2013) Stephane E. Castel et al.   NATURE REVIEWS GENETICS

The Oxytricha trifallax Macronuclear Genome: A Complex Eukaryotic Genome with 16,000 Tiny Chromosomes

(2013) Estienne C. Swart et al.   PLOS BIOLOGY

Piwi-Interacting RNAs Protect DNA against Loss during Oxytricha Genome Rearrangement

(2012) Wenwen Fang et al.   CELL

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The Oxytricha trifallax Mitochondrial Genome

(2011) Estienne C. Swart et al.   Genome Biology and Evolution

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Genetic activities in micronuclei: Is the DNA entrapped in micronuclei lost for the cell?

(2010) Mariona Terradas et al.   MUTATION RESEARCH-REVIEWS IN MUTATION RESEARCH

RNA-mediated epigenetic regulation of DNA copy number

(2010) M. Nowacki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

(2010) Jeremy Goecks et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Sequence, biogenesis, and function of diverse small RNA classes bound to the Piwi family proteins of Tetrahymena thermophila

(2009) M. T. Couvillion et al.   GENES & DEVELOPMENT

qiRNA is a new type of small interfering RNA induced by DNA damage

(2009) Heng-Chi Lee et al.   NATURE

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

A Functional Role for Transposases in a Large Eukaryotic Genome

(2009) M. Nowacki et al.   SCIENCE

Drosophila endogenous small RNAs bind to Argonaute 2 in somatic cells

(2008) Yoshinori Kawamura et al.   NATURE

The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs

(2008) Katsutomo Okamura et al.   NATURE

Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes

(2008) Oliver H. Tam et al.   NATURE

An endogenous small interfering RNA pathway in Drosophila

(2008) Benjamin Czech et al.   NATURE

Silencing-associated and meiosis-specific small RNA pathways in Paramecium tetraurelia

(2008) Gersende Lepère et al.   NUCLEIC ACIDS RESEARCH

Endogenous siRNAs Derived from Transposons and mRNAs in Drosophila Somatic Cells

(2008) M. Ghildiyal et al.   SCIENCE