Sense overlapping transcripts in IS1341-type transposase genes are functional non-coding RNAs in archaea

Model Organisms Retain an “Ecological Memory” of Complex Ecologically Relevant Environmental Variation

(2014) Karlyn D. Beer et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis

(2014) Dominik Jäger et al.   BMC GENOMICS

An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation

(2014) Elisabeth J. Wurtmann et al.   MOLECULAR MICROBIOLOGY

A system-level model for the microbial regulatory genome

(2014) A. N. Brooks et al.   Molecular Systems Biology

Transcription Start Site Associated RNAs (TSSaRNAs) Are Ubiquitous in All Domains of Life

(2014) Livia S. Zaramela et al.   PLoS One

Conservation of Transcription Start Sites within Genes across a Bacterial Genus

(2014) W. Shao et al.   mBio

ISDra2transposition inDeinococcus radioduransis downregulated by TnpB

(2013) Cécile Pasternak et al.   MOLECULAR MICROBIOLOGY

Gene regulation by antisense transcription

(2013) Vicent Pelechano et al.   NATURE REVIEWS GENETICS

CompaRNA: a server for continuous benchmarking of automated methods for RNA secondary structure prediction

(2013) Tomasz Puton et al.   NUCLEIC ACIDS RESEARCH

Identification of CRISPR and riboswitch related RNAs among novel noncoding RNAs of the euryarchaeon Pyrococcus abyssi

(2011) Kounthéa Phok et al.   BMC GENOMICS

Rich Parameterization Improves RNA Structure Prediction

(2011) Shay Zakov et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Niche adaptation by expansion and reprogramming of general transcription factors

(2011) S. Turkarslan et al.   Molecular Systems Biology

Haloquadratum walsbyi : Limited Diversity in a Global Pond

(2011) Mike L. Dyall-Smith et al.   PLoS One

Integration and visualization of systems biology data in context of the genome

(2010) J Christopher Bare et al.   BMC BIOINFORMATICS

DNA recognition and the precleavage state during single-stranded DNA transposition in D. radiodurans

(2010) Alison Burgess Hickman et al.   EMBO JOURNAL

CyloFold: secondary structure prediction including pseudoknots

(2010) E. Bindewald et al.   NUCLEIC ACIDS RESEARCH

Developmental expression of non-coding RNAs in Chlamydia trachomatis during normal and persistent growth

(2010) Y. M. AbdelRahman et al.   NUCLEIC ACIDS RESEARCH

Irradiation-Induced Deinococcus radiodurans Genome Fragmentation Triggers Transposition of a Single Resident Insertion Sequence

(2010) Cécile Pasternak et al.   PLoS Genetics

Prevalence of transcription promoters within archaeal operons and coding sequences

(2009) Tie Koide et al.   Molecular Systems Biology

Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity

(2009) Rotem Sorek et al.   NATURE REVIEWS GENETICS

ISbrowser: an extension of ISfinder for visualizing insertion sequences in prokaryotic genomes

(2009) Pryavahiny Kichenaradja et al.   NUCLEIC ACIDS RESEARCH

Stem Loop Sequences Specific to Transposable Element IS605 Are Found Linked to Lipoprotein Genes in Borrelia Plasmids

(2009) Nicholas Delihas   PLoS One

Mechanism of IS200/IS605 Family DNA Transposases: Activation and Transposon-Directed Target Site Selection

(2008) Orsolya Barabas et al.   CELL

Evolution in the laboratory: The genome of Halobacterium salinarum strain R1 compared to that of strain NRC-1

(2008) F. Pfeiffer et al.   GENOMICS

The Vienna RNA Websuite

(2008) A. R. Gruber et al.   NUCLEIC ACIDS RESEARCH