Transcription levels of a noncoding RNA orchestrate opposing regulatory and cell fate outcomes in yeast

Regulated repression governs the cell fate promoter controlling yeast meiosis

(2020) Janis Tam et al.   Nature Communications

Regulation of gene expression by cis-acting long non-coding RNAs

(2019) Noa Gil et al.   NATURE REVIEWS GENETICS

Distinct transcriptional roles for Histone H3-K56 acetylation during the cell cycle in Yeast

(2019) Salih Topal et al.   Nature Communications

Regulation of CHD2 expression by the Chaserr long noncoding RNA gene is essential for viability

(2019) Aviv Rom et al.   Nature Communications

A regulatory circuit of two lncRNAs and a master regulator directs cell fate in yeast

(2018) Fabien Moretto et al.   Nature Communications

An atlas of human long non-coding RNAs with accurate 5′ ends

(2017) Chung-Chau Hon et al.   NATURE

Transcription of a 5' extended mRNA isoform directs dynamic chromatin changes and interference of a downstream promoter

(2017) Minghao Chia et al.   eLife

Transcription of the mating-type-regulated lncRNA IRT1 is governed by TORC1 and PKA

(2016) Fabien Moretto et al.   CURRENT GENETICS

Local regulation of gene expression by lncRNA promoters, transcription and splicing

(2016) Jesse M. Engreitz et al.   NATURE

Enhancers as non-coding RNA transcription units: recent insights and future perspectives

(2016) Wenbo Li et al.   NATURE REVIEWS GENETICS

Local potentiation of stress-responsive genes by upstream noncoding transcription

(2016) Naomichi Takemata et al.   NUCLEIC ACIDS RESEARCH

Transcription-coupled changes to chromatin underpin gene silencing by transcriptional interference

(2016) Ryan Ard et al.   NUCLEIC ACIDS RESEARCH

Expression homeostasis during DNA replication

(2016) Y. Voichek et al.   SCIENCE

Landscape and Dynamics of Transcription Initiation in the Malaria Parasite Plasmodium falciparum

(2016) Sophie H. Adjalley et al.   Cell Reports

Chromatin signatures at Notch-regulated enhancers reveal large-scale changes in H3K56ac upon activation

(2015) L. Skalska et al.   EMBO JOURNAL

Genome-wide profiling of polyadenylation sites reveals a link between selective polyadenylation and cancer metastasis

(2015) D.-P. Lai et al.   HUMAN MOLECULAR GENETICS

The landscape of long noncoding RNAs in the human transcriptome

(2015) Matthew K Iyer et al.   NATURE GENETICS

Histone exchange, chromatin structure and the regulation of transcription

(2015) Swaminathan Venkatesh et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Uncoupling histone turnover from transcription-associated histone H3 modifications

(2015) Paolo Ferrari et al.   NUCLEIC ACIDS RESEARCH

Linker histone H1 and H3K56 acetylation are antagonistic regulators of nucleosome dynamics

(2015) Morgan Bernier et al.   Nature Communications

Quality control of transcription start site selection by nonsense-mediated-mRNA decay

(2015) Christophe Malabat et al.   eLife

Inducible, tightly regulated and growth condition-independent transcription factor in Saccharomyces cerevisiae

(2014) Diana S.M. Ottoz et al.   NUCLEIC ACIDS RESEARCH

Long non-coding RNA-mediated transcriptional interference of a permease gene confers drug tolerance in fission yeast

(2014) Ryan Ard et al.   Nature Communications

Gene regulation by the act of long non-coding RNA transcription

(2013) Aleksandra E Kornienko et al.   BMC BIOLOGY

Long Noncoding RNAs: Past, Present, and Future

(2013) J. T. Y. Kung et al.   GENETICS

Roles for transcript leaders in translation and mRNA decay revealed by transcript leader sequencing

(2013) J. A. Arribere et al.   GENOME RESEARCH

Gene regulation by antisense transcription

(2013) Vicent Pelechano et al.   NATURE REVIEWS GENETICS

Acetylated histone H3K56 interacts with Oct4 to promote mouse embryonic stem cell pluripotency

(2013) Y. Tan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Recombination-Induced Tag Exchange (RITE) Cassette Series to Monitor Protein Dynamics in Saccharomyces cerevisiae

(2013) Marit Terweij et al.   G3-Genes Genomes Genetics

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Transcription of Two Long Noncoding RNAs Mediates Mating-Type Control of Gametogenesis in Budding Yeast

(2012) Folkert J. van Werven et al.   CELL

Set3 HDAC Mediates Effects of Overlapping Noncoding Transcription on Gene Induction Kinetics

(2012) TaeSoo Kim et al.   CELL

Spp1, a Member of the Set1 Complex, Promotes Meiotic DSB Formation in Promoters by Tethering Histone H3K4 Methylation Sites to Chromosome Axes

(2012) Vérane Sommermeyer et al.   MOLECULAR CELL

Set2 methylation of histone H3 lysine 36 suppresses histone exchange on transcribed genes

(2012) Swaminathan Venkatesh et al.   NATURE

Airn Transcriptional Overlap, But Not Its lncRNA Products, Induces Imprinted Igf2r Silencing

(2012) P. A. Latos et al.   SCIENCE

Histone exchange and histone modifications during transcription and aging

(2011) Chandrima Das et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Pervasive transcription – Lessons from yeast

(2011) Mathieu Tisseur et al.   BIOCHIMIE

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

lincRNAs act in the circuitry controlling pluripotency and differentiation

(2011) Mitchell Guttman et al.   NATURE

Regulation of entry into gametogenesis

(2011) F. J. van Werven et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Long noncoding RNAs and human disease

(2011) Orly Wapinski et al.   TRENDS IN CELL BIOLOGY

BigWig and BigBed: enabling browsing of large distributed datasets

(2010) W. J. Kent et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Intergenic transcription causes repression by directing nucleosome assembly

(2010) S. J. Hainer et al.   GENES & DEVELOPMENT

Functional Dissection of IME1 Transcription Using Quantitative Promoter-Reporter Screening

(2010) S. Kahana et al.   GENETICS

Acetylation of H3 K56 Is Required for RNA Polymerase II Transcript Elongation through Heterochromatin in Yeast

(2010) S. Varv et al.   MOLECULAR AND CELLULAR BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Evolution and Functions of Long Noncoding RNAs

(2009) Chris P. Ponting et al.   CELL

A Method for Genetically Installing Site-Specific Acetylation in Recombinant Histones Defines the Effects of H3 K56 Acetylation

(2009) Heinz Neumann et al.   MOLECULAR CELL

Bidirectional promoters generate pervasive transcription in yeast

(2009) Zhenyu Xu et al.   NATURE

Widespread bidirectional promoters are the major source of cryptic transcripts in yeast

(2009) Helen Neil et al.   NATURE

Toggle involving cis-interfering noncoding RNAs controls variegated gene expression in yeast

(2009) S. L. Bumgarner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetic Interactions Between Transcription Factors Cause Natural Variation in Yeast

(2009) J. Gerke et al.   SCIENCE

Meiosis I Is Established through Division-Specific Translational Control of a Cyclin

(2008) Thomas M. Carlile et al.   CELL

Histone chaperones in nucleosome eviction and histone exchange

(2008) Young-Jun Park et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs

(2008) Kouji Hirota et al.   NATURE

Acetylation in the globular core of histone H3 on lysine-56 promotes chromatin disassembly during transcriptional activation

(2008) Stephanie K. Williams et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cell Cycle– and Chaperone-Mediated Regulation of H3K56ac Incorporation in Yeast

(2008) Tommy Kaplan et al.   PLoS Genetics