Histone H3 Variant Regulates RNA Polymerase II Transcription Termination and Dual Strand Transcription of siRNA Loci in Trypanosoma brucei

Histone H3.3 is required for endogenous retroviral element silencing in embryonic stem cells

(2015) Simon J. Elsässer et al.   NATURE

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Discovery of Unconventional Kinetochores in Kinetoplastids

(2014) Bungo Akiyoshi et al.   CELL

Histone variants: dynamic punctuation in transcription

(2014) C. M. Weber et al.   GENES & DEVELOPMENT

H2A.B facilitates transcription elongation at methylated CpG loci

(2014) Y. Chen et al.   GENOME RESEARCH

Identification of the Glucosyltransferase That Converts Hydroxymethyluracil to Base J in the Trypanosomatid Genome

(2014) Whitney Bullard et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Antigenic variation in African trypanosomes

(2014) David Horn   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Tb927.10.6900 encodes the glucosyltransferase involved in synthesis of base J in Trypanosoma brucei

(2014) Aarthi Sekar et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Nucleosomes Are Context-Specific, H2A.Z-Modulated Barriers to RNA Polymerase

(2014) Christopher M. Weber et al.   MOLECULAR CELL

Trypanosoma bruceihistone H1 inhibits RNA polymerase I transcription and is important for parasite fitnessin vivo

(2014) Ana C. Pena et al.   MOLECULAR MICROBIOLOGY

Regulation of transcription termination by glucosylated hydroxymethyluracil, base J, in Leishmania major and Trypanosoma brucei

(2014) D. Reynolds et al.   NUCLEIC ACIDS RESEARCH

Hira-Dependent Histone H3.3 Deposition Facilitates PRC2 Recruitment at Developmental Loci in ES Cells

(2013) Laura A. Banaszynski et al.   CELL

Kinetoplastid-specific histone variant functions are conserved in Leishmania major

(2013) Britta A. Anderson et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

MCM-BP Is Required for Repression of Life-Cycle Specific Genes Transcribed by RNA Polymerase I in the Mammalian Infectious Form of Trypanosoma brucei

(2013) Hee-Sook Kim et al.   PLoS One

Comparative transcriptome analysis of small noncoding RNAs in different stages of Trypanosoma brucei

(2013) L.-L. Zheng et al.   RNA

A Role for CF1A 3′ End Processing Complex in Promoter-Associated Transcription

(2013) Nadra Al Husini et al.   PLoS Genetics

Mosaic VSGs and the Scale of Trypanosoma brucei Antigenic Variation

(2013) James P. J. Hall et al.   PLoS Pathogens

Small interfering RNA-producing loci in the ancient parasitic eukaryote Trypanosoma brucei

(2012) Christian Tschudi et al.   BMC GENOMICS

Glucosylated Hydroxymethyluracil, DNA Base J, Prevents Transcriptional Readthrough in Leishmania

(2012) Henri G.A.M. van Luenen et al.   CELL

JBP1 and JBP2 Proteins Are Fe2+/2-Oxoglutarate-dependent Dioxygenases Regulating Hydroxylation of Thymidine Residues in Trypanosome DNA

(2012) Laura J. Cliffe et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Histone Variant H2A.Bbd Is Associated with Active Transcription and mRNA Processing in Human Cells

(2012) Michael Y. Tolstorukov et al.   MOLECULAR CELL

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

Histone H2A variants in nucleosomes and chromatin: more or less stable?

(2012) C. Bonisch et al.   NUCLEIC ACIDS RESEARCH

Genome organization is a major component of gene expression control in response to stress and during the cell division cycle in trypanosomes

(2012) S. Kelly et al.   Open Biology

Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids

(2011) Lakshminarayan M. Iyer et al.   CELL CYCLE

Epigenetic Regulation of Polymerase II Transcription Initiation in Trypanosoma cruzi: Modulation of Nucleosome Abundance, Histone Modification, and Polymerase Occupancy by O-Linked Thymine DNA Glucosylation

(2011) Dilrukshi Ekanayake et al.   EUKARYOTIC CELL

TbISWI Regulates Multiple Polymerase I (Pol I)-Transcribed Loci and Is Present at Pol II Transcription Boundaries in Trypanosoma brucei

(2011) Tara M. Stanne et al.   EUKARYOTIC CELL

Epigenetic Regulation of Transcription and Virulence in Trypanosoma cruzi by O-Linked Thymine Glucosylation of DNA

(2011) D. K. Ekanayake et al.   MOLECULAR AND CELLULAR BIOLOGY

USP10 deubiquitylates the histone variant H2A.Z and both are required for androgen receptor-mediated gene activation

(2011) Ryan Draker et al.   NUCLEIC ACIDS RESEARCH

Pseudogene-derived small interference RNAs regulate gene expression in African Trypanosoma brucei

(2011) Y.-Z. Wen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tet Proteins Can Convert 5-Methylcytosine to 5-Formylcytosine and 5-Carboxylcytosine

(2011) S. Ito et al.   SCIENCE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Distinct Factors Control Histone Variant H3.3 Localization at Specific Genomic Regions

(2010) Aaron D. Goldberg et al.   CELL

Molecular mechanisms underlying the control of antigenic variation in African trypanosomes

(2010) David Horn et al.   CURRENT OPINION IN MICROBIOLOGY

Essential role of p18Hamlet/SRCAP-mediated histone H2A.Z chromatin incorporation in muscle differentiation

(2010) Ana Cuadrado et al.   EMBO JOURNAL

The death-associated protein DAXX is a novel histone chaperone involved in the replication-independent deposition of H3.3

(2010) P. Drane et al.   GENES & DEVELOPMENT

Histone H3 trimethylated at lysine 4 is enriched at probable transcription start sites in Trypanosoma brucei

(2010) Jessica R. Wright et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Chromatin Environment of Histone Variant H3.3 Revealed by Quantitative Imaging and Genome-scale Chromatin and DNA Immunoprecipitation

(2010) Erwan Delbarre et al.   MOLECULAR BIOLOGY OF THE CELL

Heterochromatin formation in the mouse embryo requires critical residues of the histone variant H3.3

(2010) Angèle Santenard et al.   NATURE CELL BIOLOGY

Two thymidine hydroxylases differentially regulate the formation of glucosylated DNA at regions flanking polymerase II polycistronic transcription units throughout the genome of Trypanosoma brucei

(2010) Laura J. Cliffe et al.   NUCLEIC ACIDS RESEARCH

Daxx is an H3.3-specific histone chaperone and cooperates with ATRX in replication-independent chromatin assembly at telomeres

(2010) P. W. Lewis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Genome Sequence of Trypanosoma brucei gambiense, Causative Agent of Chronic Human African Trypanosomiasis

(2010) Andrew P. Jackson et al.   PLoS Neglected Tropical Diseases

Retention and Loss of RNA Interference Pathways in Trypanosomatid Protozoans

(2010) Lon-Fye Lye et al.   PLoS Pathogens

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Histone acetylations mark origins of polycistronic transcription in Leishmania major

(2009) Sean Thomas et al.   BMC GENOMICS

RAP1 Is Essential for Silencing Telomeric Variant Surface Glycoprotein Genes in Trypanosoma brucei

(2009) Xiaofeng Yang et al.   CELL

Four histone variants mark the boundaries of polycistronic transcription units in Trypanosoma brucei

(2009) T. N. Siegel et al.   GENES & DEVELOPMENT

Histone H2A.Z is essential for estrogen receptor signaling

(2009) N. Gevry et al.   GENES & DEVELOPMENT

The histone variant macroH2A1 marks repressed autosomal chromatin, but protects a subset of its target genes from silencing

(2009) M. J. Gamble et al.   GENES & DEVELOPMENT

Histone H3.3 incorporation provides a unique and functionally essential telomeric chromatin in embryonic stem cells

(2009) L. H. Wong et al.   GENOME RESEARCH

The histone variant macroH2A is an epigenetic regulator of key developmental genes

(2009) Marcus Buschbeck et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Bidirectional silencing of RNA polymerase I transcription by a strand switch region in Trypanosoma brucei

(2009) Simon Haenni et al.   NUCLEIC ACIDS RESEARCH

A native chromatin purification system for epigenomic profiling in Caenorhabditis elegans

(2009) Siew Loon Ooi et al.   NUCLEIC ACIDS RESEARCH

JBP1 and JBP2 are two distinct thymidine hydroxylases involved in J biosynthesis in genomic DNA of African trypanosomes

(2009) L. J. Cliffe et al.   NUCLEIC ACIDS RESEARCH

TriTrypDB: a functional genomic resource for the Trypanosomatidae

(2009) Martin Aslett et al.   NUCLEIC ACIDS RESEARCH

Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1

(2009) M. Tahiliani et al.   SCIENCE

Base J: Discovery, Biosynthesis, and Possible Functions

(2008) Piet Borst et al.   Annual Review of Microbiology

Histone Acetylation and Methylation at Sites Initiating Divergent Polycistronic Transcription inTrypanosoma cruzi

(2008) Patricia Respuela et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Telomeric Expression Sites Are Highly Conserved in Trypanosoma brucei

(2008) Christiane Hertz-Fowler et al.   PLoS One