A high-resolution protein architecture of the budding yeast genome

Acute stress drives global repression through two independent RNA polymerase II stalling events in Saccharomyces

(2021) Nitika Badjatia et al.   Cell Reports

Organization and regulation of gene transcription

(2019) Patrick Cramer   NATURE

Structure of the inner kinetochore CCAN complex assembled onto a centromeric nucleosome

(2019) Kaige Yan et al.   NATURE

High‐resolution transcription maps reveal the widespread impact of roadblock termination in yeast

(2018) Tito Candelli et al.   EMBO JOURNAL

Widespread and precise reprogramming of yeast protein–genome interactions in response to heat shock

(2018) Vinesh Vinayachandran et al.   GENOME RESEARCH

Simplified ChIP-exo assays

(2018) Matthew J. Rossi et al.   Nature Communications

Structural visualization of RNA polymerase III transcription machineries

(2018) Yan Han et al.   Cell Discovery

Characterizing protein–DNA binding event subtypes in ChIP-exo data

(2018) Naomi Yamada et al.   BIOINFORMATICS

Structure of the origin recognition complex bound to DNA replication origin

(2018) Ningning Li et al.   NATURE

Transcription Factors Activate Genes through the Phase-Separation Capacity of Their Activation Domains

(2018) Ann Boija et al.   CELL

Dimensionality reduction for visualizing single-cell data using UMAP

(2018) Etienne Becht et al.   NATURE BIOTECHNOLOGY

SAGA Is a General Cofactor for RNA Polymerase II Transcription

(2017) Tiago Baptista et al.   MOLECULAR CELL

MNase-Sensitive Complexes in Yeast: Nucleosomes and Non-histone Barriers

(2017) Răzvan V. Chereji et al.   MOLECULAR CELL

Evidence that Mediator is essential for Pol II transcription, but is not a required component of the preinitiation complex in vivo

(2017) Natalia Petrenko et al.   eLife

Genomic Nucleosome Organization Reconstituted with Pure Proteins

(2016) Nils Krietenstein et al.   CELL

Tail and Kinase Modules Differently Regulate Core Mediator Recruitment and Function In Vivo

(2016) Célia Jeronimo et al.   MOLECULAR CELL

Molecular mechanisms of ribosomal protein gene coregulation

(2015) Rohit Reja et al.   GENES & DEVELOPMENT

Subnucleosomal Structures and Nucleosome Asymmetry across a Genome

(2014) Ho Sung Rhee et al.   CELL

Looping Back to Leap Forward: Transcription Enters a New Era

(2014) Michael Levine et al.   CELL

Genome-Wide Association of Mediator and RNA Polymerase II in Wild-Type and Mediator Mutant Yeast

(2014) Emily Paul et al.   MOLECULAR AND CELLULAR BIOLOGY

The budding yeast Centromere DNA Element II wraps a stable Cse4 hemisome in either orientation in vivo

(2014) Steven Henikoff et al.   eLife

The Composition, Functions, and Regulation of the Budding Yeast Kinetochore

(2013) Sue Biggins   GENETICS

Normalization of ChIP-seq data with control

(2012) Kun Liang et al.   BMC BIOINFORMATICS

Genome-wide Nucleosome Specificity and Directionality of Chromatin Remodelers

(2012) Kuangyu Yen et al.   CELL

Everything You Ever Wanted to Know About Saccharomyces cerevisiae Telomeres: Beginning to End

(2012) R. J. Wellinger et al.   GENETICS

Genome-wide structure and organization of eukaryotic pre-initiation complexes

(2012) Ho Sung Rhee et al.   NATURE

Comprehensive Genome-wide Protein-DNA Interactions Detected at Single-Nucleotide Resolution

(2011) Ho Sung Rhee et al.   CELL

Transcriptional Regulation inSaccharomyces cerevisiae: Transcription Factor Regulation and Function, Mechanisms of Initiation, and Roles of Activators and Coactivators

(2011) Steven Hahn et al.   GENETICS

The Acidic Transcription Activator Gcn4 Binds the Mediator Subunit Gal11/Med15 Using a Simple Protein Interface Forming a Fuzzy Complex

(2011) Peter S. Brzovic et al.   MOLECULAR CELL

XUTs are a class of Xrn1-sensitive antisense regulatory non-coding RNA in yeast

(2011) E. L. van Dijk et al.   NATURE

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Conserved nucleosome positioning defines replication origins

(2010) M. L. Eaton et al.   GENES & DEVELOPMENT

Uniform transitions of the general RNA polymerase II transcription complex

(2010) Andreas Mayer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Cse4 Is Part of an Octameric Nucleosome in Budding Yeast

(2009) Raymond Camahort et al.   MOLECULAR CELL

Bidirectional promoters generate pervasive transcription in yeast

(2009) Zhenyu Xu et al.   NATURE

A compiled and systematic reference map of nucleosome positions across the Saccharomyces cerevisiae genome

(2009) Cizhong Jiang et al.   GENOME BIOLOGY

GeneTrack--a genomic data processing and visualization framework

(2008) I. Albert et al.   BIOINFORMATICS

A Library of Yeast Transcription Factor Motifs Reveals a Widespread Function for Rsc3 in Targeting Nucleosome Exclusion at Promoters

(2008) Gwenael Badis et al.   MOLECULAR CELL