Using DMS-MaPseq to uncover the roles of DEAD-box proteins in ribosome assembly

The modifying enzyme Tsr3 establishes the hierarchy of Rio kinase activity in 40S ribosome assembly

(2022) Haina Huang et al.   RNA

Assembly factors chaperone ribosomal RNA folding by isolating helical junctions that are prone to misfolding

(2021) Haina Huang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Determination of RNA structural diversity and its role in HIV-1 RNA splicing

(2020) Phillip J. Tomezsko et al.   NATURE

90S pre-ribosome transformation into the primordial 40S subunit

(2020) Jingdong Cheng et al.   SCIENCE

Cryo-EM structure of 90S small ribosomal subunit precursors in transition states

(2020) Yifei Du et al.   SCIENCE

An open interface in the pre-80S ribosome coordinated by ribosome assembly factors Tsr1 and Dim1 enables temporal regulation of Fap7

(2020) Jay Rai et al.   RNA

Thermophile 90S Pre-ribosome Structures Reveal the Reverse Order of Co-transcriptional 18S rRNA Subdomain Integration

(2019) Jingdong Cheng et al.   MOLECULAR CELL

Transient Protein-RNA Interactions Guide Nascent Ribosomal RNA Folding

(2019) Olivier Duss et al.   CELL

A kinase-dependent checkpoint prevents escape of immature ribosomes into the translating pool

(2019) Melissa D. Parker et al.   PLOS BIOLOGY

Structure of a eukaryotic cytoplasmic pre‐40S ribosomal subunit

(2018) Alain Scaiola et al.   EMBO JOURNAL

Modular assembly of the nucleolar pre-60S ribosomal subunit

(2018) Zahra Assur Sanghai et al.   NATURE

Eurokaryotic Ribosome Assembly

(2018) Jochen Baßler et al.   Annual Review of Biochemistry

Ribosome assembly coming into focus

(2018) Sebastian Klinge et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The ATPase Fap7 Tests the Ability to Carry Out Translocation-like Conformational Changes and Releases Dim1 during 40S Ribosome Maturation

(2017) Homa Ghalei et al.   MOLECULAR CELL

3.2-Å-resolution structure of the 90S preribosome before A1 pre-rRNA cleavage

(2017) Jingdong Cheng et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The complete structure of the small-subunit processome

(2017) Jonas Barandun et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Accurate detection of chemical modifications in RNA by mutational profiling (MaP) with ShapeMapper 2

(2017) Steven Busan et al.   RNA

Structural Heterogeneity in Pre-40S Ribosomes

(2017) Matthew C. Johnson et al.   STRUCTURE

Interdependent action of KH domain proteins Krr1 and Dim2 drive the 40S platform assembly

(2017) Miriam Sturm et al.   Nature Communications

High-throughput RNA structure probing reveals critical folding events during early 60S ribosome assembly in yeast

(2017) Elena Burlacu et al.   Nature Communications

3.2-Å-resolution structure of the 90S preribosome before A1 pre-rRNA cleavage

(2017) Jingdong Cheng et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The complete structure of the small-subunit processome

(2017) Jonas Barandun et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Cryo-EM structure of a late pre-40S ribosomal subunit from Saccharomyces cerevisiae

(2017) André Heuer et al.   eLife

DMS-MaPseq for genome-wide or targeted RNA structure probing in vivo

(2016) Meghan Zubradt et al.   NATURE METHODS

StructureFold: genome-wide RNA secondary structure mapping and reconstructionin vivo

(2015) Yin Tang et al.   BIOINFORMATICS

Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

(2014) Hongshan Jiang et al.   BMC BIOINFORMATICS

Snapshots of pre-rRNA structural flexibility reveal eukaryotic 40S assembly dynamics at nucleotide resolution

(2014) Ralph D. Hector et al.   NUCLEIC ACIDS RESEARCH

Bypass of the pre-60S ribosomal quality control as a pathway to oncogenesis

(2014) S. O. Sulima et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Influence of Dimethylsulfoxide on RNA Structure and Ligand Binding

(2013) Janghyun Lee et al.   ANALYTICAL CHEMISTRY

In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features

(2013) Yiliang Ding et al.   NATURE

Has1 regulates consecutive maturation and processing steps for assembly of 60S ribosomal subunits

(2013) Jill A. Dembowski et al.   NUCLEIC ACIDS RESEARCH

DExD/H-box RNA helicases in ribosome biogenesis

(2013) Roman Martin et al.   RNA Biology

Thermostable group II intron reverse transcriptase fusion proteins and their use in cDNA synthesis and next-generation RNA sequencing

(2013) S. Mohr et al.   RNA

A Translation-Like Cycle Is a Quality Control Checkpoint for Maturing 40S Ribosome Subunits

(2012) Bethany S. Strunk et al.   CELL

Proofreading of pre-40S ribosome maturation by a translation initiation factor and 60S subunits

(2012) Simon Lebaron et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Ribosome Assembly Factors Prevent Premature Translation Initiation by 40S Assembly Intermediates

(2011) B. S. Strunk et al.   SCIENCE

Defining the Pathway of Cytoplasmic Maturation of the 60S Ribosomal Subunit

(2010) Kai-Yin Lo et al.   MOLECULAR CELL

Nob1 binds the single-stranded cleavage site D at the 3'-end of 18S rRNA with its PIN domain

(2009) A. C. Lamanna et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Powering through ribosome assembly

(2009) B. S. Strunk et al.   RNA