Sexually dimorphic RNA helicases DDX3X and DDX3Y differentially regulate RNA metabolism through phase separation

FUS and TDP-43 Phases in Health and Disease

(2021) Bede Portz et al.   TRENDS IN BIOCHEMICAL SCIENCES

TDP-43 condensation properties specify its RNA-binding and regulatory repertoire

(2021) Martina Hallegger et al.   CELL

UTX condensation underlies its tumour-suppressive activity

(2021) Bi Shi et al.   NATURE

DDX3X and DDX3Y are redundant in protein synthesis

(2021) Srivats Venkataramanan et al.   RNA

Modulation of RNA Condensation by the DEAD-Box Protein eIF4A

(2020) Devin Tauber et al.   CELL

Pathogenic DDX3X Mutations Impair RNA Metabolism and Neurogenesis during Fetal Cortical Development

(2020) Ashley L. Lennox et al.   NEURON

Condensation of Ded1p Promotes a Translational Switch from Housekeeping to Stress Protein Production

(2020) Christiane Iserman et al.   CELL

Quantitative analysis of Y-Chromosome gene expression across 36 human tissues

(2020) Alexander K Godfrey et al.   GENOME RESEARCH

A Cluster of Autism-Associated Variants on X-Linked NLGN4X Functionally Resemble NLGN4Y

(2020) Thien A. Nguyen et al.   NEURON

Identifying sequence perturbations to an intrinsically disordered protein that determine its phase-separation behavior

(2020) Benjamin S. Schuster et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DDX3X Suppresses the Susceptibility of Hindbrain Lineages to Medulloblastoma

(2020) Deanna M. Patmore et al.   DEVELOPMENTAL CELL

Sex and gender: modifiers of health, disease, and medicine

(2020) Franck Mauvais-Jarvis et al.   LANCET

Male-biased aganglionic megacolon in the TashT mouse model of Hirschsprung disease involves upregulation of p53 protein activity and Ddx3y gene expression

(2020) Tatiana Cardinal et al.   PLoS Genetics

Stress Granule Assembly Can Facilitate but Is Not Required for TDP-43 Cytoplasmic Aggregation

(2020) Nikita Fernandes et al.   Biomolecules

Spatiotemporal Proteomic Analysis of Stress Granule Disassembly Using APEX Reveals Regulation by SUMOylation and Links to ALS Pathogenesis

(2020) Hagai Marmor-Kollet et al.   MOLECULAR CELL

Multicolour single-molecule tracking of mRNA interactions with RNP granules

(2019) Stephanie L. Moon et al.   NATURE CELL BIOLOGY

Three de novo DDX3X variants associated with distinctive brain developmental abnormalities and brain tumor in intellectually disabled females

(2019) Marcello Scala et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Atlas of Subcellular RNA Localization Revealed by APEX-Seq

(2019) Furqan M. Fazal et al.   CELL

DDX 3X and specific initiation factors modulate FMR 1 repeat‐associated non‐AUG‐initiated translation

(2019) Alexander E Linsalata et al.   EMBO REPORTS

The mechanism of RNA duplex recognition and unwinding by DEAD-box helicase DDX3X

(2019) He Song et al.   Nature Communications

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

(2019) Yingyao Zhou et al.   Nature Communications

The X-Linked DDX3X RNA Helicase Dictates Translation Reprogramming and Metastasis in Melanoma

(2019) Bengt Phung et al.   Cell Reports

Inherited and De Novo Genetic Risk for Autism Impacts Shared Networks

(2019) Elizabeth K. Ruzzo et al.   CELL

Proximity RNA Labeling by APEX-Seq Reveals the Organization of Translation Initiation Complexes and Repressive RNA Granules

(2019) Alejandro Padrón et al.   MOLECULAR CELL

DEAD-box ATPases are global regulators of phase-separated organelles

(2019) Maria Hondele et al.   NATURE

Phospho-dependent phase separation of FMRP and CAPRIN1 recapitulates regulation of translation and deadenylation

(2019) Tae Hun Kim et al.   SCIENCE

TcellSubC: An Atlas of the Subcellular Proteome of Human T Cells

(2019) Rubin Narayan Joshi et al.   Frontiers in Immunology

Stress granule mediated protein aggregation and underlying gene defects in the FTD-ALS spectrum

(2019) Yalda Baradaran-Heravi et al.   NEUROBIOLOGY OF DISEASE

CRISPR-Cas9 Screens Identify the RNA Helicase DDX3X as a Repressor of C9ORF72 (GGGGCC)n Repeat-Associated Non-AUG Translation

(2019) Weiwei Cheng et al.   NEURON

Context-Dependent and Disease-Specific Diversity in Protein Interactions within Stress Granules

(2018) Sebastian Markmiller et al.   CELL

A Molecular Grammar Governing the Driving Forces for Phase Separation of Prion-like RNA Binding Proteins

(2018) Jie Wang et al.   CELL

Nuclear-Import Receptors Reverse Aberrant Phase Transitions of RNA-Binding Proteins with Prion-like Domains

(2018) Lin Guo et al.   CELL

FUS Phase Separation Is Modulated by a Molecular Chaperone and Methylation of Arginine Cation-π Interactions

(2018) Seema Qamar et al.   CELL

UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs

(2018) Malgorzata Gozdecka et al.   NATURE GENETICS

Sex differences in Alzheimer disease — the gateway to precision medicine

(2018) Maria Teresa Ferretti et al.   Nature Reviews Neurology

RNA buffers the phase separation behavior of prion-like RNA binding proteins

(2018) Shovamayee Maharana et al.   SCIENCE

TDP-43 regulation of stress granule dynamics in neurodegenerative disease-relevant cell types

(2018) Yousra Khalfallah et al.   Scientific Reports

Pi-Pi contacts are an overlooked protein feature relevant to phase separation

(2018) Robert McCoy Vernon et al.   eLife

Precision and accuracy of single-molecule FRET measurements—a multi-laboratory benchmark study

(2018) Björn Hellenkamp et al.   NATURE METHODS

Phenotypic expansion in DDX3X - a common cause of intellectual disability in females

(2018) Xia Wang et al.   Annals of Clinical and Translational Neurology

Dysregulation of autophagy and stress granule-related proteins in stress-driven Tau pathology

(2018) Joana Margarida Silva et al.   CELL DEATH AND DIFFERENTIATION

DDX3 Participates in Translational Control of Inflammation Induced by Infections and Injuries

(2018) Yu-Chang Ku et al.   MOLECULAR AND CELLULAR BIOLOGY

Acetylation of intrinsically disordered regions regulates phase separation

(2018) Makoto Saito et al.   Nature Chemical Biology

The RNA helicase DDX3X is an essential mediator of innate antimicrobial immunity

(2018) Daniel Szappanos et al.   PLoS Pathogens

Quantitative Analysis of Human Red Blood Cell Proteome

(2017) Agata H. Bryk et al.   JOURNAL OF PROTEOME RESEARCH

The Stress Granule Transcriptome Reveals Principles of mRNA Accumulation in Stress Granules

(2017) Anthony Khong et al.   MOLECULAR CELL

ATP as a biological hydrotrope

(2017) Avinash Patel et al.   SCIENCE

Proteomic analysis of FUS interacting proteins provides insights into FUS function and its role in ALS

(2016) Marisa Kamelgarn et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

ATPase-Modulated Stress Granules Contain a Diverse Proteome and Substructure

(2016) Saumya Jain et al.   CELL

RNA Remodeling Activity of DEAD Box Proteins Tuned by Protein Concentration, RNA Length, and ATP

(2016) Younghoon Kim et al.   MOLECULAR CELL

Principles and Properties of Stress Granules

(2016) David S.W. Protter et al.   TRENDS IN CELL BIOLOGY

Vinca alkaloid drugs promote stress-induced translational repression and stress granule formation

(2016) Witold Szaflarski et al.   Oncotarget

Cancer-associated DDX3X mutations drive stress granule assembly and impair global translation

(2016) Yasmine A. Valentin-Vega et al.   Scientific Reports

Mutations in DDX3X Are a Common Cause of Unexplained Intellectual Disability with Gender-Specific Effects on Wnt Signaling

(2015) Lot Snijders Blok et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Phase Separation by Low Complexity Domains Promotes Stress Granule Assembly and Drives Pathological Fibrillization

(2015) Amandine Molliex et al.   CELL

Autoinhibitory Interdomain Interactions and Subfamily-specific Extensions Redefine the Catalytic Core of the Human DEAD-box Protein DDX3

(2015) Stephen N. Floor et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

DDX3Y, a Male-Specific Region of Y Chromosome Gene, May Modulate Neuronal Differentiation

(2015) Haghighat Vakilian et al.   JOURNAL OF PROTEOME RESEARCH

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

The disordered P granule protein LAF-1 drives phase separation into droplets with tunable viscosity and dynamics

(2015) Shana Elbaum-Garfinkle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PLAAC: a web and command-line application to identify proteins with prion-like amino acid composition

(2014) A. K. Lancaster et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Pathological stress granules in Alzheimer’s disease

(2014) Peter E.A. Ash et al.   BRAIN RESEARCH

The Ded1/DDX3 subfamily of DEAD-box RNA helicases

(2014) Deepak Sharma et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Sex differences in cardiomyopathies

(2014) Sven Meyer et al.   EUROPEAN JOURNAL OF HEART FAILURE

Landscape of DNA methylation on the X chromosome reflects CpG density, functional chromatin state and X-chromosome inactivation

(2014) Allison M. Cotton et al.   HUMAN MOLECULAR GENETICS

Mammalian Y chromosomes retain widely expressed dosage-sensitive regulators

(2014) Daniel W. Bellott et al.   NATURE

The contribution of de novo coding mutations to autism spectrum disorder

(2014) Ivan Iossifov et al.   NATURE

Deciphering key features in protein structures with the new ENDscript server

(2014) Xavier Robert et al.   NUCLEIC ACIDS RESEARCH

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

DEAD-box protein DDX3 associates with eIF4F to promote translation of selected mRNAs

(2012) Ricardo Soto-Rifo et al.   EMBO JOURNAL

Requirements for Stress Granule Recruitment of Fused in Sarcoma (FUS) and TAR DNA-binding Protein of 43 kDa (TDP-43)

(2012) Eva Bentmann et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Global analysis of yeast mRNPs

(2012) Sarah F Mitchell et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Selenite targets eIF4E-binding protein-1 to inhibit translation initiation and induce the assembly of non-canonical stress granules

(2012) Ken Fujimura et al.   NUCLEIC ACIDS RESEARCH

Critical roles of RNA helicase DDX3 and its interactions with eIF4E/PABP1 in stress granule assembly and stress response

(2011) Jing-Wen Shih et al.   BIOCHEMICAL JOURNAL

The Human Mitochondrial Transcriptome

(2011) Tim R. Mercer et al.   CELL

Molecular Determinants and Genetic Modifiers of Aggregation and Toxicity for the ALS Disease Protein FUS/TLS

(2011) Zhihui Sun et al.   PLOS BIOLOGY

The sex ratio in amyotrophic lateral sclerosis: A population based study

(2010) Zita R. Manjaly et al.   Amyotrophic Lateral Sclerosis

Mutations in maltose-binding protein that alter affinity and solubility properties

(2010) Iris H. Walker et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

PONDR-FIT: A meta-predictor of intrinsically disordered amino acids

(2010) Bin Xue et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Effects of gender in amyotrophic lateral sclerosis

(2010) Pamela A. McCombe et al.   Gender Medicine

Eukaryotic Stress Granules: The Ins and Outs of Translation

(2009) J. Ross Buchan et al.   MOLECULAR CELL

The DEAD-Box RNA Helicase DDX3 Associates with Export Messenger Ribonucleoproteins as well asTip-associated Protein and Participates in Translational Control

(2008) Ming-Chih Lai et al.   MOLECULAR BIOLOGY OF THE CELL

Human DDX3 functions in translation and interacts with the translation initiation factor eIF3

(2008) C.-S. Lee et al.   NUCLEIC ACIDS RESEARCH

The DEAD-Box RNA Helicase Ded1p Affects and Accumulates in Saccharomyces cerevisiae P-Bodies

(2007) Carla Beckham et al.   MOLECULAR BIOLOGY OF THE CELL