Biochemical deconstruction and reconstruction of Nuclear Matrix reveals the layers of nuclear organization

On the role of phase separation in the biogenesis of membraneless compartments

(2022) Andrea Musacchio   EMBO JOURNAL

In situ nuclear matrix preparation in Drosophila melanogaster embryos/tissues and its use in studying the components of nuclear architecture

(2022) Rashmi U Pathak et al.   Nucleus

Systematic discovery of biomolecular condensate-specific protein phosphorylation

(2022) Sindhuja Sridharan et al.   Nature Chemical Biology

ZC3HC1 is a structural element of the nuclear basket effecting interlinkage of TPR polypeptides

(2022) Philip Gunkel et al.   MOLECULAR BIOLOGY OF THE CELL

Keeping up with the condensates: The retention, gain, and loss of nuclear membrane-less organelles

(2022) Emma Lacroix et al.   Frontiers in Molecular Biosciences

A new CUT&RUN low volume-urea (LoV-U) protocol optimized for transcriptional co-factors uncovers Wnt/β-catenin tissue-specific genomic targets

(2022) Gianluca Zambanini et al.   DEVELOPMENT

GAGA factor: a multifunctional pioneering chromatin protein

(2021) Darya Chetverina et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

HP1 proteins compact DNA into mechanically and positionally stable phase separated domains

(2021) Madeline M Keenen et al.   eLife

Nascent RNA scaffolds contribute to chromosome territory architecture and counter chromatin compaction

(2021) Kevin Michael Creamer et al.   MOLECULAR CELL

The rise of proteome‐wide biophysics

(2021) Andre Mateus et al.   Molecular Systems Biology

Nuclear and cytoplasmic huntingtin inclusions exhibit distinct biochemical composition, interactome and ultrastructural properties

(2021) Nathan Riguet et al.   Nature Communications

Visualizing Molecular Architectures of Cellular Condensates: Hints of Complex Coacervation Scenarios

(2020) Sara Kathrin Goetz et al.   DEVELOPMENTAL CELL

The nucleolus as a multiphase liquid condensate

(2020) Denis L. J. Lafontaine et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Identification of Evolutionarily Conserved Nuclear Matrix Proteins and Their Prokaryotic Origins

(2020) Rahul Sureka et al.   JOURNAL OF PROTEOME RESEARCH

Nonlinear mechanics of lamin filaments and the meshwork topology build an emergent nuclear lamina

(2020) K. Tanuj Sapra et al.   Nature Communications

Proteome-wide solubility and thermal stability profiling reveals distinct regulatory roles for ATP

(2019) Sindhuja Sridharan et al.   Nature Communications

Differential contribution of steady‐state RNA and active transcription in chromatin organization

(2019) A Rasim Barutcu et al.   EMBO REPORTS

ShinyGO: a graphical gene-set enrichment tool for animals and plants

(2019) Steven Xijin Ge et al.   BIOINFORMATICS

Birth of Nucleolar Compartments: Phase Separation-Driven Ribosomal RNA Sorting and Processing

(2019) Denis L.J. Lafontaine   MOLECULAR CELL

Prion-like low-complexity sequences: Key regulators of protein solubility and phase behavior

(2018) Titus Franzmann et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Comparison of Nuclear Matrix and Mitotic Chromosome Scaffold proteins in Drosophila S2 cells – Transmission of hallmarks of nuclear organization through mitosis

(2018) Rahul Sureka et al.   MOLECULAR & CELLULAR PROTEOMICS

Systematic Characterization of Stress-Induced RNA Granulation

(2018) Sim Namkoong et al.   MOLECULAR CELL

Proteome-wide identification of ubiquitin interactions using UbIA-MS

(2018) Xiaofei Zhang et al.   Nature Protocols

Quantitative proteomics of the mitotic chromosome scaffold reveals the association of BAZ1B with chromosomal axes

(2018) Shinya Ohta et al.   MOLECULAR & CELLULAR PROTEOMICS

Geometric partitioning of cohesin and condensin are a consequence of chromatin loops

(2018) Josh Lawrimore et al.   MOLECULAR BIOLOGY OF THE CELL

X-ray crystallographic analysis of time-dependent binding of guanidine hydrochloride to HEWL: First steps during protein unfolding

(2018) Tushar Raskar et al.   INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES

InteractiVenn: a web-based tool for the analysis of sets through Venn diagrams

(2015) Henry Heberle et al.   BMC BIOINFORMATICS

ClustVis: a web tool for visualizing clustering of multivariate data using Principal Component Analysis and heatmap

(2015) Tauno Metsalu et al.   NUCLEIC ACIDS RESEARCH

Genome-wide mapping of matrix attachment regions in Drosophila melanogaster

(2014) Rashmi U Pathak et al.   BMC GENOMICS

A requiem to the nuclear matrix: from a controversial concept to 3D organization of the nucleus

(2014) S. V. Razin et al.   CHROMOSOMA

The Quantitative Nuclear Matrix Proteome as a Biochemical Snapshot of Nuclear Organization

(2014) Rudolf Engelke et al.   JOURNAL OF PROTEOME RESEARCH

The RNA Polymerase II Carboxy-Terminal Domain (CTD) Code

(2013) Dirk Eick et al.   CHEMICAL REVIEWS

AAGAG repeat RNA is an essential component of nuclear matrix inDrosophila

(2013) Rashmi Pathak et al.   RNA Biology

The Human Nuclear Pore Complex as Revealed by Cryo-Electron Tomography

(2012) Tal Maimon et al.   STRUCTURE

eXIST with matrix-associated proteins

(2011) Shinichi Nakagawa et al.   TRENDS IN CELL BIOLOGY

Compartmentalization of the nucleus

(2011) Lauren Meldi et al.   TRENDS IN CELL BIOLOGY

Polypurine-repeat-containing RNAs: a novel class of long non-coding RNA in mammalian cells

(2010) R. Zheng et al.   JOURNAL OF CELL SCIENCE

Analysis of Detergent-Insoluble and Whole Cell Lysate Fractions of Resting Neutrophils Using High-Resolution Mass Spectrometry

(2010) Gisele G. Tomazella et al.   JOURNAL OF PROTEOME RESEARCH

Nuclear Matrix Proteome Analysis ofDrosophila melanogaster

(2010) Satish Kallappagoudar et al.   MOLECULAR & CELLULAR PROTEOMICS

Analysis of insoluble proteins

(2009) Sarah Trimpin et al.   BIOTECHNIQUES

Proteome analysis of human nuclear insoluble fractions

(2009) Hideaki Takata et al.   GENES TO CELLS

Urea, but not guanidinium, destabilizes proteins by forming hydrogen bonds to the peptide group

(2009) Woon Ki Lim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bimodal protein solubility distribution revealed by an aggregation analysis of the entire ensemble of Escherichia coli proteins

(2009) T. Niwa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA