Proteotoxic stress reprograms the chromatin landscape of SUMO modification

The S. cerevisiae SUMO stress response is a conjugation–deconjugation cycle that targets the transcription machinery

(2015) Megan C. Lewicki et al.   Journal of Proteomics

N-Terminal Protein Tails Act as Aggregation Protective Entropic Bristles: The SUMO Case

(2014) Ricardo Graña-Montes et al.   BIOMACROMOLECULES

Polyphosphate Is a Primordial Chaperone

(2014) Michael J. Gray et al.   MOLECULAR CELL

Identification and analysis of endogenous SUMO1 and SUMO2/3 targets in mammalian cells and tissues using monoclonal antibodies

(2014) Sina V Barysch et al.   Nature Protocols

Proteome-Wide Identification of SUMO2 Modification Sites

(2014) T. Tammsalu et al.   Science Signaling

Transcription Factor Binding in Human Cells Occurs in Dense Clusters Formed around Cohesin Anchor Sites

(2013) Jian Yan et al.   CELL

Sumoylation at chromatin governs coordinated repression of a transcriptional program essential for cell growth and proliferation

(2013) H. Neyret-Kahn et al.   GENOME RESEARCH

Histone chaperones in nucleosome assembly and human disease

(2013) Rebecca J Burgess et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

SUMOylation is essential for sex-specific assembly and function of the Caenorhabditis elegans dosage compensation complex on X chromosomes

(2013) R. R. Pferdehirt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

An effective statistical evaluation of ChIPseq dataset similarity

(2012) Maria D. Chikina et al.   BIOINFORMATICS

Protein Group Modification and Synergy in the SUMO Pathway as Exemplified in DNA Repair

(2012) Ivan Psakhye et al.   CELL

SUMO-targeted ubiquitin E3 ligase RNF4 is required for the response of human cells to DNA damage

(2012) Y. Yin et al.   GENES & DEVELOPMENT

Quantitative Proteomics Reveals Factors Regulating RNA Biology as Dynamic Targets of Stress-induced SUMOylation inArabidopsis

(2012) Marcus J. Miller et al.   MOLECULAR & CELLULAR PROTEOMICS

The accessible chromatin landscape of the human genome

(2012) Robert E. Thurman et al.   NATURE

Identifying ChIP-seq enrichment using MACS

(2012) Jianxing Feng et al.   Nature Protocols

ENCODE Data in the UCSC Genome Browser: year 5 update

(2012) Kate R. Rosenbloom et al.   NUCLEIC ACIDS RESEARCH

mTOR Is Essential for the Proteotoxic Stress Response, HSF1 Activation and Heat Shock Protein Synthesis

(2012) Shiuh-Dih Chou et al.   PLoS One

The SUMO system controls nucleolar partitioning of a novel mammalian ribosome biogenesis complex

(2011) Elisabeth Finkbeiner et al.   EMBO JOURNAL

Purification and identification of endogenous polySUMO conjugates

(2011) Roland Bruderer et al.   EMBO REPORTS

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

(2011) L. Song et al.   GENOME RESEARCH

Comparative Proteomic Analysis Identifies a Role for SUMO in Protein Quality Control

(2011) M. H. Tatham et al.   Science Signaling

Mechanisms, regulation and consequences of protein SUMOylation

(2010) Kevin A. Wilkinson et al.   BIOCHEMICAL JOURNAL

ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data

(2010) Lihua J Zhu et al.   BMC BIOINFORMATICS

The SUMO protease SENP6 is a direct regulator of PML nuclear bodies

(2010) Neil Hattersley et al.   MOLECULAR BIOLOGY OF THE CELL

Recruitment Timing and Dynamics of Transcription Factors at the Hsp70 Loci in Living Cells

(2010) Katie L. Zobeck et al.   MOLECULAR CELL

The Heat Shock Response: Life on the Verge of Death

(2010) Klaus Richter et al.   MOLECULAR CELL

Heat shock factors: integrators of cell stress, development and lifespan

(2010) Malin Åkerfelt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

PML Nuclear Bodies

(2010) V. Lallemand-Breitenbach et al.   Cold Spring Harbor Perspectives in Biology

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

PARP-1 transcriptional activity is regulated by sumoylation upon heat shock

(2009) Nadine Martin et al.   EMBO JOURNAL

System-Wide Changes to SUMO Modifications in Response to Heat Shock

(2009) F. Golebiowski et al.   Science Signaling

Proteotoxic stress and inducible chaperone networks in neurodegenerative disease and aging

(2008) R. I. Morimoto   GENES & DEVELOPMENT

Genome-wide profiling of salt fractions maps physical properties of chromatin

(2008) S. Henikoff et al.   GENOME RESEARCH

Loss of SUMO1 in mice affects RanGAP1 localization and formation of PML nuclear bodies, but is not lethal as it can be compensated by SUMO2 or SUMO3

(2008) E. Evdokimov et al.   JOURNAL OF CELL SCIENCE

Sumo-1 Function Is Dispensable in Normal Mouse Development

(2008) F.-P. Zhang et al.   MOLECULAR AND CELLULAR BIOLOGY

RNF4 is a poly-SUMO-specific E3 ubiquitin ligase required for arsenic-induced PML degradation

(2008) Michael H. Tatham et al.   NATURE CELL BIOLOGY

High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay

(2008) L. Dolken et al.   RNA

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY