Nascent RNA sequencing reveals a dynamic global transcriptional response at genes and enhancers to the natural medicinal compound celastrol

Transcriptional response to stress is pre-wired by promoter and enhancer architecture

(2017) Anniina Vihervaara et al.   Nature Communications

Divergence of a conserved elongation factor and transcription regulation in budding and fission yeast

(2016) Gregory T. Booth et al.   GENOME RESEARCH

Heat Shock Protein 90 Modulates Lipid Homeostasis by Regulating the Stability and Function of Sterol Regulatory Element-binding Protein (SREBP) and SREBP Cleavage-activating Protein

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Mammalian Heat Shock Response and Mechanisms Underlying Its Genome-wide Transcriptional Regulation

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RNA splicing is a primary link between genetic variation and disease

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Native Elongating Transcript Sequencing Reveals Human Transcriptional Activity at Nucleotide Resolution

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Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing

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Treatment of Obesity with Celastrol

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Celastrol Protects against Obesity and Metabolic Dysfunction through Activation of a HSF1-PGC1α Transcriptional Axis

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Celastrol induces unfolded protein response-dependent cell death in head and neck cancer

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Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning

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Identification of active transcriptional regulatory elements from GRO-seq data

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Direct inhibition of c-Myc-Max heterodimers by celastrol and celastrol-inspired triterpenoids

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High-Resolution Sequencing and Modeling Identifies Distinct Dynamic RNA Regulatory Strategies

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Rate of elongation by RNA polymerase II is associated with specific gene features and epigenetic modifications

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Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers

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Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons

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The proto-oncogeneJUNis a target of the heat shock transcription factor HSF1

(2013) Maki Sawai et al.   FEBS Journal

Enhancer transcripts mark active estrogen receptor binding sites

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Signaling Pathways Differentially Affect RNA Polymerase II Initiation, Pausing, and Elongation Rate in Cells

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Widespread Regulation of Translation by Elongation Pausing in Heat Shock

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Transcriptional response to stress in the dynamic chromatin environment of cycling and mitotic cells

(2013) Anniina Vihervaara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Precise Maps of RNA Polymerase Reveal How Promoters Direct Initiation and Pausing

(2013) H. Kwak et al.   SCIENCE

ER stress-mediated apoptosis induced by celastrol in cancer cells and important role of glycogen synthase kinase-3β in the signal network

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STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Clustering of time-course gene expression profiles using normal mixture models with autoregressive random effects

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An expansive human regulatory lexicon encoded in transcription factor footprints

(2012) Shane Neph et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

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A Rapid, Extensive, and Transient Transcriptional Response to Estrogen Signaling in Breast Cancer Cells

(2011) Nasun Hah et al.   CELL

Heat shock reduces stalled RNA polymerase II and nucleosome turnover genome-wide

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Nascent transcript sequencing visualizes transcription at nucleotide resolution

(2011) L. Stirling Churchman et al.   NATURE

Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells

(2011) Michal Rabani et al.   NATURE BIOTECHNOLOGY

Controlling gene expression in response to stress

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Wide-ranging functions of E2F4 in transcriptional activation and repression revealed by genome-wide analysis

(2011) Bum-Kyu Lee et al.   NUCLEIC ACIDS RESEARCH

From RNA-seq reads to differential expression results

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Molecular targets of celastrol derived from Thunder of God Vine: Potential role in the treatment of inflammatory disorders and cancer

(2010) Radhamani Kannaiyan et al.   CANCER LETTERS

HSP90 inhibitor, celastrol, arrests human monocytic leukemia cell U937 at G0/G1 in thiol-containing agents reversible way

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GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

RNA sequencing: advances, challenges and opportunities

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A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers

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Characterization of Celastrol to Inhibit Hsp90 and Cdc37 Interaction

(2009) Tao Zhang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Rates of in situ transcription and splicing in large human genes

(2009) Jarnail Singh et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

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Chemical and Biological Approaches Synergize to Ameliorate Protein-Folding Diseases

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Hypoxic Inhibition of Nonsense-Mediated RNA Decay Regulates Gene Expression and the Integrated Stress Response

(2008) L. B. Gardner   MOLECULAR AND CELLULAR BIOLOGY

Activation of Heat Shock and Antioxidant Responses by the Natural Product Celastrol: Transcriptional Signatures of a Thiol-targeted Molecule

(2008) Amy Trott et al.   MOLECULAR BIOLOGY OF THE CELL

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

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Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters

(2008) Leighton J. Core et al.   SCIENCE