Margaret Gruca
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View article: Functional Variant Discovery identifies a novel genetic link between SPRY2, wood smoke, and asthma
Functional Variant Discovery identifies a novel genetic link between SPRY2, wood smoke, and asthma Open
As a consequence of climate change and land use policies, there has been a historic rise in wildfire smoke across the United States and the world. While the deleterious effects of wildfire smoke and associated air pollution on asthma outco…
View article: Glucocorticoid-regulated bidirectional enhancer RNA transcription pinpoints functional genetic variants linked to asthma
Glucocorticoid-regulated bidirectional enhancer RNA transcription pinpoints functional genetic variants linked to asthma Open
Genome-wide association studies of asthma have not explained environmental risk or variable clinical efficacy of glucocorticoids. Bidirectional enhancer RNA (eRNA) transcription is a widespread response to environmental signals and glucoco…
View article: Integrated genomics approaches identify transcriptional mediators and epigenetic responses to Afghan desert particulate matter in small airway epithelial cells
Integrated genomics approaches identify transcriptional mediators and epigenetic responses to Afghan desert particulate matter in small airway epithelial cells Open
Military Deployment to Southwest Asia and Afghanistan and exposure to toxic airborne particulates have been associated with an increased risk of developing respiratory disease, collectively termed deployment-related respiratory diseases (D…
View article: Integrated Genomics Approaches Identify Transcriptional Mediators and Epigenetic Responses to Afghan Desert Particulate Matter in Small Airway Epithelial Cells
Integrated Genomics Approaches Identify Transcriptional Mediators and Epigenetic Responses to Afghan Desert Particulate Matter in Small Airway Epithelial Cells Open
Military Deployment to Southwest Asia and Afghanistan and exposure to toxic airborne particulates has been associated with an increased risk of developing respiratory disease, collectively termed deployment-related respiratory diseases (DR…
View article: The Δ40p53 isoform inhibits p53-dependent eRNA transcription and enables regulation by signal-specific transcription factors during p53 activation
The Δ40p53 isoform inhibits p53-dependent eRNA transcription and enables regulation by signal-specific transcription factors during p53 activation Open
The naturally occurring Δ40p53 isoform heterotetramerizes with wild-type p53 (WTp53) to regulate development, aging, and stress responses. How Δ40p53 alters WTp53 function remains enigmatic because their co-expression causes tetramer heter…
View article: Genomics-based deconvolution of multiplexed transcriptional responses to wood smoke particles defines rapid AHR signaling dynamics
Genomics-based deconvolution of multiplexed transcriptional responses to wood smoke particles defines rapid AHR signaling dynamics Open
Heterogeneity of respirable particulates and compounds complicates understanding transcriptional responses to air pollution. Here, we address this problem through applying precision nuclear run-on sequencing (PRO-seq) to measure nascent tr…
View article: The MUC5B-associated variant rs35705950 resides within an enhancer subject to lineage- and disease-dependent epigenetic remodeling
The MUC5B-associated variant rs35705950 resides within an enhancer subject to lineage- and disease-dependent epigenetic remodeling Open
The G/T transversion rs35705950, located approximately 3 kb upstream of the MUC5B start site, is the cardinal risk factor for idiopathic pulmonary fibrosis (IPF). Here, we investigate the function and chromatin structure of this -3 kb regi…
View article: Combining signal and sequence to detect RNA polymerase initiation in ATAC-seq data
Combining signal and sequence to detect RNA polymerase initiation in ATAC-seq data Open
The assay for transposase-accessible chromatin followed by sequencing (ATAC-seq) is an inexpensive protocol for measuring open chromatin regions. ATAC-seq is also relatively simple and requires fewer cells than many other high-throughput s…
View article: Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression
Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression Open
The glucocorticoid receptor (NR3C1, also known as GR) binds to specific DNA sequences and directly induces transcription of anti-inflammatory genes that contribute to cytokine repression, frequently in cooperation with NF-kB. Whether infla…
View article: Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression
Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression Open
The glucocorticoid receptor (GR) binds to specific DNA sequences and directly induces transcription of anti-inflammatory genes that contribute to cytokine repression, frequently in cooperation with NF-kB. Whether inflammatory repression al…