Patrick McDonel
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View article: scRNA-seq of human vitiligo reveals complex networks of subclinical immune activation and a role for CCR5 in T <sub>reg</sub> function
scRNA-seq of human vitiligo reveals complex networks of subclinical immune activation and a role for CCR5 in T <sub>reg</sub> function Open
scRNA-seq of human vitiligo samples reveals complex autoimmune networks, including a role for CCR5 in T reg function.
View article: Single-cell analysis of upper airway cells reveals host-viral dynamics in influenza infected adults
Single-cell analysis of upper airway cells reveals host-viral dynamics in influenza infected adults Open
Influenza virus infections are major causes of morbidity and mortality. Research using cultured cells, bulk tissue, and animal models cannot fully capture human disease dynamics. Many aspects of virus-host interactions in a natural setting…
View article: HIV-1-induced cytokines deplete homeostatic innate lymphoid cells and expand TCF7-dependent memory NK cells
HIV-1-induced cytokines deplete homeostatic innate lymphoid cells and expand TCF7-dependent memory NK cells Open
Human immunodeficiency virus 1 (HIV-1) infection is associated with heightened inflammation and excess risk of cardiovascular disease, cancer and other complications. These pathologies persist despite antiretroviral therapy. In two indepen…
View article: Approaches for Understanding the Mechanisms of Long Noncoding RNA Regulation of Gene Expression
Approaches for Understanding the Mechanisms of Long Noncoding RNA Regulation of Gene Expression Open
Mammalian genomes encode tens of thousands of long noncoding RNAs (lncRNAs) that have been implicated in a diverse array of biological processes and human diseases. In recent years, the development of new tools for studying lncRNAs has ena…
View article: Higher-order inter-chromosomal hubs shape 3-dimensional genome organization in the nucleus
Higher-order inter-chromosomal hubs shape 3-dimensional genome organization in the nucleus Open
Eukaryotic genomes are packaged into a 3-dimensional structure in the nucleus of each cell. There are currently two distinct views of genome organization that are derived from different technologies. The first view, derived from genome-wid…
View article: HIV-1-induced cytokines deplete homeostatic ILCs and expand TCF7-dependent memory NK cells: Supplemental Figures and Tables
HIV-1-induced cytokines deplete homeostatic ILCs and expand TCF7-dependent memory NK cells: Supplemental Figures and Tables Open
HIV-1-infected people who take medications that suppress viremia, preserve CD4+ T cells, and prevent AIDS, have chronic inflammation with increased cardiovascular mortality. To investigate the etiology of this inflammation, the effect of H…
View article: Neighborhood regulation by lncRNA promoters, transcription, and splicing
Neighborhood regulation by lncRNA promoters, transcription, and splicing Open
Mammalian genomes are pervasively transcribed to produce thousands of spliced long noncoding RNAs (lncRNAs), whose functions remain poorly understood. Because recent evidence has implicated several specific lncRNA loci in the local regulat…
View article: Insight into GATA1 transcriptional activity through interrogation of<i>cis</i>elements disrupted in human erythroid disorders
Insight into GATA1 transcriptional activity through interrogation of<i>cis</i>elements disrupted in human erythroid disorders Open
Significance Methods for identifying causal variants underlying human diseases have been greatly enhanced by whole-exome sequencing; however, this approach overlooks mutations that occur within noncoding regulatory regions. Moreover, the m…
View article: The Xist lncRNA interacts with SHARP to silence transcription through HDAC3
The Xist lncRNA interacts with SHARP to silence transcription through HDAC3 Open
Many long non-coding RNAs (lncRNAs) affect gene expression, but the mechanisms by which they act are still largely unknown. One of the best-studied lncRNAs is Xist, which is required for transcriptional silencing of one X chromosome during…
View article: The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3
The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3 Open
Many long non-coding RNAs (lncRNAs) affect gene expression, but the mechanisms by which they act are still largely unknown. One of the best-studied lncRNAs is Xist, which is required for transcriptional silencing of one X chromosome during…
View article: Multiple cell and population-level interactions with mouse embryonic stem cell heterogeneity
Multiple cell and population-level interactions with mouse embryonic stem cell heterogeneity Open
Much of development and disease concerns the generation of gene expression differences between related cells sharing similar niches. However most analyses of gene expression only assess population and time-averaged levels of steady-state t…