James Eberwine
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View article: Single-Mitochondrion Sequencing Uncovers Distinct Mutational Patterns and Heteroplasmy Landscape in Mouse Astrocytes and Neurons
Single-Mitochondrion Sequencing Uncovers Distinct Mutational Patterns and Heteroplasmy Landscape in Mouse Astrocytes and Neurons Open
Background Mitochondrial (mt) heteroplasmy can cause adverse biological consequences when deleterious mtDNA mutations accumulate disrupting ‘normal’ mt-driven processes and cellular functions. To investigate the heteroplasmy of such mtDNA …
View article: High‐Throughput Single‐Cell, Single‐Mitochondrial DNA Assay Using Hydrogel Droplet Microfluidics
High‐Throughput Single‐Cell, Single‐Mitochondrial DNA Assay Using Hydrogel Droplet Microfluidics Open
There is growing interest in understanding the biological implications of single cell heterogeneity and heteroplasmy of mitochondrial DNA (mtDNA), but current methodologies for single‐cell mtDNA analysis limit the scale of analysis to smal…
View article: Single cell phototransfection of mRNAs encoding SARS-CoV2 spike and nucleocapsid into human astrocytes results in RNA dependent translation interference
Single cell phototransfection of mRNAs encoding SARS-CoV2 spike and nucleocapsid into human astrocytes results in RNA dependent translation interference Open
Multi-RNA co-transfection is starting to be employed to stimulate immune responses to SARS-CoV-2 viral infection. While there are good reasons to utilize such an approach, there is little background on whether there are synergistic RNA-dep…
View article: High-throughput single-cell, single-mitochondrial DNA assay using hydrogel droplet microfluidics
High-throughput single-cell, single-mitochondrial DNA assay using hydrogel droplet microfluidics Open
There is growing interest in understanding the biological implications of single cell heterogeneity and intracellular heteroplasmy of mtDNA, but current methodologies for single-cell mtDNA analysis limit the scale of analysis to small cell…
View article: Ultrasensitive Single Extracellular Vesicle Detection Using High Throughput Droplet Digital Enzyme-Linked Immunosorbent Assay
Ultrasensitive Single Extracellular Vesicle Detection Using High Throughput Droplet Digital Enzyme-Linked Immunosorbent Assay Open
Extracellular vesicles (EVs) have attracted enormous attention for their diagnostic and therapeutic potential. However, it has proven challenging to achieve the sensitivity to detect individual nanoscale EVs, the specificity to distinguish…
View article: Photoactivatable Circular Caged Oligonucleotides for Transcriptome In Vivo Analysis (TIVA)
Photoactivatable Circular Caged Oligonucleotides for Transcriptome In Vivo Analysis (TIVA) Open
Light activation is an effective way to impart spatiotemporal control over oligonucleotide probes that are widely applied for gene expression regulation and target function investigation. Among the major oligonucleotide caging strategies, …
View article: Micro‐ and Nano‐Devices for Studying Subcellular Biology
Micro‐ and Nano‐Devices for Studying Subcellular Biology Open
Cells are complex machines whose behaviors arise from their internal collection of dynamically interacting organelles, supramolecular complexes, and cytoplasmic chemicals. The current understanding of the nature by which subcellular biolog…
View article: Oligonucleotide Probe for Transcriptome <i>in Vivo</i> Analysis (TIVA) of Single Neurons with Minimal Background
Oligonucleotide Probe for Transcriptome <i>in Vivo</i> Analysis (TIVA) of Single Neurons with Minimal Background Open
Messenger RNA (mRNA) isolated from single cells can generate powerful biological insights, including the discovery of new cell types with unique functions as well as markers potentially predicting a cell's response to various therapeutic a…
View article: Cell Surface Protein mRNAs Show Differential Transcription in Pyramidal and Fast-Spiking Cells as Revealed by Single-Cell Sequencing
Cell Surface Protein mRNAs Show Differential Transcription in Pyramidal and Fast-Spiking Cells as Revealed by Single-Cell Sequencing Open
The prefrontal cortex (PFC) plays a key role in higher order cognitive functions and psychiatric disorders such as autism, schizophrenia, and depression. In the PFC, the two major classes of neurons are the glutamatergic pyramidal (Pyr) ce…
View article: Control of cytokinesis by β-adrenergic receptors indicates an approach for regulating cardiomyocyte endowment
Control of cytokinesis by β-adrenergic receptors indicates an approach for regulating cardiomyocyte endowment Open
Control of cytokinesis by β-adrenergic receptors indicates an approach for regulating the established number of cardiomyocytes.
View article: Control of cytokinesis by β-adrenergic receptors indicates an approach for regulating cardiomyocyte endowment
Control of cytokinesis by β-adrenergic receptors indicates an approach for regulating cardiomyocyte endowment Open
/SUMMARY One million patients with congenital heart disease (CHD) live in the US. They have a lifelong risk of developing heart failure. Current concepts do not sufficiently address mechanisms of heart failure development specifically for …
View article: Single Cell Spatial Chromatin Analysis of Fixed Immunocytochemically Identified Neuronal Cells
Single Cell Spatial Chromatin Analysis of Fixed Immunocytochemically Identified Neuronal Cells Open
Assays examining the open-chromatin landscape in single cells require isolation of the nucleus, resulting in the loss of spatial/microenvironment information. Here we describe CHEX-seq ( CH romatin EX posed) for identifying single-stranded…
View article: Avian Primordial Germ Cells Contribute to and Interact With the Extracellular Matrix During Early Migration
Avian Primordial Germ Cells Contribute to and Interact With the Extracellular Matrix During Early Migration Open
During early avian development, primordial germ cells (PGC) are highly migratory, moving from the central area pellucida of the blastoderm to the anterior extra-embryonic germinal crescent. The PGCs soon move into the forming blood vessels…
View article: Additional file 5: of Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons
Additional file 5: of Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons Open
Full list of predicted protein structural folds for dendritic genes found in this study. (XLSX 506 kb)
View article: Additional file 1: of Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons
Additional file 1: of Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons Open
GO annotations. Full list of enriched GO terms for differentially expressed (deDend and deSoma) and consistent dendrite (consDend) lists for biological processes (BP), molecular functions (MF), and cellular components (CC). Related to Fig.…
View article: Additional file 6: of Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons
Additional file 6: of Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons Open
Catalog of dendritic genes. Table S4. Full list of dendritic genes from current study and seven previous publications. Table S5. Full deDend gene list. Table S6. Full consDend gene list. Table S7. Full isoDend gene list. (XLSX 346 kb)
View article: Neuroethics Guiding Principles for the NIH BRAIN Initiative
Neuroethics Guiding Principles for the NIH BRAIN Initiative Open
Neuroscience presents important neuroethical considerations. Human neuroscience demands focused application of the core research ethics guidelines set out in documents such as the Belmont Report. Various mechanisms, including institutional…
View article: Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons
Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons Open
RNA localization to neuronal dendrites is critical step for long-lasting synaptic potentiation, but there is little consensus regarding which RNAs are localized and the role of alternative isoforms in localization. Using independent RNA-se…
View article: The Human Cell Atlas
The Human Cell Atlas Open
The recent advent of methods for high-throughput single-cell molecular profiling has catalyzed a growing sense in the scientific community that the time is ripe to complete the 150-year-old effort to identify all cell types in the human bo…
View article: Pervasive within-Mitochondrion Single-Nucleotide Variant Heteroplasmy as Revealed by Single-Mitochondrion Sequencing
Pervasive within-Mitochondrion Single-Nucleotide Variant Heteroplasmy as Revealed by Single-Mitochondrion Sequencing Open
A number of mitochondrial diseases arise from single-nucleotide variant (SNV) accumulation in multiple mitochondria. Here, we present a method for identification of variants present at the single-mitochondrion level in individual mouse and…
View article: The Human Cell Atlas
The Human Cell Atlas Open
The recent advent of methods for high-throughput single-cell molecular profiling has catalyzed a growing sense in the scientific community that the time is ripe to complete the 150-year-old effort to identify all cell types in the human bo…