A5031417789- Single-cell and spatial transcriptomics
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- Genetic Associations and Epidemiology
- Bioinformatics and Genomic Networks
- RNA modifications and cancer
- Mechanical Circulatory Support Devices
- Cardiac Structural Anomalies and Repair
- RNA and protein synthesis mechanisms
- Transplantation: Methods and Outcomes
- Genetic Mapping and Diversity in Plants and Animals
- Molecular Biology Techniques and Applications
- Epigenetics and DNA Methylation
- Organ Transplantation Techniques and Outcomes
- Congenital heart defects research
- Cardiac Arrest and Resuscitation
- Health, Environment, Cognitive Aging
- Cancer-related molecular mechanisms research
- Renal Transplantation Outcomes and Treatments
- Cell Image Analysis Techniques
- Coronary Artery Anomalies
- Lymphatic System and Diseases
- Cancer Genomics and Diagnostics
- Antimicrobial Resistance in Staphylococcus
- Erythrocyte Function and Pathophysiology
University of Washington
2016-2025
Seattle University
2021-2024
Stanford University
2011-2022
University of Washington Medical Center
2022
Washington University in St. Louis
2020
AbbVie (United States)
2020
California Institute of Technology
2019
National Institutes of Health
2004-2018
Cardiovascular Institute of the South
2016-2018
Mallinckrodt (United States)
2018
The laboratory mouse shares the majority of its protein-coding genes with humans, making it premier model organism in biomedical research, yet two mammals differ significant ways. To gain greater insights into both shared and species-specific transcriptional cellular regulatory programs mouse, Mouse ENCODE Consortium has mapped transcription, DNase I hypersensitivity, transcription factor binding, chromatin modifications replication domains throughout genome diverse cell tissue types. By...
Understanding the diversity of human tissues is fundamental to disease and requires linking genetic information, which identical in most an individual's cells, with epigenetic mechanisms that could have tissue-specific roles. Surveys DNA methylation established a complex landscape including both invariant patterns. Here we report high coverage methylomes catalogue cytosine all contexts for major organ systems, integrated matched transcriptomes genomic sequence. By combining these diverse...
Human induced pluripotent stem cells generated from patients with familial dilated cardiomyopathy model cardiovascular disease in these patients.
Significance To date, various studies have found similarities between humans and mice on a molecular level, indeed, the murine model serves as an important experimental system for biomedical science. In this study of broad number tissues mice, high-throughput sequencing assays transcriptome epigenome reveal that, in general, differences dominate two species. These findings provide basis understanding phenotypes responses to conditions mice.
Transformative technologies are enabling the construction of three dimensional (3D) maps tissues with unprecedented spatial and molecular resolution. Over next seven years, NIH Common Fund Human Biomolecular Atlas Program (HuBMAP) intends to develop a widely accessible framework for comprehensively mapping human body at single-cell resolution by supporting technology development, data acquisition, detailed mapping. HuBMAP will integrate its efforts other funding agencies, programs,...
To broaden our understanding of the evolution gene regulation mechanisms, we generated occupancy profiles for 34 orthologous transcription factors (TFs) in human–mouse erythroid progenitor, lymphoblast and embryonic stem-cell lines. By combining genome-wide factor repertoires, associated epigenetic signals, co-association patterns, here deduce several evolutionary principles regulatory features operating since mouse human lineages diverged. The genomic distribution profiles, primary binding...
Abstract Generalized lymphatic dysplasia (GLD) is a rare form of primary lymphoedema characterized by uniform, widespread affecting all segments the body, with systemic involvement such as intestinal and/or pulmonary lymphangiectasia, pleural effusions, chylothoraces pericardial effusions. This may present prenatally non-immune hydrops. Here we report homozygous and compound heterozygous mutations in PIEZO1 , resulting an autosomal recessive GLD high incidence hydrops fetalis childhood onset...
As part of the Epigenome Roadmap project, this study uses a chromosome-spanning haplotype reconstruction strategy to construct haplotype-resolved epigenomic maps for diverse set human tissues; reveal extensive allelic biases in chromatin state and transcription, which vary across individuals due genetic backgrounds. Bing Ren colleagues use tissues. The tissues between individuals. They authors investigate cis-regulatory relationships genes their control sequences tissue-restricted activities...
Abstract The intestine is a complex organ that promotes digestion, extracts nutrients, participates in immune surveillance, maintains critical symbiotic relationships with microbiota and affects overall health 1 . intesting has length of over nine metres, along which there are differences structure function 2 localization individual cell types, type development trajectories detailed transcriptional programs probably drive these function. Here, to better understand differences, we evaluated...
We describe a novel adaptation of the TaqMan PCR assay which potentially allows for highly sensitive detection any eubacterial species with simultaneous identification. Our system relies on unique multiprobe design in single set conserved sequences encoded by 16S rRNA gene serves as primer pair and is used combination both an internal sequence, universal probe, variable region, species-specific probe. A pre-PCR ultrafiltration step effectively decontaminates or removes background DNA. The...
Hydrops fetalis describes fluid accumulation in at least 2 fetal compartments, including abdominal cavities, pleura, and pericardium, or body tissue. The majority of hydrops cases are nonimmune conditions that present with generalized edema the fetus, approximately 15% these result from a lymphatic abnormality. Here, we have identified an autosomal dominant, inherited form lymphatic-related (nonimmune) (LRHF). Independent exome sequencing projects on families history utero neonatal deaths...
Background: As heart failure prevalence continues to increase in the setting of a static donor supply, left ventricular assist device (LVAD) therapy for end-stage grow. Anecdotal evidence suggests that malalignment LVAD inflow cannula may thrombosis risk, but this effect has not been explored mechanistically or quantified statistically. Our objective is elucidate impact surgical angulation on thrombogenicity. Methods and Results: Unsteady computational fluid dynamics used conjunction with...
Abstract Current technologies for acquiring spatial transcript information from tissue sections rely on either RNA probes or barcodes. The former methods require a priori knowledge probeset formulation; the latter have yet to achieve single cell resolution and/or capture efficiencies approaching dissociative, single-cell methods. Here, we describe novel transcriptome assay called p olony (or DNA cluster)- i nde xe d l ibrary-sequencing (PIXEL-seq). It improves upon other barcoding by...