A5079309777- Epigenetics and DNA Methylation
- Genomics and Chromatin Dynamics
- Pluripotent Stem Cells Research
- CRISPR and Genetic Engineering
- DNA Repair Mechanisms
- Chromatin Remodeling and Cancer
- Hippo pathway signaling and YAP/TAZ
- Invertebrate Immune Response Mechanisms
- Cancer Genomics and Diagnostics
- COVID-19 epidemiological studies
- COVID-19 Clinical Research Studies
- Pancreatic function and diabetes
- Endoplasmic Reticulum Stress and Disease
- Tissue Engineering and Regenerative Medicine
- Single-cell and spatial transcriptomics
- Osteoarthritis Treatment and Mechanisms
- MicroRNA in disease regulation
- Photochromic and Fluorescence Chemistry
- Retinal Development and Disorders
- Down syndrome and intellectual disability research
- Tendon Structure and Treatment
- Knee injuries and reconstruction techniques
- Ubiquitin and proteasome pathways
- Neurobiology and Insect Physiology Research
- Cardiovascular Function and Risk Factors
University of California, San Francisco
2020-2025
Broad Center
2020-2025
UCSF Helen Diller Family Comprehensive Cancer Center
2022-2025
Reproductive Science Center
2025
Duke University
2023-2024
University of California, Berkeley
2015-2018
University of Oregon
2013
Loss of polarity correlates with progression epithelial cancers, but how plasma membrane misorganization drives oncogenic transcriptional events remains unclear. The regulators the Drosophila Scribble (Scrib) module are potent tumor suppressors and provide a model for mechanistic investigation. RNA profiling Scrib mutant tumors reveals multiple signatures neoplasia, including altered metabolism dedifferentiation. Prominent among these is upregulation cytokine-like Unpaired (Upd) ligands,...
Abstract Background Enhancers are essential in defining cell fates through the control of cell-type-specific gene expression. Enhancer activation is a multi-step process involving chromatin remodelers and histone modifiers including monomethylation H3K4 (H3K4me1) by MLL3 (KMT2C) MLL4 (KMT2D). MLL3/4 thought to be critical for enhancer cognate expression recruitment acetyltransferases H3K27. Results Here we test this model evaluating impact loss on transcription during early differentiation...
Abstract Enhancers are critical genetic elements controlling transcription from promoters, but the mechanisms by which they convey regulatory information across large genomic distances remain elusive. Here, we engineered pluripotent stem cells in cohesin loop extrusion can be inducibly disrupted without causing confounding cell cycle defects. While evident, transcriptional dysregulation was cell-type specific, and not all loci with distal enhancers depend equally on extrusion. Using...
The miR-290 and miR-302 clusters of microRNAs are highly expressed in naïve primed pluripotent stem cells, respectively. Ectopic expression the embryonic cell (ESC)-specific cycle regulating family arising from these two dramatically enhances reprogramming both mouse human somatic cells to induced pluripotency. Here, we used genetic knockouts dissect requirement for during fibroblasts into (iPSCs) with retrovirally introduced Oct4, Sox2, Klf4. Knockout either cluster alone did not negatively...
Abstract There are currently no pharmacological approaches in fracture healing designed to therapeutically stimulate endochondral ossification. In this study, we test nerve growth factor (NGF) as an understudied therapeutic for repair. We first characterized endogenous expression of Ngf and its receptor tropomyosin kinase A (TrkA) during tibial repair, finding that they peak the cartilaginous phase. then tested two injection regimens found local β-NGF injections endochondral/cartilaginous...
Author(s): Crawford, Emily D; Acosta, Irene; Ahyong, Vida; Anderson, Erika C; Arevalo, Shaun; Asarnow, Daniel; Axelrod, Shannon; Ayscue, Patrick; Azimi, Camillia S; Azumaya, Caleigh M; Bachl, Stefanie; Bachmutsky, Iris; Bhaduri, Aparna; Brown, Jeremy Bancroft; Batson, Joshua; Behnert, Astrid; Boileau, Ryan Bollam, Saumya R; Bonny, Alain Booth, David; Borja, Michael Jerico B; Buie, Bryan; Burnett, Cassandra E; Byrnes, Lauren Cabral, Katelyn A; Cabrera, Joana P; Caldera, Saharai; Canales,...
Pluripotent embryonic stem cells have a unique cell cycle structure with suppressed G1/S restriction point and little differential expression across the phases. Here, we evaluate link between activation, phasic gene expression, cellular differentiation. Expression analysis reveals gain in lineages days E7.5 E9.5. Genetic manipulation of regulators miR-302 P27 respectively accelerates or delays onset mouse embryos. Loss miR-302-mediated p21 p27 suppression expedites differentiation, while...
Total knee arthroplasty (TKA) is the most common remediation for pain from osteoarthritis (OA) and performed 650,000 annually in U.S. A tourniquet commonly used during TKA which causes ischemia reperfusion (I/R) to lower limb but effects of I/R on muscle are not fully understood. Previous reports suggest upregulation cell stress catabolism downregulation markers cap-dependent translation after TKA. has also been shown cause endoplasmic reticulum (ER) induce unfolded protein response (UPR)....
SUMMARY Mammalian genomes are replicated in a precise order during S phase, which is cell-type-specific 1–3 and correlates with local transcriptional activity 2,4–8 , chromatin modifications 9 architecture 1,10,11,12 . However, the causal relationships between these features key regulators of DNA replication timing (RT) largely unknown. Here, machine learning was applied to quantify features, including epigenetic marks, histone variants architectural factors, best predicting RT under...
Abstract Enhancers are essential in defining cell fates through the control of type specific gene expression. Enhancer activation is a multi-step process involving chromatin remodelers and histone modifiers including monomethylation H3K4 (H3K4me1) by MLL3 (KMT2C) MLL4 (KMT2D). MLL3/4 thought to be critical for enhancer cognate expression recruitment acetyltransferases H3K27. Here we test this model evaluating impact loss on transcription during early embryonic stem differentiation. We find...
The miR-290 and miR-302 clusters of microRNAs are highly expressed in naïve primed pluripotent stem cells, respectively. Ectopic expression the embryonic cell-specific cell cycle regulating (ESCC) family arising from these two dramatically enhances reprogramming both mouse human somatic cells to induced pluripotency. Here, we used genetic knockouts dissect requirement for during fibroblasts into (iPSCs) with retrovirally introduced Oct4, Sox2, Klf4. Knockout either cluster alone did not...
Introduction/Background: Congenital heart defects (CHD) are the most common form of developmental abnormalities, occurring in ~1% live births, and can arise due to altered dosage genes essential for cardiogenesis. Aneuploidy accounts nearly 15% CHD frequent involves trisomy chromosome 21 (Ch21), resulting Down Syndrome (DS). is present ~50% DS cases, with a 1000-fold enrichment atrioventricular canal (AVC) that disrupt junction atria ventricles. Hypothesis: We hypothesize presence third copy...