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DTSTART;TZID=America/Los_Angeles:20231129T130000
DTEND;TZID=America/Los_Angeles:20231129T133000
DTSTAMP:20231130T153643Z
CREATED:20231113T160845Z
LAST-MODIFIED:20231130T153643Z
UID:26015-1701262800-1701264600@qcb.ucla.edu
SUMMARY:Research-in-Progress (RIP) Seminar: Matthew Soldano (Pellegrini)\, Staff Research Associate\, Institute for Genomics and Proteomics at DGSOM
DESCRIPTION:TITLE: “A Non-Invasive Epigenetic Measure of Inflammation.” \nABSTRACT: Existing epigenetic phenotype tests often lack mechanistic explanations of the observed correlations between specific methylation sites and phenotypes. This raises the crucial question: are these correlations primarily a result of marginal correlations\, or do they stem from plausible biological mechanisms? To delve deeper into this question\, we conducted a Targeted Epigenome Association Study focusing on CpG sites associated with aging\, metabolism\, and obesity. Our study leveraged a clinical investigation on fitness\, encompassing comprehensive measurements of phenotypes\, traditional biomarkers linked to metabolism\, obesity\, and fitness\, as well as extensive profiling of hundreds of metabolites and proteins. Additionally\, we had access to buccal swabs for targeted bisulfite sequencing. Our analysis discovered eight CpG sites exhibiting robust associations with the complement system\, alongside indicators of adiposity and epithelial cell ratio found in the buccal swab samples. These sites reside within the region of the peptidoglycan recognition 1 gene promoter\, a protein that senses inflammatory processes. This discovery sheds light on the intricate interplay between epigenetic markers with oral and systemic inflammation pathways.\n\nhttps://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/11/Matthew-Soldano.mp4
URL:https://qcb.ucla.edu/event/research-in-progress-rip-seminar-matthew-soldano-pellegrini-graduate-student-institute-for-genomics-and-proteomics-at-dgsom/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://qcb.ucla.edu/wp-content/uploads/sites/14/2023/11/Matthew-Soldano.jpeg
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DTSTART;TZID=America/Los_Angeles:20231129T133000
DTEND;TZID=America/Los_Angeles:20231129T140000
DTSTAMP:20231130T154218Z
CREATED:20231116T191717Z
LAST-MODIFIED:20231130T154218Z
UID:26027-1701264600-1701266400@qcb.ucla.edu
SUMMARY:Research-in-Progress (RIP) Seminar: Christy Lee (Li JJ)\, Graduate Student in Statistics and Data Science
DESCRIPTION:TITLE: “scDEED: a statistical method for detecting dubious 2D single-cell embeddings and optimizing t-SNE and UMAP hyperparameters.” \nABSTRACT: Two-dimensional (2D) embedding methods are crucial for single-cell data visualization. Popular methods such as t-distributed stochastic neighbor embedding(t-SNE) and uniform manifold approximation and projection (UMAP) are commonly used for visualizing cell clusters; however\, it is well known that t-SNE and UMAP’s 2D embedding might not reliably inform the similarities among cell clusters. Motivated by this challenge\, we present a statistical method\, scDEED\, for detecting dubious cell embeddings output by any 2D-embedding method. By calculating a reliability score for every cell embedding\, scDEED identifies the cell embeddings with low reliability scores as dubious and those with high reliability scores as trustworthy. Moreover\, by minimizing the number of dubious cell embeddings\, scDEED provides intuitive guidance for optimizing the hyperparameters of an embedding method.\nhttps://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/11/Christy-Lee.mp4
URL:https://qcb.ucla.edu/event/research-in-progress-rip-seminar-christy-lee-li-jj-graduate-student-in-statistics-and-data-science/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/png:https://qcb.ucla.edu/wp-content/uploads/sites/14/2023/11/Christy_Lee_profile.png
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