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X-WR-CALNAME:Institute for Quantitative and Computational Biosciences
X-ORIGINAL-URL:https://qcb.ucla.edu
X-WR-CALDESC:Events for Institute for Quantitative and Computational Biosciences
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DTSTART:20200308T100000
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DTSTART:20210314T100000
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DTSTART:20211107T090000
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BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210402T110000
DTEND;TZID=America/Los_Angeles:20210402T110000
DTSTAMP:20260518T041547
CREATED:20210322T152126Z
LAST-MODIFIED:20210402T202258Z
UID:17594-1617361200-1617361200@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Arjun Bhattacharya (Pasaniuc)
DESCRIPTION:TITLE: “Distal mediator-enriched placental transcriptome-wide association studies reveal genetic mechanisms supporting the  Developmental Origins of Health and Disease.” \nABSTRACT: As the master regulator of the intrauterine environment\, the placenta is core to the Developmental Origins of Health and Disease (DOHaD) but is understudied in large consortia of tissue-specific gene and trait regulation. We performed distal mediator-enriched transcriptome-wide association studies for 40 health outcomes across 5 categories\, using gene expression models trained from multi-omic data from the Extremely Low Gestational Age Newborn Study. I will discuss some of the novel methods we leverage in this analysis and the implications our computational and experimental results suggest on placental biology and health outcomes. \n\nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2021/03/Arjun-Bhattacharya-edited.mp4
URL:https://qcb.ucla.edu/event/qcbio-research-seminar-arjun-bhattacharya-pasaniuc/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/Arjun-Bhattacharya.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210402T113000
DTEND;TZID=America/Los_Angeles:20210402T120000
DTSTAMP:20260518T041547
CREATED:20210210T165325Z
LAST-MODIFIED:20210402T200850Z
UID:16520-1617363000-1617364800@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Xinzhou Ge (Li JJ)
DESCRIPTION:TITLE: “Clipper: p-value-free FDR control on high-throughput data from two conditions.” \nABSTRACT: High-throughput biological data analysis commonly involves identifying “interesting” features (e.g.\, genes\, genomic regions\, and proteins)\, whose values differ between two conditions\, from numerous features measured simultaneously. The most widely-used criterion to ensure the analysis reliability is the false discovery rate (FDR). Existing bioinformatics tools primarily control the FDR based on p-values. However\, obtaining valid p-values relies on either reasonable assumptions of data distribution or large numbers of replicates under both conditions\, two requirements that are often unmet in biological studies. To address this issue\, we propose Clipper\, a general statistical framework for FDR control without relying on p-values or specific data distributions. \nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2021/02/Xinzhou-Ge-edited.mp4
URL:https://qcb.ucla.edu/event/qcbio-research-seminars-zinzhou-ge-li-jj/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/02/Zinzhou-Ge.jpeg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210405T110000
DTEND;TZID=America/Los_Angeles:20210405T120000
DTSTAMP:20260518T041547
CREATED:20210318T171819Z
LAST-MODIFIED:20210318T171819Z
UID:17548-1617620400-1617624000@qcb.ucla.edu
SUMMARY:Bioinformatics/Human Genetics Seminar Series: Nanibaa’ Garrison\, PhD
DESCRIPTION:Associate Professor\, UCLA Institute for Society and Genetics\n“TBD” \nHosted by Paivi Pajukanta
URL:https://qcb.ucla.edu/event/bioinformatics-human-genetics-seminar-series-nanibaa-garrison-phd/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/2.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210409T110000
DTEND;TZID=America/Los_Angeles:20210409T113000
DTSTAMP:20260518T041547
CREATED:20210323T144802Z
LAST-MODIFIED:20210409T225858Z
UID:17601-1617966000-1617967800@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Casey Barkan (Wang)
DESCRIPTION:TITLE: “Critical slowing down signals quasi-species extinction in an evolutionary model with environmental heterogeneity.” \nABSTRACT: Environmental heterogeneity can significantly affect the evolutionary dynamics of a population. A key parameter that determines the influence of heterogeneity is the migration rate–the rate at which organisms explore their heterogeneous environment. We study a model of a population which migrates between two habitats that exert distinct selection pressure on the population. We find that the system undergoes multiple phase transitions\, each associated with the extinction of a quasispecies. The dynamics exhibit critical slowing down near each transition. Our results may be relevant to the evolution of antibiotic resistance in bacteria and evolution of gut microbiota. \nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2021/03/Casey-Barkan-edited.mp4
URL:https://qcb.ucla.edu/event/qcbio-research-seminar-casey-barkan-wang/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/Casey-Barkan.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210409T113000
DTEND;TZID=America/Los_Angeles:20210409T120000
DTSTAMP:20260518T041547
CREATED:20210323T144940Z
LAST-MODIFIED:20210409T195622Z
UID:17604-1617967800-1617969600@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Aliya Lakhani (Park)
DESCRIPTION:TITLE: “Integrating metabolomics and fluxomics to study cancer metabolism in low glucose environments.” \nABSTRACT: Metabolomics and fluxomics are integral tools for quantitative metabolic analysis. By combining mass spectrometry\, isotope tracing\, and mathematical modeling\, we can quantify metabolite concentrations and fluxes in cancer cells. Using these tools\, we are investigating the coordination of bioenergetics\, biosynthesis\, and redox metabolism of cancer cells in the tumor microenvironment. We hypothesize that the tumor microenvironment plays a significant role in dictating cancer cell survival and proliferation. To shed light on how cancer cells use the tumor microenvironment\, we assessed their adaptability to high levels of lactate. While cancer cells did not have a growth advantage over healthy cells in the high-lactate environment\, we found that an intermittent supply of glucose allowed cancer cells to proliferate faster than healthy cells. By tracing stable isotopes from lactate and glutamine across metabolism\, we elucidate the role of lactate in cancer cell survival via gluconeogenesis and energy metabolism. \nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2021/03/Aliya-Lakhani-edited.mp4
URL:https://qcb.ucla.edu/event/qcbio-research-seminar-aliya-lakhani-park/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/Aliya-Lakhani.jpeg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210412T110000
DTEND;TZID=America/Los_Angeles:20210412T120000
DTSTAMP:20260518T041547
CREATED:20210318T172007Z
LAST-MODIFIED:20210318T172007Z
UID:17552-1618225200-1618228800@qcb.ucla.edu
SUMMARY:Bioinformatics/Human Genetics Seminar Series: Martin Kampmann\, PhD
DESCRIPTION:Associate Professor\, Department of Biochemistry and Biophysics\, UCSF\n“TBD” \nHosted by David Eisenberg
URL:https://qcb.ucla.edu/event/bioinformatics-human-genetics-seminar-series-martin-kampmann-phd/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/3.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210416T110000
DTEND;TZID=America/Los_Angeles:20210416T113000
DTSTAMP:20260518T041547
CREATED:20210323T145202Z
LAST-MODIFIED:20210409T061938Z
UID:17608-1618570800-1618572600@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Juan de la Hoz Gomez (Olde Loohuis & Freimer)
DESCRIPTION:TITLE:“Longitudinal phenotyping of Severe Mental Illness from Electronic Health Records.” \nABSTRACT:Electronic Health Records (EHRs) offer an exciting avenue for large-scale genetic studies of psychiatric disorders in globally diverse populations. As a potential source of inexpensive and longitudinal phenotypes\, they are key for the study of severe mental illness trajectories. The Clinica San Juan de Dios is the only psychiatric hospital in Caldas\, Colombia\, serving a population of 1M people. We leverage their 15+ years of EHRs in order to 1) validate diagnoses of severe mental illness\, 2) extract trans-diagnostic symptom information from free text using clinical NLP\, and 3) explore patterns of temporal phenotypic variation. In addition to providing insights into the trajectory of psychiatric diagnoses\, this dataset serves as a valuable resource for genetic investigation of mental illness in admixed populations.
URL:https://qcb.ucla.edu/event/qcbio-research-seminar-juan-de-la-hoz-gomez-olde-loohuis-freimer/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/Juan-de-la-Hoz-Gomez.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210416T113000
DTEND;TZID=America/Los_Angeles:20210416T120000
DTSTAMP:20260518T041547
CREATED:20210323T145340Z
LAST-MODIFIED:20210416T225835Z
UID:17611-1618572600-1618574400@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Alec Chiu (Sankararaman)
DESCRIPTION:TITLE: “Population structure inference for biobank-scale data.” \nABSTRACT: Inferring the structure of human populations from genetic variation data is a key task in population and medical genomic studies. While a number of methods for population structure inference have been proposed\, current methods are impractical to run on biobank-scale genomic datasets containing millions of individuals and genetic variants. We introduce SCOPE\, a method that can infer population structure from biobank-scale data. We show that SCOPE is as or more accurate than existing methods while being orders of magnitude faster. SCOPE able to infer population structure in about a day on a dataset consisting of one million individuals and SNPs. Furthermore\, SCOPE is able to incorporate allele frequencies from previous studies in a supervised fashion to further aid interpretability of estimated admixture proportions.  \nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2021/03/Alec-Chiu-edited.mp4
URL:https://qcb.ucla.edu/event/qcbio-research-seminar-alec-chiu-sankararaman/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/Alec-Chiu-scaled.jpeg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210419T110000
DTEND;TZID=America/Los_Angeles:20210419T120000
DTSTAMP:20260518T041547
CREATED:20210318T172226Z
LAST-MODIFIED:20210318T172226Z
UID:17556-1618830000-1618833600@qcb.ucla.edu
SUMMARY:Bioinformatics/Human Genetics Seminar Series: Smita Krishnaswamy\, PhD
DESCRIPTION:Associate Professor of Genetics and of Computer Science\, Yale School of Medicine\n“TBD” \nHosted by Jason Ernst
URL:https://qcb.ucla.edu/event/bioinformatics-human-genetics-seminar-series-smita-krishnaswamy-phd/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/4.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210423T110000
DTEND;TZID=America/Los_Angeles:20210423T120000
DTSTAMP:20260518T041547
CREATED:20210416T190850Z
LAST-MODIFIED:20210416T190850Z
UID:17846-1619175600-1619179200@qcb.ucla.edu
SUMMARY:Townhall on Diversity\, Equity & Inclusion
DESCRIPTION:
URL:https://qcb.ucla.edu/event/townhall-on-diversity-equity-inclusion/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/04/DEI-Townhall-Flyer-4.23.21-without-zoom-scaled.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210426T110000
DTEND;TZID=America/Los_Angeles:20210426T120000
DTSTAMP:20260518T041547
CREATED:20210318T172428Z
LAST-MODIFIED:20210318T173922Z
UID:17560-1619434800-1619438400@qcb.ucla.edu
SUMMARY:Bioinformatics/Human Genetics Seminar Series: Jennifer E. Phillips-Cremins\, PhD
DESCRIPTION:Assistant Professor of Bioengineering\, University of Pennsylvania\n“Genome folding\, unfolding\, and refolding in the mammalian brain” \nHosted by Hilary Coller
URL:https://qcb.ucla.edu/event/bioinformatics-human-genetics-seminar-series-jennifer-e-phillips-cremins-phd/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/5.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210430T110000
DTEND;TZID=America/Los_Angeles:20210430T113000
DTSTAMP:20260518T041547
CREATED:20210422T144613Z
LAST-MODIFIED:20210621T163019Z
UID:17955-1619780400-1619782200@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Ashfaq Ahmed (Venugopal)
DESCRIPTION:TITLE: “Mechanisms of robust entrainment of biological oscillators involved in gastric peristalsis.”\nABSTRACT: Oscillator entrainment is a widely observed phenomenon in natural systems. Using a computational modeling approach\, we decipher the essential intrinsic and extrinsic mechanisms of robust entrainment of biological oscillators involved in gastric peristalsis. Specifically\, we show that the constitutive intercellular IP3-facilitated pacemaker pathway in these cells stabilizes cellular frequencies\, extends longitudinal entrainment range\, and enables rostro-caudal spread of a gastric slow-wave in a realistic multi-cellular coupled network. Our comprehensive model and the novel predictions offer directions for future experiments and theoretical work. \nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2021/04/Ashfaq-Ahmed-edited.mp4
URL:https://qcb.ucla.edu/event/qcbio-research-seminar-ashfaq-ahmed-venugopal/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/04/Ashfaq-Ahmed.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20210430T113000
DTEND;TZID=America/Los_Angeles:20210430T120000
DTSTAMP:20260518T041547
CREATED:20210331T002943Z
LAST-MODIFIED:20210504T033951Z
UID:17713-1619782200-1619784000@qcb.ucla.edu
SUMMARY:QCBio Research Seminar: Alexis Weber (Geschwind & de la Torre-Ubieta)
DESCRIPTION:TITLE: “Defining chromatin accessibility and molecular dysregulation in Down Syndrome.” \nABSTRACT: Despite accumulating almost two centuries of medical information\, the exact mechanisms underlying Down Syndrome (DS) developmental pathology remain unknown. DS is caused by trisomy of chromosome21 (T21)\, but without pinpointing the way in which T21 confers molecular dysfunctions and subsequently impairs neurodevelopment\, it has been difficult to devise medical interventions that will reduce cognitive deficits.  In order to identify these mechanisms in DS and deconvolute the inherent complexity of the developing brain\, we are leveraging single cell technologies to contrast DS and healthy expression profiles and chromatin accessibility in midgestation brain tissue and patient-derived primary human neural progenitor cells (phNPCs). Based on previous bulk RNA and chromatin analyses in DS samples and our preliminary data\, we anticipate 1) changes in cell composition and 2) altered gene-regulatory networks affecting neurogenesis pathways in neural progenitors\, oligodendrocyte precursor cells\, and astrocytes. By uncovering these cytological and molecular aberrations\, we hope to progress the understanding of neurodevelopment and DS to promote medical advances in the future. \nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2021/03/Alexis-Weber-edited-1.mp4
URL:https://qcb.ucla.edu/event/qcbio-research-seminar-alexis-weber-geschwind-de-la-torre-ubieta/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/png:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2021/03/HG-Weber.png
END:VEVENT
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