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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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BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20241007T120000
DTEND;TZID=America/Los_Angeles:20241007T130000
DTSTAMP:20260615T233322
CREATED:20241002T165755Z
LAST-MODIFIED:20241002T182126Z
UID:26948-1728302400-1728306000@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Erik Andersen\, PhD\, Professor\, Johns Hopkins University
DESCRIPTION:TITLE: “Mechanisms of differences in gene expression and organismal traits caused by structural variation (both real and imagined)” \nHosted by Leonid Kruglyak for Genetics & Genomics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-erik-andersen-phd-professor-johns-hopkins-university/
LOCATION:Boyer Hall 159
CATEGORIES:QCBio Seminar Series,Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/10/andersen.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240930T120000
DTEND;TZID=America/Los_Angeles:20240930T130000
DTSTAMP:20260615T233322
CREATED:20241002T170647Z
LAST-MODIFIED:20241002T170647Z
UID:26956-1727697600-1727701200@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Armita Nourmohammad\, PhD\, Associate Professor\, University of Washington
DESCRIPTION:TITLE: TBD \nHosted by Alexander Hoffmann for Bioinformatics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-armita-nourmohammad-phd-associate-professor-university-of-washington/
LOCATION:Boyer Hall 159
CATEGORIES:QCBio Seminar Series,Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/10/Seminar-Series-Poster-–-Fall-2024.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240605T113000
DTEND;TZID=America/Los_Angeles:20240605T120000
DTSTAMP:20260615T233322
CREATED:20240503T141046Z
LAST-MODIFIED:20240516T230852Z
UID:26591-1717587000-1717588800@qcb.ucla.edu
SUMMARY:Research-in-Progress (RIP) Seminar: Raag Agrawal (Boutros)\, Graduate Student in Genetics & Genomics\, UCLA/Caltech MSTP
DESCRIPTION:TITLE: “Discovering biomarkers for predicting response to neo-adjuvant ADT and radionuclide treatment in high-risk prostate cancer” \nABSTRACT: Prostate cancer is the number one cause of cancer death in non-smoking American men. Next generation treatments for prostate cancer include androgen deprivation therapy (ADT) drugs such as Enzalutamide and radionuclide treatments like Lu-PSMA-617. While both of these treatment approaches are initially effective\, prostate cancer almost always recurs. We use multimodal genomic data to discover clinically useful prostate cancer subtypes to determine mechanisms of treatment resistance.  We further explore how these subtypes relate to the dearth of model systems in prostate cancer research – and whether we are ignoring clinically relevant genetic diversity in our drug development pipeline.
URL:https://qcb.ucla.edu/event/research-in-progress-rip-seminar-raag-agrawal-boutros-graduate-student-in-genetics-genomics-ucla-caltech-mstp/
LOCATION:Boyer Hall 159
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/05/KGD3939.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240605T110000
DTEND;TZID=America/Los_Angeles:20240605T113000
DTSTAMP:20260615T233322
CREATED:20240503T141502Z
LAST-MODIFIED:20240516T230749Z
UID:26596-1717585200-1717587000@qcb.ucla.edu
SUMMARY:Research-in-Progress (RIP) Seminar: Jonathan Mah (Garud-Lohmueller)\, Graduate Student in Bioinformatics Interdepartmental Program
DESCRIPTION:TITLE: “Inference of the demographic histories and selective effects of human gut commensal microbiota over the course of human history” \nABSTRACT: Despite the importance of gut commensal microbiota to human health\, there is little knowledge about their evolutionary histories\, including their demographic histories and distributions of fitness effects (DFE) of mutations. Here\, we infer the demographic histories and DFEs for amino-acid changing mutations of 27 of the most prevalent and abundant commensal gut microbial species in North Americans over timescales exceeding human generations. We find reductions in genetic variation in North American versus African rural microbiomes. Additionally\, some species in North American microbiomes display contractions in population size and others expansions\, potentially occurring at several key historical moments in human history. DFEs across species vary from highly to mildly deleterious\, with accessory genes experiencing more drift compared to core genes. Within genera\, DFEs tend to be more congruent\, reflective of underlying phylogenetic relationships. Together\, these findings suggest that gut microbes have distinct evolutionary histories\, possibly reflecting their unique roles.
URL:https://qcb.ucla.edu/event/research-in-progress-rip-seminar-jonathan-mah-garud-lohmueller-graduate-student-in-bioinformatics-interdepartmental-program/
LOCATION:Boyer Hall 159
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/05/IMG_7439.jpeg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240530T173000
DTEND;TZID=America/Los_Angeles:20240530T190000
DTSTAMP:20260615T233322
CREATED:20240425T144458Z
LAST-MODIFIED:20240425T144458Z
UID:26564-1717090200-1717095600@qcb.ucla.edu
SUMMARY:QCBio Special Evening Lecture: Dr. Michael Elowitz\, Assistant Adjunct Professor\, Biological Chemistry\, UCLA
DESCRIPTION:TITLE: “Designing synthetic circuits for biological understanding and therapeutic applications”
URL:https://qcb.ucla.edu/event/qcbio-special-evening-lecture-dr-michael-elowitz-assistant-adjunct-professor-biological-chemistry-ucla/
LOCATION:Boyer Hall 159
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/Elowitz.jpeg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240521T090000
DTEND;TZID=America/Los_Angeles:20240523T120000
DTSTAMP:20260615T233322
CREATED:20210908T214419Z
LAST-MODIFIED:20240402T220043Z
UID:18787-1716282000-1716465600@qcb.ucla.edu
SUMMARY:W13: Genetic Analysis  (VCF-Plink)
DESCRIPTION:High-throughput sequencing technologies have allowed researchers to extract DNA at the individual\, population\, and species levels. In this workshop\, students will learn how to analyze and interpret population-level genetic information with PLINK and R. Students will also be exposed to the literature on the different topics\, followed by hands-on exercises and paper discussion.
URL:https://qcb.ucla.edu/event/w13-genetics-analysis/
LOCATION:529 Boyer Hall\, 611 Charles E Young Dr E\,\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:Workshops,Interactive Workshop
ATTACH;FMTTYPE=image/png:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2020/02/1dNLbh0n_400x400.png
ORGANIZER;CN="QCB Collaboratory":MAILTO:collaboratory@ucla.edu
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240520T140000
DTEND;TZID=America/Los_Angeles:20240520T170000
DTSTAMP:20260615T233322
CREATED:20240503T142111Z
LAST-MODIFIED:20240503T142254Z
UID:26600-1716213600-1716224400@qcb.ucla.edu
SUMMARY:Career Workshop for PhDs and Postdocs
DESCRIPTION:Join us for a tailored workshop designed to empower you with the skills and knowledge needed to excel in the competitive landscape of academia\, industry\, and beyond. \nLearn from experienced professionals\, gain valuable insights\, and expand your network.  \nGuest Speakers: \n• Kathrin Burch\, Associate Manager\, Statistical Genetics\, Regeneron \n• Max Shokhirev\, Head of Bioinformatics at Tally Health \n• Tiffany Hsu\, Scientist at Genentech \n• Darren Kessner\, Bioinformatics Software Engineer & Math and Computer Science Teacher \nRegister here: https://docs.google.com/forms/d/1ECWkASxZ95SEVKaDXzPCub-WOj5bHqX1mUvsxpHGhNo/edit
URL:https://qcb.ucla.edu/event/career-workshop-for-phds-and-postdocs/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:Interactive Workshop
ATTACH;FMTTYPE=application/pdf:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/05/Career-Workshop-for-PhDs-and-Postdocs.pdf
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240520T120000
DTEND;TZID=America/Los_Angeles:20240520T130000
DTSTAMP:20260615T233322
CREATED:20240407T154633Z
LAST-MODIFIED:20240407T154633Z
UID:26492-1716206400-1716210000@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Jana Lipkova\, PhD\, Assistant Professor of Pathology\, UC Irvine
DESCRIPTION:TITLE: “AI-based multimodal data fusion in oncology” \nHosted by William Hsu for Medical Informatics and UCLA JCCC \n 
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-jana-lipkova-phd-assistant-professor-of-pathology-uc-irvine/
LOCATION:Boyer Hall 159
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/Jana.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240513T120000
DTEND;TZID=America/Los_Angeles:20240513T130000
DTSTAMP:20260615T233322
CREATED:20240407T154357Z
LAST-MODIFIED:20240407T154357Z
UID:26488-1715601600-1715605200@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Ghayda Mirzaa\, MD\, Associate Professor\, Pediatrics and Medical Genetics\, Seattle Children's Hospital
DESCRIPTION:TITLE: “The genetics of pediatric surgical epilepsy disorders: successes\, challenges and future avenues” \nHosted by Saitta Sulagna for Genetics & Genomics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-ghayda-mirzaa-md-associate-professor-pediatrics-and-medical-genetics-seattle-childrens-hospital/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/Ghayda.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240506T120000
DTEND;TZID=America/Los_Angeles:20240506T130000
DTSTAMP:20260615T233322
CREATED:20240407T154059Z
LAST-MODIFIED:20240407T154059Z
UID:26484-1714996800-1715000400@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Angela Brooks\, PhD\, Professor\, Department of Biomolecular Engineering\, UC Santa Cruz
DESCRIPTION:TITLE: TBD \nHosted by Grace Xiao for Bioinformatics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-angela-brooks-phd-professor-department-of-biomolecular-engineering-uc-santa-cruz/
LOCATION:Boyer 159
CATEGORIES:Research Meetings
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/Angela.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240429T140000
DTEND;TZID=America/Los_Angeles:20240429T140000
DTSTAMP:20260615T233322
CREATED:20240407T153716Z
LAST-MODIFIED:20240407T153716Z
UID:26480-1714399200-1714399200@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Omolola Ogunyemi\, PhD\, FACMI\, Director\, Center for Biomedical Informatics\, Professor\, Preventive & Social Medicine Charles Drew University
DESCRIPTION:TITLE: “AI and the Healthcare Safety Net” \nHosted by William Hsu for Medical Informatics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-omolola-ogunyemi-phd-facmi-director-center-for-biomedical-informatics-professor-preventive-social-medicine-charles-drew-university/
LOCATION:529 Boyer Hall\, 611 Charles E Young Dr E\,\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/Omo.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240425T173000
DTEND;TZID=America/Los_Angeles:20240425T183000
DTSTAMP:20260615T233322
CREATED:20241215T201002Z
LAST-MODIFIED:20250122T013239Z
UID:27303-1714066200-1714069800@qcb.ucla.edu
SUMMARY:Webinar: Age - Just a Number?
DESCRIPTION:
URL:https://qcb.ucla.edu/event/age-just-a-number/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:Webinar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240422T120000
DTEND;TZID=America/Los_Angeles:20240422T130000
DTSTAMP:20260615T233322
CREATED:20240407T153357Z
LAST-MODIFIED:20240407T153357Z
UID:26476-1713787200-1713790800@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Mia Levine\, PhD\, Associate Professor\, University of Pennsylvania
DESCRIPTION:TITLE: “Intra-genomic conflict and the evolution of genome integrity” \nHosted by Kirk Lohmueller for Genetics & Genomics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-mia-levine-phd-associate-professor-university-of-pennsylvania/
LOCATION:Boyer 159
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/MIA.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240415T120000
DTEND;TZID=America/Los_Angeles:20240415T130000
DTSTAMP:20260615T233322
CREATED:20240407T153129Z
LAST-MODIFIED:20240407T153129Z
UID:26472-1713182400-1713186000@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Chongzhi Zang\, PhD\, Associate Professor\, University of Virginia
DESCRIPTION:TITLE: “Computational Methods for Trancriptional Regulation” \nHosted by Jingyi Jessica Li for Bioinformatics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-chongzhi-zang-phd-associate-professor-university-of-virginia/
LOCATION:Boyer 159
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/Chongzhi.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240408T120000
DTEND;TZID=America/Los_Angeles:20240408T130000
DTSTAMP:20260615T233322
CREATED:20240407T152731Z
LAST-MODIFIED:20240407T152731Z
UID:26467-1712577600-1712581200@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Barbara Cheifet\, PhD\, Editor in Chief\, Nature Biotechnology
DESCRIPTION:TITLE: “Publishing for Impact” \nHosted by Jingyi Jessica Li for Bioinformatics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-barbara-cheifet-phd-editor-in-chief-nature-biotechnology/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/Barbara.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240401T120000
DTEND;TZID=America/Los_Angeles:20240401T130000
DTSTAMP:20260615T233322
CREATED:20240401T144912Z
LAST-MODIFIED:20240401T145230Z
UID:26433-1711972800-1711976400@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Alexis Battle\, PhD\, Professor\, Biomedical Engineering\, Computer Science and Genetics Medicine Director\, Malone Center for Engineering in Healthcare\, Johns Hopkins University
DESCRIPTION:TITLE: “Multi-omic and temporal data for rare and common genetic variation”
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-alexis-battle-phd-professor-biomedical-engineering-computer-science-and-genetics-medicine-director-malone-center-for-engineering-in-healthcar/
LOCATION:Boyer 159
CATEGORIES:Research Seminars
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/04/ALEXIS.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240311T120000
DTEND;TZID=America/Los_Angeles:20240311T130000
DTSTAMP:20260615T233322
CREATED:20240109T214908Z
LAST-MODIFIED:20240109T214908Z
UID:26273-1710158400-1710162000@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Alkes Price\, PhD\, Professor\, Harvard School of Public Health
DESCRIPTION:TITLE: “Functional architectures of complex disease” \nHosted by Noah Zaitlen for Genetics & Genomics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-alkes-price-phd-professor-harvard-school-of-public-health/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/01/Seminar-Series-Poster-–-W2499-6.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240304T120000
DTEND;TZID=America/Los_Angeles:20240304T130000
DTSTAMP:20260615T233322
CREATED:20240109T214702Z
LAST-MODIFIED:20240109T220014Z
UID:26269-1709553600-1709557200@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Katherine L. Nathanson\, MD\, Deputy Director Penn Cancer Center\, University of Pennsylvania
DESCRIPTION:TITLE: “The evolving landscape of hereditary breast cancer” \nHosted by Paul Spellman for Genetics & Genomics and UCLA JCCC
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-katherine-l-nathanson-md-deputy-director-penn-cancer-center-university-of-pennsylvania/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/01/Seminar-Series-Poster-–-W2499-5.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240227T090000
DTEND;TZID=America/Los_Angeles:20240229T120000
DTSTAMP:20260615T233322
CREATED:20191212T200255Z
LAST-MODIFIED:20231221T202905Z
UID:10844-1709024400-1709208000@qcb.ucla.edu
SUMMARY:W8: Variant Calling with GATK
DESCRIPTION:This workshop uses materials developed by the Broad Institute to teach Variant Discovery with GATK.  Attendees with no prior experience in variant calling are recommended to review all of the materials below before coming to the workshop. This early preparation will allow a focus on the specific issues of running GATK on the UCLA hoffman2 cluster rather than introducing the GATK variant calling pipeline. There will also be a focus on post variant discovery quality control steps as time allows.
URL:https://qcb.ucla.edu/event/w8-variant-calling-with-gatk-2/
LOCATION:529 Boyer Hall\, 611 Charles E Young Dr E\,\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:Workshops,Interactive Workshop
ATTACH;FMTTYPE=image/png:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2020/02/1dNLbh0n_400x400.png
ORGANIZER;CN="QCB Collaboratory":MAILTO:collaboratory@ucla.edu
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240226T120000
DTEND;TZID=America/Los_Angeles:20240226T130000
DTSTAMP:20260615T233322
CREATED:20240109T202256Z
LAST-MODIFIED:20240109T202256Z
UID:26256-1708948800-1708952400@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Chongyi Chen\, PhD\, Stadtman Investigator\, NCI
DESCRIPTION:TITLE: “Quantitative mapping of DNA supercoiling tension throughout the human genome” \nHosted by Yi Yin for Genetics & Genomics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-chongyi-chen-phd-stadtman-investigator-nci/
LOCATION:Boyer 159
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/01/Seminar-Series-Poster-–-W2499-2.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240212T120000
DTEND;TZID=America/Los_Angeles:20240212T130000
DTSTAMP:20260615T233322
CREATED:20240109T201544Z
LAST-MODIFIED:20240109T220237Z
UID:26248-1707739200-1707742800@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Nancy Zhang\, PhD\, Ge Li and Ning Zhao Professor\, University of Pennsylvania
DESCRIPTION:TITLE: “Signal recovery in single cell data integration” \nHosted Jingyi Jessica Li for Bioinformatics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-nancy-zhang-phd-ge-li-and-ning-zhao-professor-university-of-pennsylvania/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/01/Seminar-Series-Poster-–-W2499.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240205T120000
DTEND;TZID=America/Los_Angeles:20240205T130000
DTSTAMP:20260615T233322
CREATED:20240109T214410Z
LAST-MODIFIED:20240109T214410Z
UID:26265-1707134400-1707138000@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Xuanyao Liu\, PhD\, Assistant Professor\, University of Chicago
DESCRIPTION:TITLE: “Linking variants to function with powerful multivariate approaches” \nHosted by Brunilda Balliu for Bioinformatics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-xuanyao-liu-phd-assistant-professor-university-of-chicago/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/01/Seminar-Series-Poster-–-W2499-4.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240129T000000
DTEND;TZID=America/Los_Angeles:20240129T130000
DTSTAMP:20260615T233322
CREATED:20240109T214106Z
LAST-MODIFIED:20240109T214106Z
UID:26261-1706486400-1706533200@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Heidi Rehm\, PhD\, Co-Director\, Population and Medical Genetics\, Broad Institute; Chief Genomics Officer\, Mass General Hospital; Professor of Pathology\, Harvard Medical School
DESCRIPTION:TITLE: “Advancing Genomic Medicine through Global Collaboration” \nHosted by Sulagna Saitta for Genetics & Genomics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-heidi-rehm-phd-co-director-population-and-medical-genetics-broad-institute-chief-genomics-officer-mass-general-hospital-professor-of-patho/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/01/Seminar-Series-Poster-–-W2499-3.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240122T120000
DTEND;TZID=America/Los_Angeles:20240122T130000
DTSTAMP:20260615T233322
CREATED:20240109T201909Z
LAST-MODIFIED:20240109T201909Z
UID:26252-1705924800-1705928400@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Katrina Claw\, PhD\, Assistant Professor\, University of Colorado – Anschutz Medical Campus
DESCRIPTION:TITLE: “Pharmacogenomic variation in ancient humans and implications for human health” \nHosted by Jenny Papp for Genetics & Genomics
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-katrina-claw-phd-assistant-professor-university-of-colorado-anschutz-medical-campus/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2024/01/Seminar-Series-Poster-–-W2499-1.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20240108T120000
DTEND;TZID=America/Los_Angeles:20240108T130000
DTSTAMP:20260615T233322
CREATED:20231224T110456Z
LAST-MODIFIED:20231224T111411Z
UID:26229-1704715200-1704718800@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: William Speier\, PhD\, Associate Professor in the Department of Radiological Sciences
DESCRIPTION:TITLE: “Multimodal deep learning models for thyroid cancer detection” \nHosted by William Hsu for Medical Informatics and UCLA JCCC.
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-monday-january-8-2024-william-speier-phd-associate-professor-in-the-department-of-radiological-sciences/
LOCATION:Boyer Hall 159
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/12/WILLIAM-SPEIER.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20231207T120000
DTEND;TZID=America/Los_Angeles:20231207T143000
DTSTAMP:20260615T233322
CREATED:20231120T165356Z
LAST-MODIFIED:20231120T195105Z
UID:26038-1701950400-1701959400@qcb.ucla.edu
SUMMARY:Research-in-Progress (RIP) Seminar: MINI SYMPOSIUM - Emily Maciejewski (Ernst)\, Grad Student\, Computer Science - Chenlu Di (Lohmueller)\, Postdoc\, Ecology & Evolutionary Biology -  Qingyang Wang (Li JJ)\, Grad Student\, Statistics - Alex Bermudez (Lin)\, Grad Student\, Bioengineering
DESCRIPTION:12pm: Emily Maciejewski (Ernst)\, Grad Student\, Computer Science \nTITLE:  “Cross-species and tissue imputation of species-level DNA methylation samples” \nABSTRACT: DNA methylation data is highly informative to study a variety of aspects of mammalian biology. The availability of such data for many mammals at conserved sites was recently vastly enhanced by the development and large-scale application of the mammalian methylation array. For instance\, we consider here 13\,245 samples profiled on this array representing 348 species and 59 tissues from 746 species-tissue combinations. While having some coverage of many different species and tissue types\, this data only captures 3.6% of potential species-tissue combinations. We thus developed CMImpute (Cross-species Methylation Imputation) which uses a Conditional Variational Autoencoder to impute DNA methylation of non-profiled species-tissue combinations. In cross-validation\, we show that CMImpute yields high correlation with held-out observed values\, outperforming multiple baselines. We then train a model on all the data to impute 19\,786 new species-tissue combinations. We expect CMImpute and our imputed data resource will be useful for DNA methylation analyses across mammalian species. \n  \n12:30pm: Chenlu Di (Lohmueller)\, Postdoc\, Ecology & Evolutionary Biology \nTITLE: “Inference of fitness effects of mutations in noncoding regions of the human genome” \nABSTRACT: TBD \n  \n1:30pm: Qingyang Wang (Li JJ)\, Grad Student\, Statistics \nTITLE “Review of computational methods for estimating cell potency from single-cell RNA-seq data” \nABSTRACT: In single-cell RNA sequencing (scRNA-seq) data analysis\, a critical challenge is to infer hidden dynamic cellular processes from measured static cell snapshots. To tackle this challenge\, many computational methods have been developed from distinct perspectives. Besides the common perspectives of inferring trajectories (or pseudotime) and RNA velocity\, another important perspective is to estimate the differentiation potential of cells\, which is commonly referred to as “cell potency.” In this review\, we provide a comprehensive summary of 11 computational methods that estimate cell potency from scRNA-seq data under different assumptions\, some of which are even conceptually contradictory. We divide these methods into three categories: mean-based\, entropy-based\, and correlation-based methods\, depending on how a method summarizes gene expression levels of a cell or cell type into a potency measure. Our review focuses on the key similarities and differences of the methods within each category and between the categories\, providing a high-level intuition of each method. Moreover\, we use a unified set of mathematical notations to detail the 11 methods’ methodologies and summarize their usage complexities\, including the number of ad-hoc parameters\, the number of required inputs\, and the existence of discrepancies between the method description in publications and the method implementation in software packages. Realizing the conceptual contradictions of existing methods and the difficulty of fair benchmarking without single-cell-level ground truths\, we conclude that accurate estimation of cell potency from scRNA-seq data remains an open challenge. \n  \n2:00pm: Alex Bermudez (Lin)\, Grad Student\, Bioengineering \nTITLE: “TCell Morphology Impacts Chromatin States During Crowding” \nABSTRACT: Variability is an inherent characteristic of all biological systems\, exemplified by the diverse shapes\, sizes\, and gene expression profiles of cells comprising tissues. Despite its ubiquity\, our understanding of how such a phenotypic heterogeneity plays a role in regulating cell biology remains incomplete. In this talk\, I will discuss how cell shape heterogeneity arises and its impacts on chromatin organization of each cell during epithelial crowding\, a canonical process where cells proliferate until a densely packed monolayer forms. Our findings suggest that cell morphological heterogeneity is not mere noise\, but a crucial factor driving chromatin state and gene expression\, directing tissue development and remodeling.
URL:https://qcb.ucla.edu/event/research-in-progress-rip-seminar-mini-symposium-emily-maciejewski-ernst-grad-student-computer-science-chenlu-di-lohmueller-postdoc-ecology-evolutionary-biology-qingyang-wang-l/
LOCATION:Boyer Hall 130
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=application/pdf:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/11/Mini-Symposium-12723-1.pdf
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20231204T120000
DTEND;TZID=America/Los_Angeles:20231204T130000
DTSTAMP:20260615T233322
CREATED:20231017T092149Z
LAST-MODIFIED:20231017T092236Z
UID:25854-1701691200-1701694800@qcb.ucla.edu
SUMMARY:Frontiers in Computational Biosciences Seminar Series: Monday\, December 4\, 2023  Graciela Gonzalez-Hernandez\, PhD\, Vice Chair of Research and Education\, Department of Computational Biomedicine\, Cedars-Sinai Medical Center
DESCRIPTION:TITLE: “ChatGPT for Clinical Informatics: what can LLMs do now for Health AI?” \nHosted by William Hsu for Medical Informatics \n 
URL:https://qcb.ucla.edu/event/frontiers-in-computational-biosciences-seminar-series-monday-december-4-2023-graciela-gonzalez-hernandez-phd-vice-chair-of-research-and-education-department-of-computational-biomedicine-cedars/
LOCATION:Boyer 159\, 611 Charles E. Young Dr. E.\, Los Angeles\, CA\, 90095\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/png:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/10/Picture6.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20231201T133000
DTEND;TZID=America/Los_Angeles:20231201T140000
DTSTAMP:20260615T233322
CREATED:20231018T093230Z
LAST-MODIFIED:20231201T221917Z
UID:25893-1701437400-1701439200@qcb.ucla.edu
SUMMARY:Research-in-Progress (RIP) Seminar: Samir Akre (Bui)\, Graduate Student in Medical Informatics
DESCRIPTION:TITLE: “Detection of Symptoms of Depression Using Data From the iPhone and Apple Watch.” \nABSTRACT: Digital health data from consumer wearable devices and smartphones have the potential to improve our understanding of mental illness. However\, in conditions like depression\, there is not yet a consistent uniform measurement tool whose result can be reliably used as a gold standard measure of depression severity. This work seeks to specify what symptoms and dimensions of depression can be detected using vitals\, activity\, and sleep monitored by consumer wearable devices. Machine learning models are fit to digital health data and used to detect responses to individual questions from self-reports as well as summary scores. Data is analyzed from an ongoing study with data from the Apple Watch\, iPhone\, and validated self-reports. The digital health data investigated was found to detect depression severity and specific symptoms like poor appetite\, aspects of anhedonia\, and sleep timings (ROC AUC 0.63 to 0.72). \n\nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2023/10/Samir-Akre.mp4
URL:https://qcb.ucla.edu/event/research-in-progress-rip-seminar-samir-akre-bui-graduate-student-in-medical-informatics/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/10/Akre-Samir-AMIA2022_crop.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20231201T130000
DTEND;TZID=America/Los_Angeles:20231201T133000
DTSTAMP:20260615T233322
CREATED:20231030T181641Z
LAST-MODIFIED:20231201T222154Z
UID:25976-1701435600-1701437400@qcb.ucla.edu
SUMMARY:Research-in-Progress (RIP) Seminar: Kaija Gahm (Pinter-Wollman)\, Graduate Student in Ecology & Evolutionary Biology
DESCRIPTION:TITLE: “An updated movement path randomization method to distinguish social and spatial drivers of animal interactions.” \nABSTRACT: Studying the spatial-social interface requires tools that distinguish between social and spatial drivers of interactions. Testing hypotheses regarding the factors determining animal interactions often involves comparing observed interactions with reference or ’null’ models. One approach to constructing reference models that account for spatial drivers of social interactions is randomizing animal movement paths to decouple their spatial and social phenotypes while maintaining environmental effects on movements. Here we propose a new randomization approach. Using agent-based simulations\, we explore the utility of the new approach for different types of animal movements and compare its performance to existing approaches. We show that our method provides reference models that are more similar to the original tracking data\, while still distinguishing between social and spatial drivers. Furthermore\, the new approach results in fewer false-positives than other approaches\, especially when animals do not return to the same place each night but change movement foci\, either locally or directionally. Finally\, we show that interactions among GPStracked griffon vultures (Gyps fulvus) emerge from social attraction rather than from their movement patterns alone. We conclude by highlighting the biological situations in which the new method might be most suitable for testing hypotheses about the underlying causes of social interactions. \nhttps://qcb.ucla.edu/wp-content/uploads/sites/14/2023/10/Kaija-Gahm.mp4
URL:https://qcb.ucla.edu/event/research-in-progress-rip-seminar-kaija-gahm-pinter-wollman-graduate-student-in-ecology-evolutionary-biology/
LOCATION:ZOOM\, CA\, United States
CATEGORIES:QCBio Seminar Series
ATTACH;FMTTYPE=image/jpeg:https://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/10/Kaija_Headshot_Final-3.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/Los_Angeles:20231129T133000
DTEND;TZID=America/Los_Angeles:20231129T140000
DTSTAMP:20260615T233322
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://qcb.ucla.edu/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://wp-misc.lifesci.ucla.edu/qcb/wp-content/uploads/sites/14/2023/11/Christy_Lee_profile.png
END:VEVENT
END:VCALENDAR