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April 2021

Bioinformatics/Human Genetics Seminar Series: Nanibaa’ Garrison, PhD

April 5 @ 11:00 am - 12:00 pm
ZOOM CA United States

Associate Professor, UCLA Institute for Society and Genetics “TBD” Hosted by Paivi Pajukanta

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QCBio Research Seminar: Xinzhou Ge (Li JJ)

April 2 @ 11:30 am - 12:00 pm
ZOOM CA United States

TITLE: "Clipper: p-value-free FDR control on high-throughput data from two conditions." ABSTRACT: 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…

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QCBio Research Seminar: Arjun Bhattacharya (Pasaniuc)

April 2 @ 11:00 am
ZOOM CA United States

TITLE: "Distal mediator-enriched placental transcriptome-wide association studies reveal genetic mechanisms supporting the  Developmental Origins of Health and Disease." ABSTRACT: 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…

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QCBio Academic Jobs – Postdoc Career Development Series: “Introduction – How to Apply for an Academic Job?”

April 1 @ 3:00 pm - 4:00 pm
ZOOM CA United States

Panelists: Noa Pinter-Wollman & Alexander Hoffmann  

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March 2021

W9: Intro to Python

March 30 @ 1:30 pm - April 1 @ 4:30 pm
ZOOM CA United States + Google Map

This workshop will cover the basic concepts of Python programming. The course is supplemented with many hands-on exercises with emphasis given towards computational biology use cases.

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W1: Intro to Unix command line

March 30 @ 9:00 am - April 1 @ 12:00 pm
ZOOM CA United States + Google Map

Unix is a command-line-based platform that is a highly powerful and flexible tool for data management and analysis. First, this workshop introduces the basic concepts of UNIX operating system and shell scripting. We will explore essential hands-on skills to confidently use the command line interface on either a local (laptop) or a remote (hoffman2 cluster) computer running the Unix system. Next, this workshop covers how to navigate around the Unix file system from the command line and use a number…

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Bioinformatics/Human Genetics Seminar Series: Vivian Li, PhD

March 29 @ 11:00 am - 12:00 pm
ZOOM CA United States

Assistant Professor-Biostatistics, Department of Biostatistics and Epidemiology, Rutgers University "Model-based analysis of alternative polyadenylation using 3' end reads" Hosted by Jessica Li

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QCBio Research Seminar: Alexander Markowitz (Boutros)

March 12 @ 11:30 am - 12:00 pm
ZOOM CA United States

TITLE: "A pan-cancer landscape analysis of molecular and functional genomics in tumor proliferation." ABSTRACT: Rapid proliferation is a central hallmark of cancer and is associated with poor prognosis in most cancer types. My overall goal is to understand the mechanisms by which specific driver mutations and mutational signatures influence rates of tumor proliferation within and between cancer types and subtypes. I will do so by integrating model-system and patient data, providing both descriptive and mechanistic insights into the origins, consequences…

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QCBio Research Seminar: Sam Christensen (Roper)

March 12 @ 11:00 am - 11:30 am
ZOOM CA United States

TITLE: "Asymptotic-Numerical Method For Cell Focusing in Microfluidic Channel." ABSTRACT: Inertial microfluidic devices use inertial lift forces to organize the spacing and positions of cells carried by flow.  A hybrid asymptotic-numerical method is presented that can calculate the migration velocities of cells in a channel by representing them as a combination singularities and discontinuities. Refinements to asymptotic analysis are given that improve the regularity of the PDE solution, increasing the order of convergence for polynomial based numerical solvers.

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QCBio Research Seminar: Ali Pazokitoroudi (Sankararaman)

March 5 @ 11:30 am - 12:00 pm
ZOOM CA United States

TITLE: "Efficient variance components analysis across millions of genomes." ABSTRACT: While variance components analysis has emerged as a powerful tool in complex trait genetics, existing methods for fitting variance components do not scale well to large-scale datasets of genetic variation. I will present a method for variance components analysis that is accurate and efficient: capable of estimating one hundred variance components on a million individuals genotyped at a million SNPs in a few hours. We illustrate the utility of our method…

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