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May 2021

QCBio Research Seminar: Rina Ding (Hsu)

May 14 @ 11:00 am - 12:00 pm
ZOOM CA United States

TITLE: "Multimodal radiomic analysis of biparametric MRI to predict biochemical recurrence after radical prostatectomy." ABSTRACT: Integration of information across multiple modalities and biological scales has the potential to improve the prediction of disease outcomes and response to treatments. In this talk, I will discuss our ongoing work to predict prostate cancer aggressiveness by combining information from biparametric MRI. We predict biochemical recurrence (BCR) in 343 men post radical prostatectomy by fusing quantitative image features extracted from T2- and diffusion-weighted scans. We found…

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QCBio Research Seminar: Brian Orcutt-Jahns (Meyer)

May 14 @ 11:00 am - 11:30 am
ZOOM CA United States

TITLE: "A simple, two-step, multivalent binding model predicts IL-2 mutein cell signaling profiles." ABSTRACT: The common γ-chain cytokines are promising immune therapies, but have been limited in their efficacy due to their induction of non-specific immune activation. Here, we visualized immune cell response to both mono- and multivalent γ-chain muteins using a structured dimensionality reduction scheme. We then used a simple multivalent binding model to predict cell type-specific signaling with high accuracy. Finally, we use this model to generate guidelines for…

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W14: Intro to Modern Statistics with R

May 11 @ 1:30 pm - May 13 @ 3:30 pm
ZOOM CA United States + Google Map

Through this seminar, attendees will walk away knowing when and how to run modern versions of traditional statistical analysis. These tests and the underlying bioinformatical lesson about resampling will be of use to most scientific disciplines. The course makes no assumptions about familiarity with traditional statistics – we will simply go through relatable experimental examples and ask how to test various hypotheses, introducing the relevant methods along the way. There will be homework assignments each night to solidify the concepts…

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W11: Metagenomics Analysis with Python and R

May 11 @ 9:00 am - May 13 @ 12:00 pm
ZOOM CA United States + Google Map

This workshop provides an introduction to the microbiome analyses from the raw sequence data generated from the next-generation sequencing platforms. We will cover how to perform the 16S rRNA-based analysis using an open-source bioinformatics pipeline QIIME. We will also cover some downstream analyses of the microbiome data beyond QIIME, including statistical analyses and functional analyses.

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Bioinformatics/Human Genetics Seminar Series: Alexandra Stern, PhD

May 10 @ 11:00 am - 12:00 pm
ZOOM CA United States

Associate Dean for the Humanities, University of Michigan-Ann Arbor “TBD: History of genetic counseling” Hosted by Christina Palmer

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QCBio Research Seminar: Ruochen Jiang (Li JJ)

May 7 @ 11:30 am - 12:00 pm
ZOOM CA United States

TITLE: "Sources of zeros in single-cell RNA-seq data and how they affect data analysis." ABSTRACT: Single-cell RNA sequencing (scRNA-seq) technologies have revolutionized biomedical sciences by enabling genome-wide profiling of gene expression levels at an unprecedented single-cell resolution. A distinct characteristic of scRNA-seq data is the vast proportion of zeros unseen in bulk RNA-seq data. Researchers view these zeros differently: some regard zeros as biological signals representing no or low gene expression, while others regard zeros as false signals or missing…

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QCBio Research Seminar: Erin Molloy (Sankararaman)

May 7 @ 11:00 am - 11:30 am
ZOOM CA United States

TITLE: "Advancing admixture graph estimation via maximum likelihood network orientation." ABSTRACT: Admixture, the interbreeding between previously distinct populations, is a pervasive force in evolution. The evolutionary history of populations in the presence of admixture can be modeled by augmenting phylogenetic trees with additional nodes that represent admixture events. However, these admixture graphs present formidable inferential challenges. Exhaustively evaluating all admixture graphs can be prohibitively expensive, so heuristics have been developed to enable efficient search. One heuristic, implemented in the popular method TreeMix, consists of…

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QCBio Academic Jobs – Postdoc Career Development Series: “Job Talk”

May 6 @ 3:00 pm - 4:00 pm
ZOOM CA United States

Panelist: Kirk Lohmueller

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W20: Single-Cell RNA-Seq Analysis with Python

May 4 @ 1:30 pm - May 7 @ 4:30 pm
ZOOM CA United States + Google Map

This workshop aims to introduce the basic concepts and algorithms for single-cell RNA-seq analysis. It will help participants obtain a better idea of how to use scRNA-seq technology, from considerations in experimental design to data analysis and interpretation. This workshop can serve researchers who are interested in designing an scRNA-seq study or who have acquired scRNA-seq data and would like to learn about different analytical approaches.  

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