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Established in 2020, POSTECH Mathematical Institute for Data Science (MINDS) is the community of researchers in the areas of fundamental data science, machine learning, artificial intelligence, scientific computing, and humanitarian data science. MINDS mission is to provide a platform for collaboration among researchers and to provide various opportunities for students in data science. MINDS also aims to use our data science research to serve our local and global communities pursuing humanitarian data science.

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MINDS SEMINAR

Towards realistic synthetic single-cell RNA sequencing generation with deep learning

MINDS SEMINAR
period : 2022-11-29 ~ 2022-11-29
time : 10:00:00 ~ 11:00:00
개최 장소 : Online streaming (Zoom)
Topic : Towards realistic synthetic single-cell RNA sequencing generation with deep learning
개요
Date 2022-11-29 ~ 2022-11-29 Time 10:00:00 ~ 11:00:00
Speaker Ali Heydari Affiliation UC Merced
Place Online streaming (Zoom) Streaming link ID : 688 896 1076 / PW : 54321
Topic Towards realistic synthetic single-cell RNA sequencing generation with deep learning
Contents Single-cell RNA sequencing (scRNAseq) technologies allow for measurements of gene expression at a single-cell resolution. This provides researchers with a tremendous advantage for detecting heterogeneity, delineating cellular maps, or identifying rare subpopulations. However, a critical challenge in this space is the low number of single-cell observations due to limitations by rarity of subpopulation, tissue degradation, or cost. This absence of sufficient data may cause inaccuracy or irreproducibility of downstream analysis. In this talk, I will provide a brief overview of deep learning methods for generating realistic synthetic scRNAseq data, and present on ACTIVA: a novel framework for generating synthetic data using a single-stream adversarial variational autoencoder conditioned with cell-type information. Within a single framework, ACTIVA can enlarge existing datasets and generate specific subpopulations on demand, as opposed to two separate models [such as single-cell GAN (scGAN) and conditional scGAN (cscGAN)]. Data generation and augmentation with ACTIVA can enhance scRNAseq pipelines and analysis, such as benchmarking new algorithms, studying the accuracy of classifiers and detecting marker genes. ACTIVA will facilitate analysis of smaller datasets, potentially reducing the number of patients and animals necessary in initial studies.
MinDS MinDS · 2022-11-24 14:41 · Views 455

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