Topics

<> Social media (2) <> software/hardware co-design (2) <> spatial transcriptomics (2) <> Stochastic processes (2) <> sustainability (2) <> system on chip (2) <> threat intelligence (2) <> Training (2) <> Trustworthy AI (2) <> TSS (2)

Promoters identification and analysis

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B1 L2 R2202

Promoter is a key region that is involved in differential transcription regulation of protein-coding and RNA genes. The gene-specific architecture of promoter sequences makes it extremely difficult to devise the general strategy for their computational identification.

Novel computational methods for promoter identification and analysis

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B2 L5 R5209

In this dissertation, I present the methods I have developed for prediction of promoters for different organisms. Instead of focusing on the classification accuracy of the discrimination between promoter and non-promoter sequences, I predict the exact positions of the TSS inside the genomic sequences, testing every possible location. The developed methods significantly outperform the previous promoter prediction programs by considerably reducing the number of false positive predictions. Specifically, to reduce the false positive rate, the models are adaptively and iteratively trained by changing the distribution of samples in the training set based on the false positive errors made in the previous iteration. The new methods are used to gain insights into the design principles of the core promoters. Using model analysis, I have identified the most important core promoter elements and their effect on the promoter activity. I have developed a novel general approach to detect long range interactions in the input of a deep learning model, which was used to find related positions inside the promoter region. The final model was applied to the genomes of different species without a significant drop in the performance, demonstrating a high generality of the developed method.
<> ultrafast fiber lasers (2) <> University of Minnesota (2)

The Evolution of Machine Learning

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B4 B5 A0215

This talk presents an overview of recent methodological advances in developing item-based nearest-neighbor-based recommender systems that have substantially improved their performance. Biography George Karypis is a Distinguished McKnight University Professor and an ADC Chair of Digital Technology at the Department of Computer Science & Engineering at the University of Minnesota, Twin Cities. His research interests span the areas of data mining, high performance computing, information retrieval, collaborative filtering, bioinformatics, cheminformatics, and scientific computing. His research has

PREMA: Principled Tensor Data Recovery from Multiple Aggregated Views

Faisal M. Almutairi, Ph.D. Candidate, Electrical and Computer Engineering, University of Minnesota

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B1 L4 R4214

The proposed method, called PREMA, leverages low-rank tensor factorization tools to provide recovery guarantees under certain conditions. PREMA is flexible in the sense that it can perform the disaggregation task on data that have missing entries, i.e., partially observed. The proposed method considers challenging scenarios: i) the available views of the data are aggregated in two dimensions, i.e., double aggregation, and ii) the aggregation patterns are unknown. Experiments on real data from different domains, i.e., sales data from retail companies, crime counts, and weather observations, are presented to showcase the effectiveness of PREMA.
<> urban modeling (2) <> user authentication (2)

Practical Cryptographic Framework to Manage Security and Privacy for IoT Endpoint devices

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B1 L4 R4214

In this talk, the speaker will provide a high-level introduction to his recent research on IoT endpoint security. Firstly, he will introduce requirements followed by a discussion on cryptographic algorithm implementation. He will mainly focus on an overview of efficient cryptography for IoT endpoints and system privacy issues. Then he will discuss security management approaches, positives, negatives and challenges to resolve, linking to the endpoint device security section with regards to realistic device needs/capabilities.

Dictionary Attacks on Biometrics

Prof. Nasir Memon, Vice Dean for Academics and Student Affairs and Professor of Computer Science and Engineering at the New York University Tandon School of Engineering

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B9 L2 H2

Contrary to the prevailing belief, we show that user authentication based on biometrics is vulnerable to dictionary attacks. We show the problem is particularly significant for partial prints used in smartphones and increasingly adopted for authentication tasks ranging from unlocking the devices screen up to payment authorization. We also show that speaker verification systems are also vulnerable to dictionary attacks. We then discuss ways to mitigate such attacks.
<> variant prioritization (2)

Semantic Prioritization of Novel Causative Genomic Variants in Mendelian and Oligogenic Diseases

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B9 R4223

Abstract Recent advances in Next Generation Sequencing (NGS) technologies have facilitated the generation of massive amounts of genomic data which in turn is bringing the promise that personalized medicine will soon become widely available. As a result, there is an increasing pressure to develop computational tools to analyze and interpret genomic data. In this dissertation, we present a systematic approach for interrogating patients' genomes to identify candidate causal genomic variants of Mendelian and oligogenic diseases. To achieve that, we leverage the use of biomedical data available

Imane Boudellioua

Imane Boudellioua obtained her Ph.D. degree in Computer Science under the supervision of Professor Robert Hoehndorf at the Bio-Ontology Research Group (BORG) at King Abdullah University of Science and Technology (KAUST). Imene has a Master's degree in Computer Science from KAUST. During Master's her thesis supervisor was Professor Basem Shihada. Thesis title: " A Vehicular Guidance Wireless Sensor Actuator Network." Research Interests Imane Boudellioua's research interests include the application of machine learning and data mining algorithms for functional annotation of various biological
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