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Science, Physiology, And Nutrition For The Nonscientist, Judi S. Morrill Jan 2025

Science, Physiology, And Nutrition For The Nonscientist, Judi S. Morrill

Open Educational Resources

A wonderful blend of physiology, nutrition, biochemistry, genetics, biology, evolution, chemistry--what we all need to know as informed citizens. A basic knowledge of the life sciences and how our bodies work--to promote our own good health, especially as we're bombarded with misleading advertisements, soundbites, and the like. DNA fingerprinting, calorie requirements, dietary advice, genetic engineering (including gene editing with CRISPR cas9)--all in an easy-to understand book.

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Toward Strategy Identification And Subtask Decomposition In Task Exploration, Tom Odem Jan 2025

Toward Strategy Identification And Subtask Decomposition In Task Exploration, Tom Odem

Master's Projects

This research builds on work in anticipatory human-machine interaction, a subfield of human-machine interaction where machines can facilitate advantageous interactions by anticipating a user’s future state. The aim of this research is to further a machine’s understanding of user knowledge, skill, and behavior in pursuit of implicit coordination. A task explorer pipeline was developed that uses clustering techniques, paired with factor analysis and string edit distance, to automatically identify key global and local strategies that are used to complete tasks. Global strategies identify generalized sets of actions used to complete tasks, while local strategies identify sequences that used those sets …

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Traceai: Intelligent Distributed Tracing Using Large Language Models, Mihir Dhirajlal Satra Jan 2025

Traceai: Intelligent Distributed Tracing Using Large Language Models, Mihir Dhirajlal Satra

Master's Projects

Distributed systems are difficult to trace using traditional methods due to the scale of data volume and complexity, and they usually require a lot of manual analysis. TraceAI tries to solve these problems by integrating Large Language Models with the tracing tools to automatically enhance the trace data evaluation. The project aims to provide an AI-driven solution for monitoring and understanding the flow of requests across services, anomaly detection, root cause analysis and performance optimization. It can thus automate finding out systems problems using LLMs thereby carrying out large scale trace data analysis. Anticipated results from the effort will be …

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Faux Capabilities: A Novel Approach For Code Analysis, Tanay Godse Jan 2025

Faux Capabilities: A Novel Approach For Code Analysis, Tanay Godse

Master's Projects

When using third-party packages or libraries, it is crucial to understand their behavior. Typically, this requires developers to either conduct code reviews or set up sandbox environments for testing or write unit tests with mocked values for every function used in their code. However, these approaches are often inefficient and time-consuming. A more effective solution would provide developers with a broad understanding of the functionality required by the code they plan to import. This can be done using object capabilities, where a particular functionality is the capability that an object must possess, in order to be able to perform the …

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Proxy Cap - La Lua Protector, Swift Sheng Jan 2025

Proxy Cap - La Lua Protector, Swift Sheng

Master's Projects

Inspired by the object capability model and sandbox, this project, Proxy Cap, introduces a new Lua access control model that improves the language’s security without sacrificing usability. Object capability is an unconventional but powerful security model. The security model closely observes the principle of least authority. Ambient authority, the omnipresent global environment, does not exist in the object capability computation world, and no resource is accessible unless explicitly assigned. Only connectivity begets connectivity. Lua is an extensible and high-performing scripting language based on ANSI C. The language is popular in many fields but faces security challenges. Lua has a non-traditional …

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Ribomoe: An Application Of Mixture Of Experts On Artificial Riboswitch Classification, Hainian Audrey Long Jan 2025

Ribomoe: An Application Of Mixture Of Experts On Artificial Riboswitch Classification, Hainian Audrey Long

Master's Projects

Urban water sewage is a potential health concern due to its possibility to spread contagious RNA viruses such as Coxsackievirus B3. However, detection of viral particles remains challenging because of low viral concentrations in wastewater and high mutation rates of the RNA virus. To address this, this study proposes a novel viral detection method using synthetic riboswitches that bind to the target virus and trigger a reporter gene, amplifying the detection signals. To support the design of effective riboswitches, we present a machine learning model for classifying riboswitch performance, integrating RNA sequence data with secondary structural features. This model used …

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Detecting Ai-Generated News Articles Using Unsupervised Machine Learning Algorithms, Lilou Sicard-Noel Jan 2025

Detecting Ai-Generated News Articles Using Unsupervised Machine Learning Algorithms, Lilou Sicard-Noel

Master's Projects

The widespread adoption of Large Language Models (LLMs) has revolutionized text generation and heightened concerns over misinformation and the erosion of journalistic integrity. Detecting AI-generated text is critical to addressing these challenges, yet current detection methods face adaptability, scalability, and accuracy limitations. This research paper uses machine-learning techniques to explore the classification of human and AI-generated articles, including a mix of human and AI-written content. The primary focus is on evaluating the effectiveness of clustering algorithms (K-Means and Agglomerative Clustering), auto-encoders, and Part-Of- Speech Tag Transition Matrix Log-Likelihood for distinguishing between AI-generated and human-written texts. Our findings reveal that while …

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Effects Of Data Augmentation On Sponge Identification Using Computer Vision Models, George Ku Jan 2025

Effects Of Data Augmentation On Sponge Identification Using Computer Vision Models, George Ku

Master's Projects

Coral reefs can be primarily found in tropical and sub-tropical regions of our oceans, providing a thriving habitat for millions of species. Marine sponges, which can be frequently found in coral reefs, play a critical role that contributes to the maintenance of these ecosystems, including the recycling of nutrients through water filtration. However, rising ocean temperatures and acidification due to climate change have resulted in the bleaching and death of coral reefs worldwide. In order to preserve these reefs and the sponges that depend on them, scientists have been performing studies on their biodiversity. This includes collecting numerous images of …

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Combining Esm Models With Experimentally Derived Structural Stability To Identify Functional Missense Mutations, Rucha Deo Jan 2025

Combining Esm Models With Experimentally Derived Structural Stability To Identify Functional Missense Mutations, Rucha Deo

Master's Projects

Missense mutations can impact protein function and structure, yet their effects on protein function are difficult to predict. In this study, I compared two deep learning models, ESM1v and ESM1b, by evaluating their mutation predictions against experimental structural stability data. ESM1v showed a stronger correlation with experimental structural stability scores compared to ESM1b. A sigmoid curve was fitted to explore this relationship further. Over 100,000 mutations were identified where experimental stability differed significantly from model predictions. Many mutations that remained structurally stable experimentally but were predicted as harmful by the ESM models were frequently found at known functional sites. Structural …

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Unconditional-To-Conditional Transfer And Optimization For Web-Based Skybox Gan, Crystal Kwong Jan 2025

Unconditional-To-Conditional Transfer And Optimization For Web-Based Skybox Gan, Crystal Kwong

Master's Projects

Generative adversarial networks (GANs) are known for their ability to generate high quality
images mimicking real life or even particular art styles. Yet for all their capability, casually
training a GAN on an average machine can be infeasible as GANs require an enormous amount
of time and data to train. Even with a trained GAN, model inference demands heavy
computations, making GANs difficult to deploy on applications. To address these limitations,
techniques such as transfer learning and quantization have been leveraged to speed up training of
GANs and lighten computational cost of GAN inference. This project aims to use such …

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Automated Sponge Segmentation With Mask R-Cnn On Arms Plate Images For Reef Monitoring, Mrunali Abhijit Thokadiwala Jan 2025

Automated Sponge Segmentation With Mask R-Cnn On Arms Plate Images For Reef Monitoring, Mrunali Abhijit Thokadiwala

Master's Projects

Climate change-driven ocean warming and acidification are disrupting the ecological balance of coral reefs. Notably, these oceanic conditions are undermining coral health and accelerating their decline which is favoring some sponge species in outcompeting them for dominance. Although functional, these altered reefs destabilize the reef architecture, hinder nutrient cycling, and support fewer marine species. Thus, monitoring the growth and abundance of various sponges and understanding their roles at different stages of ecological succession in coral reefs is vital. Autonomous reef monitoring structures (ARMS) are often used for this purpose, but manual taxonomic analysis using their images is time-consuming, inconsistent and …

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Disease Diagnosis Using Rag Llm With Smart Prompt Engineering, Qadeerullah Syed Jan 2025

Disease Diagnosis Using Rag Llm With Smart Prompt Engineering, Qadeerullah Syed

Master's Projects

Although recent trends indicate that LLMs outperform traditional methods in solving complex problems with enhanced reasoning, there has been barely any progress in replicating the quality of diagnoses like those of actual human doctors. The identification of an accurate diagnosis with thorough reasoning is still a significant challenge, even with advanced AI models. The process of performing accurate diagnosis remains challenging due to a lack of transparency in state-of-the-art models existing today, a lack of explanation in the diagnosis process, an emphasis on results rather than reasoning, and a lack of foundational knowledge in models, along with limited exploration of …

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Transformers In Time-Series Forecasting: Enhancing Robustness Via Dynamic Attention Mechanisms, Kush Patel Jan 2025

Transformers In Time-Series Forecasting: Enhancing Robustness Via Dynamic Attention Mechanisms, Kush Patel

Master's Projects

Transformer architectures have emerged as powerful tools for time series forecasting, excelling at capturing complex temporal dependencies across multivariate inputs. However, these models are highly susceptible to adversarial attacks such as the Fast Gradient Sign Method (FGSM) and Basic Iterative Method (BIM), which can significantly degrade predictive performance through small, targeted perturbations. This work integrates dynamic attention mechanisms, adaptive masking modules that introduce controlled variability into attention pathways, into a transformer forecasting model to enhance robustness against such attacks. Using two distinct datasets, we compare the performance of a standard transformer and a dynamic attention-enhanced transformer under both clean and …

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An Evidence-Based Approach To Predicting Pancreatic Ductal Adenocarcinoma, Surya Teja Nalluri Jan 2025

An Evidence-Based Approach To Predicting Pancreatic Ductal Adenocarcinoma, Surya Teja Nalluri

Master's Projects

Pancreatic ductal adenocarcinoma (PDAC) is a complex disease with hidden clinical indicators, so a reliable diagnosis of PDAC requires high precision and sophisticated analysis. Traditional probabilistic methods often rely on making unwarranted assumptions or undesirable approximations about probabilistic estimates, limiting their ability to provide the precision needed for correct diagnosis and treatment planning. In contrast, Dempster–Shafer Theory offers a formal framework for integrating uncertain and potentially conflicting evidence. This makes it well-suited for analyzing incomplete and ambiguous data typically associated with PDAC. By employing an evidential reasoning (ER) model based on Dempster-Shafer Theory, this approach systematically combines and evaluates imperfect …

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Identifying Red Sponges On Arms Plates By Preprocessing Images Using Histogram Equalization, Barry Ng Jan 2025

Identifying Red Sponges On Arms Plates By Preprocessing Images Using Histogram Equalization, Barry Ng

Master's Projects

Sponges play a vital role in marine ecosystems, being the only organisms capable of converting dissolved organic matter (DOM) into particulate organic matter (POM). They provide nutrients for coral reefs to thrive in oligotrophic waters. Autonomous reef monitoring structures (ARMS) are used to measure the biodiversity of coral reefs by simulating the complex cavities inside reef structures. Organisms settle on them and scientists can retrieve them after a period of time for analysis. Images are taken of ARMS plates after they are retrieved. Human analysis is unsuitable for the analysis of ARMS plates due to the huge number of images. …

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Rul Estimation Of N-Cmapss Turbofan Engines Using Deep Learning With Customized Penalty And Expanded Sensors, Prathmesh Pethkar Jan 2025

Rul Estimation Of N-Cmapss Turbofan Engines Using Deep Learning With Customized Penalty And Expanded Sensors, Prathmesh Pethkar

Master's Projects

Accurate prediction of Remaining Useful Life (RUL) for aircraft engines is important to enhance maintenance efficiency and flight safety. For this project, a solution to RUL prediction on NASA's N-CMAPSS data set, mimicking realistic engine degradation under simulated full-flight scenarios, is being proposed. For addressing the high-dimensional noisy sensor data challenge, a new feature engineering pipeline was utilized. Models trained on healthy data predict normal sensor behavior, and the discrepancy between these predictions—referred to as residual features—is a measure of degradation. To handle the size and computational demands of the dataset, training was conducted on Google Cloud Platform using GPU-supported …

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Hierarchical Bloom Filter Tree (Hbft): Scalable Geospatial Metadata Indexing For Bigdata Systems, Mrudula Patteparapu Jan 2025

Hierarchical Bloom Filter Tree (Hbft): Scalable Geospatial Metadata Indexing For Bigdata Systems, Mrudula Patteparapu

Master's Projects

Big Data infrastructure growth has produced overwhelming metadata volumes which create extensive problems for spatial indexing and both system scalability and database queries. Traditional solutions consisting of R-trees and conventional Bloom filters manage to provide either range query support or approximate membership testing, yet they face performance issues when used at large-scale metadata management. This research proposes Hierarchical Bloom Filter Tree (HBFT) as an improved framework that integrates hierarchical spatial partitioning with partitioned, scalable, cuckoo, and striped Bloom filter variants based on existing studies in hierarchical and probabilistic indexing. The complete evaluation process shows that HBFT outperforms PostGIS (an industry-standard …

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Medilightrag: A System For Medical Query Response Using Fine-Tuned Llms And Graph Based Retrieval, Rajiv Karthik Reddy Kodimala Jan 2025

Medilightrag: A System For Medical Query Response Using Fine-Tuned Llms And Graph Based Retrieval, Rajiv Karthik Reddy Kodimala

Master's Projects

The exponential increase in medical data has created a greater demand for precise and efficient information retrieval systems. Existing Large Language Models (LLMs) face domain-specific difficulties such as sophisticated medical jargon, situational comprehension, and the continual advancement of healthcare knowledge. To tackle these challenges, we present MediLightRAG, an innovative two-stage system which integrates parameter-efficient fine-tuning of Large Language models with LightRAG’s graph-based retrieval. The first stage focuses on enabling accurate resource-efficient model adaptation for the medical domain through QLoRA fine-tuning. In the second stage, LightRAG’s two-tiered retrieval architecture that combines graph-based indexing with dynamic knowledge retrieval is employed to enhance …

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Mycelia: Cross-Chain Data Oracle Using Frost Signatures, Bala Komatireddy Jan 2025

Mycelia: Cross-Chain Data Oracle Using Frost Signatures, Bala Komatireddy

Master's Projects

The interoperability of heterogeneous blockchain networks is the basis for the widespread application of blockchains in various fields. Cross-chain data oracles play a significant role in enabling distributed applications to exchange data and assets across different blockchains, thereby greatly enriching and expanding the application scenarios and use of blockchains. With the continuous advancement of blockchain technology, more and more researchers and industry participants have begun to focus on developing cross-chain data oracles. Current cross-chain data oracles face issues with trust, as they rely on centralized intermediaries or limited validator networks, increasing the risk of manipulation or single points of failure. …

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Moving Target Defense With Quantized Morphence: Defense Quantification Against Common Adversaries In Image And Time Series Problems, Rithika Dhamala Jan 2025

Moving Target Defense With Quantized Morphence: Defense Quantification Against Common Adversaries In Image And Time Series Problems, Rithika Dhamala

Master's Projects

In recent years, the vulnerability of deep learning models to adversarial attacks has emerged as a serious threat, particularly in domains where reliability and robustness are critical. This project builds upon the Morphence framework, a Moving Target Defense (MTD) strategy designed to counter adversarial threats by maintaining a dynamic pool of models and introducing randomness at inference time. While Morphence was originally developed for image classification tasks, this work not only reproduces the original architecture using MNIST and CIFAR-10 datasets but also extends the core principles to an entirely new domain: time series forecasting. The project proposes a unified defense …

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Retrieval-Augmented Generation For Survival Analysis In Cancers: Methods And Evaluation On The Surveillance, Epidemiology, And End Results Database, Jyothi Vaidyanathan Jan 2025

Retrieval-Augmented Generation For Survival Analysis In Cancers: Methods And Evaluation On The Surveillance, Epidemiology, And End Results Database, Jyothi Vaidyanathan

Master's Projects

Healthcare is one of the most important fields that benefits from advancements in Artificial Intelligence (AI). From classic models like linear regression to cuttingedge transformers, AI is applied across various healthcare subdomains, such as drug discovery, predictive analytics, and personalized medicine, to name a few. These techniques enable medical practitioners to make more informed decisions, significantly improving both the speed and accuracy of diagnoses and treatments. Machine learning has played a transformative role in oncology, especially in areas like early detection, diagnosis, treatment planning, and patient monitoring, by analyzing medical images, clinical information, genomic data, sensor information. Our research aims …

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Ai-Based Dynamic Spectrum Allocation Model For Wireless Network Management, Sai Sashank Peddibhotla Jan 2025

Ai-Based Dynamic Spectrum Allocation Model For Wireless Network Management, Sai Sashank Peddibhotla

Master's Projects

The growth of wireless communication has introduced challenges in the dynamic and resource contrived space which is the efficient utilization of bandwidth and spectrum. This research presents a model for dynamic spectrum allocation with the help of Convolutional Neural Network (CNN) for feature extraction and the Deep Q-Network (DQN) model’s reinforcement learning architecture. The CNN captures both spatial and temporal features of the network states and gives them to the DQN for optimal allocation decision making. This CNN-DQN architecture effectively implements spectrum resource allocation in wireless networks and adapts to resource allocation changes within performance bounds. The system’s performance is …

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Energy Considerations For Large Pre-Trained Neural Networks, Leo Mei Jan 2025

Energy Considerations For Large Pre-Trained Neural Networks, Leo Mei

Master's Projects

In recent years, neural network models have achieved phenomenal performance due to the increasing parameters and complexity of model architectures. However, these advancements come with high environmental costs as they require massive computational resources and consume substantial amounts of electricity, leading to high carbon emissions. Previous studies have demonstrated that substantial redundancies exist in large pre-trained models, and reducing these redundancies through compression would not compromise model performance. While these studies focused on retaining comparable model performance, the direct impact of compression on energy consumption when training models appears to have received little attention. By quantifying the energy usage associated …

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Photoproof: A Mobile Application For Verifying The Authenticity Of Images, Pruthviraj Urankar Jan 2025

Photoproof: A Mobile Application For Verifying The Authenticity Of Images, Pruthviraj Urankar

Master's Projects

The easy access to artificial intelligence (AI) technologies, such as deepfakes and generative adversarial networks (GANs), has facilitated the creation of highly realistic artificial images, thereby undermining the authenticity of photos in today’s digital age. Misinformation and manipulation are key dangers to digital content due to this advancement. Therefore, the need for reliable methods of photo verification and authentication has become increasingly important. This report presents a decentralized iOS app that uses blockchain to ensure photo authenticity. The app leverages Ethereum smart contracts and cryptographic hashing to securely log image metadata. When a user takes a photo, the app hashes …

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Semanticgraphrec: Lightweight Hybrid Recommendations Powered By Semantic Item Representations And Graph Collaborative Filtering, Devi Surya Kumari Akula Jan 2025

Semanticgraphrec: Lightweight Hybrid Recommendations Powered By Semantic Item Representations And Graph Collaborative Filtering, Devi Surya Kumari Akula

Master's Projects

Graph neural networks (GNNs) have emerged as a powerful paradigm for collaborative filtering. However, they often fall short in fully leveraging side textual content, resulting in suboptimal recommendations. To address this limitation, we explore the synergy between GNNs and deep contextual embeddings of item descriptions, aiming to enhance recommendation quality on the Amazon-Books dataset. We propose SemanticGraphRec, which combines GNNs with Large Language Models (LLMs) to leverage both collaborative filtering and textual item content. Experimental results demonstrate that incorporating semantic item embeddings produced by fine-tuning LLMs consistently improves performance. Our approach enhances recommendation relevance in sparse data scenarios by leveraging …

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Optimization Of Permutation Flowshop Scheduling Using An Island Genetic Algorithm For Makespan Minimization, Sahil Salim Jan 2025

Optimization Of Permutation Flowshop Scheduling Using An Island Genetic Algorithm For Makespan Minimization, Sahil Salim

Master's Projects

The Permutation Flowshop Scheduling Problem is a well-known NP-hard combinatorial optimization problem that involves the sequencing of n jobs across m machines in the same order to minimize the total makespan value. This project proposes a Heterogeneous Island Genetic Algorithm framework (HIGA). Each island represents a group of solutions that evolve in parallel using different initialization heuristics, crossover and mutation operators, and adaptive parameters. A dynamic, stagnation-based migration strategy is proposed to maintain targeted communication between the islands. The proposed HIGA approach was compared against the basic Standard Genetic Algorithm (SGA) and a more advanced Niche-based Genetic Algorithm (NEH-NGA) on …

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Enhancing Recommender Systems Using Graph Neural Networks, Long Short-Term Memory And Textual Embeddings, Tianxiang Chen Jan 2025

Enhancing Recommender Systems Using Graph Neural Networks, Long Short-Term Memory And Textual Embeddings, Tianxiang Chen

Master's Projects

Recommender systems surround us. They shape what we watch, how we buy, and even what our future might look like next. The Amazon Review Dataset and Movielens, those two datasets will help this project explore how to improve recommender systems through the user’s preferences. Two methods were combined: sequence-based models and graph-based models. Sequence models, such as LSTMs and Transformers, look at the order of user actions to find patterns by their sequence. On the other hand, Graphbased models focus on relationships between users, items, and their attributes. Textual embeddings added depth and context. Both methods offer something special, according …

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Traffic Forecasting With Vset-Nets: A Vgae Spatial Embedding For Temporal Networks Approach, Mrunmayee Dhapre Jan 2025

Traffic Forecasting With Vset-Nets: A Vgae Spatial Embedding For Temporal Networks Approach, Mrunmayee Dhapre

Master's Projects

Traffic forecasting is important for improving transportation systems by enabling better traffic management, congestion reduction, and urban planning. However, predicting traffic accurately is challenging due to the strong spatial dependencies between different road segments and the temporal changes in traffic patterns over time. Traditional time-series and graph models often struggle to capture both of these aspects effectively. In response, recent research has focused on temporal graph representation learning methods that jointly consider spatial relationships and temporal features in networks. This project proposes a hybrid model called VSET-Nets (VGAE Spatial Embedding for Temporal Networks) that employs Variational Graph Autoencoders (VGAEs) for …

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Domain-Specific Graph Rag Pipelines: Optimized Approaches For Building Efficient Personal Knowledge Repositories, Omkar Yadav Jan 2025

Domain-Specific Graph Rag Pipelines: Optimized Approaches For Building Efficient Personal Knowledge Repositories, Omkar Yadav

Master's Projects

Managing personal data, including notes, calendar events, to-do lists, and other personal information, has become increasingly complex and challenging. In response to this issue, I propose a framework using RAG that enables a large language model (LLM) to efficiently query this data without requiring training on the personal data itself. Conventional retrieval systems, including those leveraging vector-based retrievalaugmented generation (RAG), are effective at handling basic queries but struggle to deliver coherent global abstractions, integrate diverse knowledge sources, and account for temporal nuances. This research explores domain-specific Graph based RAG frameworks that incorporate a knowledge graph to better model relationships, thereby …

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Improving Contextual Retrieval For Long Documents In Q & A Systems, Sakshi Garg Jan 2025

Improving Contextual Retrieval For Long Documents In Q & A Systems, Sakshi Garg

Master's Projects

With the vast amount of information available on the internet distributed across several lengthy documents, finding relevant information has become more important and challenging. The goal of this project is to develop advanced techniques to retrieve information from long texts in order to deliver accurate and relevant results while ensuring speed and efficiency. As part of this work, we employ techniques to address unique difficulties posed by large and complex documents. This paper presents a custom Retrieval-Augmented Generation (RAG) framework designed to improve contextual retrieval in long and multi-document settings. In this paper, we employ several techniques like summarization, semantic …

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