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Proposal: Enhanced Interactive Knowledge Graph (IKG) for Real-Time Situational Awareness

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Objective

To design and develop a multi-agent, dynamic, and interactive knowledge graph (IKG) system that integrates real-time data fusion, ontology-based semantic layers, and advanced human-in-the-loop capabilities. This system will enhance situational awareness (SA) for Air Force operations by allowing autonomous agents to dynamically manage, analyze, and adapt knowledge graphs, ensuring timely and effective decision-making in rapidly evolving environments.

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Title: Integrating Arize Phoenix and Apache Iceberg for Local Telemetry Data Management and Querying

Authors: Don Branson

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Abstract

In modern data observability workflows, capturing and managing telemetry data is crucial for debugging and improving machine learning systems. This paper demonstrates the integration of Arize Phoenix, an open-source observability platform, with Apache Iceberg, a high-performance table format for data lakes, to create a scalable and efficient local telemetry data management and querying system. We present a step-by-step implementation for capturing telemetry data as Parquet files using Arize Phoenix on a local system and using Apache Iceberg to enable schema evolution, time travel, and efficient queries. This solution bridges the gap between data observability and data lake management for machine learning monitoring.

donbr

FAQ: Resolving Ollama Service "Permission Denied" Error

Issue

When starting the Ollama service, it fails with the following error message:

Error: could not create directory mkdir /usr/share/ollama: permission denied

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A Hypothetical Medium Post...

I created a cool prototype for airline data last year but misplaced the code, so I recently created this "synthetic" prototype stringing together a few excerpts from old ChatGPT messages and simple prompt engineering.

I haven't found the datasource yet, but going through the process has been such a gift. I knew these concepts were becoming essential again and this helped to both remember key concepts AND generate excitement around new opportunities.

Reminds me of Hypothetical Document Embeddings... appparently HyDE can help me retrieve stuff from long term memory too.

Feel free to have a laugh at my expense!

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donbr

Slide 1: Title & Introduction

Title:

Network Pharmacology: Harnessing STRING, STITCH, and Clustering for Cellular Biology

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Introduction:

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Investigating Potential Drug Targets for Non-small Cell Lung Cancer through STITCH Database Analysis

Purpose

The aim of this study is to identify potential drug targets and repurposing opportunities by analyzing interactions between key proteins involved in non-small cell lung cancer (NSCLC) pathways, focusing on the inhibition of aberrant signaling in cancer therapy.

Hypothesis Formulation

• Initial Hypothesis: Targeting key nodes in the Ras, PI3K-Akt, Cell Cycle, p53, and Retinoid signaling pathways may provide effective therapeutic strategies for NSCLC by inhibiting cancer cell proliferation and survival.

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Leveraging STRING and STITCH APIs for White Paper Insights: A Structured Approach

This document provides a structured approach to utilizing the STRING and STITCH APIs for retrieving protein-protein and chemical-protein interaction data, enriching the findings of your white paper on drug response assessment in lung cancer, particularly in the context of TP53 and RB1 pathways.

Understanding the APIs

• STRING (Search Tool for the Retrieval of Interacting Genes/Proteins):
  STRING is a database and web resource dedicated to protein-protein interactions, including both known and predicted interactions. It integrates data from multiple sources, such as experimental repositories, computational prediction methods, and public text collections.

• STITCH (Search Tool for Interactions of Chemicals):

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WikiPathway: Retinoblastoma gene in cancer

PMID	Proteins	Year	Title
30773851	24	2019	Retinoblastoma mutation predicts poor outcomes in advanced non small cell lung cancer.
36399634	28	2023	Retinoblastoma Expression and Targeting by CDK46 Inhibitors in Small Cell Lung Cancer.
38034873	38	2023	Ropivacaine inhibits the malignant behavior of lung cancer cells by regulating retinoblastoma-binding protein 4.
17804741	3	2007	Retinoblastoma deficiency increases chemosensitivity in lung cancer.
25162518	31	2014	Retinoblastoma binding protein 2 (RBP2) promotes HIF-1alpha-VEGF-induced angiogenesis of non-small cell lung cancer via the Akt pathway.
[2

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WikiPathway: TP53 network

PMID	Proteins	Year	Title
PMID:21331359	10	2011	TP53 mutations in nonsmall cell lung cancer.
PMID:36290859	12	2022	TP53 Mutation Mapping in Advanced Non-Small Cell Lung Cancer: A Real-World Retrospective Cohort Study.
PMID:32545367	40	2020	TP53 Status, Patient Sex, and the Immune Response as Determinants of Lung Cancer Patient Survival.
PMID:36429016	40	2022	A Novel TP53 Gene Mutation Sustains Non-Small Cell Lung Cancer through Mitophagy.
PMID:35577980	27	2022	TP53, CDKN2AP16, and NFE2L2NRF2 regulate the incidence of pure- and combined-small cell lung cancer in mice.
[PMID:37930190](https://pubmed.ncbi.nlm.nih.gov/37930190/