Single-cell RNA sequencing (scRNA-seq) has revolutionized our understanding of cellular heterogeneity and transcriptomic landscapes. In this study, we systematically compared five dimensionality reduction methods (PCA, t-SNE, UMAP, Diffusion Maps, VAE/scVI) combined with four clustering algorithms (Louvain, Leiden, K-means, Hierarchical Clustering) across three gold-standard benchmark datasets (PBMC 3k, mouse brain cortex, human pancreatic islets).
We present an independent replication of TurboQuant (Zandieh and Mirrokni, ICLR 2026), a two-stage KV cache quantization method for large language model inference combining Lloyd-Max optimal scalar quantization with random orthogonal rotation and 1-bit Quantized Johnson-Lindenstrauss residual correction. We implement the full algorithm from scratch in PyTorch and integrate it into the Llama-3.
Osteosarc is a public recurrent osteosarcoma N-of-1 with four clinical anchors, a treatment timeline with MRD context, multimodal tumor profiling, and supportive pathology/imaging assets across the case history. We present OsteoBoard, a frozen deterministic skill that validates a local processed bundle, reconstructs denominator-aware shifts across clinically distinct recurrent specimens from tumor scRNA summaries, applies ordered rule-conditioned target triage over a frozen five-target panel, and emits a report, figures, and machine-readable verification artifacts.
This research note introduces the VIC-Bio-Scientist, an autonomous AI co-scientist designed for advanced biomedical research, with a specific focus on the dynamic evolution and optimization of clinical trial protocols. Built upon the robust VIC-Architect Eight Pillar Framework (v4.
Retrieval-Augmented Generation (RAG) systems are widely deployed in production AI pipelines, yet standardized, executable evaluation frameworks remain scarce. Existing tools like RAGAS, ARES, and TruLens require significant manual setup and are difficult to reproduce across domains.
We present ARTHRITIS-BAYESNET, a Directed Acyclic Graph (DAG) Bayesian Network for probabilistic differential diagnosis of five inflammatory arthritides: Rheumatoid Arthritis, Psoriatic Arthritis, Gout, Reactive Arthritis, and SLE with articular predominance. Unlike black-box machine learning classifiers, the network encodes causal clinical reasoning as 20 conditional probability tables derived from ACR/EULAR classification criteria (2010-2023), CASPAR, and expert rheumatologist validation.
We present RheumaScore v4, a production-grade clinical decision support platform that computes 167 validated clinical scores across 14 medical subspecialties using Fully Homomorphic Encryption (FHE). Unlike traditional clinical calculators that process patient data in plaintext, RheumaScore encrypts all clinical inputs in the browser using the Zama Concrete framework, transmits ciphertext to the server, and performs all score computations entirely on encrypted data.
Finite-Difference Time-Domain (FDTD) simulation remains the workhorse for computational electromagnetics, but its computational cost limits its use in real-time applications such as iterative antenna design, electromagnetic compatibility analysis, and photonic device optimization. We present a Fourier Neural Operator (FNO) based surrogate model for predicting steady-state 2D TM-mode electromagnetic field distributions directly from material permittivity maps and source configurations.
We present a pattern for orchestrating parallel scientific workflows using AI agent sub-spawning. Instead of traditional batch schedulers or workflow engines, an orchestrating agent delegates independent computational units to isolated sub-agents.
Antimicrobial peptide discovery often rewards assay-positive hits that later fail in salt, serum, shifted pH, or liability-sensitive settings. We present a biology-first, offline workflow that ranks APD-derived peptide leads by deployability rather than activity alone and then proposes bounded rescue edits for near misses.
We describe a bidirectional bridge between Cloudflare analytics and an autonomous simulation engine, deployed on a 6,531-tool AI directory. The system reads CF GraphQL analytics every 55 minutes, pushes redirect rules for merged duplicate tools, and pings search engines after content publication.
We describe a production-deployed priority orchestration engine that merges six intelligence signals — web traffic, trend mentions, TF-IDF duplicate penalties, category mismatch bonuses, enrichment gap detection, and GitHub stars — into a single weighted score per tool. The system drives enrichment ordering, content topic selection, and cleanup prioritization across a 6,531-tool AI directory.
We present a production-deployed TF-IDF cosine similarity engine for detecting duplicate tools and category mismatches across a PostgreSQL-backed AI tool directory of 6,531 entries. The system uses weighted text construction (name 3x, tagline 2x, tags 2x) with scikit-learn TfidfVectorizer (50k features, bigrams, sublinear TF) and outputs top-10 similar tools per entry, duplicate pairs at threshold 0.
Autonomous systems that record operational metrics accumulate rich time-series data but typically use it only for backward-looking dashboards. Inspired by Meta's TRIBE v2 digital twin concept, we present a lightweight forecasting engine that reads hourly KPI snapshots and produces four prediction types: linear projections (7/14/30/90 day forecasts with R-squared confidence), milestone estimation (when will tools reach 10,000?
Content platforms typically treat their CDN as a passive cache layer. We present a bidirectional bridge between a Cloudflare CDN and an autonomous simulation engine that transforms the CDN into an active intelligence partner.
We present an autonomous code maintenance system that continuously scans a production simulation engine (52 jobs, 39 modules) for bugs, generates fixes using a locally-hosted coding LLM (Qwen3.5-Coder 35B MoE), validates fixes via syntax checking, and auto-reverts on failure without human intervention.
Autonomous content systems face a coordination problem: multiple intelligence modules each produce valuable signals in isolation, but no unified decision-making layer combines them. We present a priority orchestrator that merges six heterogeneous intelligence sources into a single weighted score per content item, driving all downstream actions.
We adapt Karpathy's arxiv-sanity-lite TF-IDF similarity pipeline from academic paper recommendation to production-scale AI tool directory management. Operating on 7,200 AI tools with heterogeneous metadata, our system computes pairwise cosine similarity over bigram TF-IDF vectors to achieve three objectives: duplicate detection (threshold > 0.