Results for “biomarker”

Expert en biotechnologies avancées (bioinformatics, genomics, CRISPR, drug discovery, DZ research)

Simulates meiotic recombination to produce offspring genomes from parent pairs, modeling Mendelian segregation, de novo mutation, sex determination, trait inference, and clinical evaluation against a disease registry.

Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR screening design, single-cell RNA-seq analysis, ADMET prediction, GWAS interpretation, rare disease diagnosis, or lab protocol optimization. Leverages LLM reasoning with code execution and integrated biomedical databases.

Use when masking columns or coordinate ranges in multiple-sequence alignments before downstream HMMER or alignment-processing steps.

Searches UK Biobank's 12,000+ data fields and publications by natural language query, returning ranked field IDs and descriptions for research questions.

Use when working from the local Biomni repository to run agent-style biomedical tasks or inspect Biomni's biomedical tool modules and examples.

Use when searching DNA or RNA queries against nucleotide sequence databases with HMMER's nucleotide homology search engine.

Processes and analyzes multiple physiological signals (ECG, respiration, EDA, EMG, PPG, EOG) together using NeuroKit2, including cross-signal features like RSA and event-related analysis.

Provides a framework for proactive health monitoring and optimization, treating the human body as an asset to be maintained through telemetry, diagnostics, and interventions.

Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR screening design, single-cell RNA-seq analysis, ADMET prediction, GWAS interpretation, rare disease diagnosis, or lab protocol optimization. Leverages LLM reasoning with code execution and integrated biomedical databases.

Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR screening design, single-cell RNA-seq analysis, ADMET prediction, GWAS interpretation, rare disease diagnosis, or lab protocol optimization. Leverages LLM reasoning with code execution and integrated biomedical databases.

Explains biomedical concepts, vital signs, biological signals, medical device classifications, and healthcare data standards for technical teams.

Apply a text watermark to a photo using layer-based image composition for brand protection and copyright.

Provides a standardized interface for ingesting raw data across domains such as genomics, network analysis, document review, and spatial mapping, converting it into semantic vectors for agent use.

Framework autônomo de agente de IA biomédica para executar tarefas de pesquisa complexas em genômica, descoberta de fármacos, biologia molecular e análise clínica. Use esta skill ao conduzir pesquisa biomédica em múltiplas etapas, incluindo design de triagem CRISPR, análise de RNA-seq de células únicas, previsão ADMET, interpretação GWAS, diagnóstico de doenças raras ou otimização de protocolos de laboratório. Aproveita o raciocínio de LLM com execução de código e bancos de dados biomédicos integrados.

Use when searching protein sequences against profile hidden Markov models (HMMs) such as Pfam or other HMM databases.

Generates Mermaid diagrams from code graphs, including call graphs, class hierarchies, module dependency maps, and data flow visualizations.

Runs full Trailmark structural analysis by building a graph and computing pre-analysis passes for hotspots, taint, blast radius, privilege boundaries, and attack surface.

Runs a Trailmark summary analysis on a codebase to auto-detect languages, count entry points, and list dependencies.

Score a clinical ASR manifest against a chosen NIM, produce a five-section KER leaderboard, and route the user via a post-eval decision tree.

Assesses genome, transcriptome, and protein completeness with BUSCO v6, automatically resolving the correct lineage from an organism description and generating reproducible reports.

Analyzes biochemical processes, including enzyme kinetics, metabolic pathways, and biomolecule characterization, with practical techniques and examples.

Graph-based drug discovery toolkit. Molecular property prediction (ADMET), protein modeling, knowledge graph reasoning, molecular generation, retrosynthesis, GNNs (GIN, GAT, SchNet), 40+ datasets, for PyTorch-based ML on molecules, proteins, and biomedical graphs.

Query 40+ bioinformatics services (UniProt, KEGG, ChEMBL, Reactome) with a unified Python interface for cross-database analysis, identifier mapping, and sequence analysis.

Publish and consume blockchain-verified trading signals on Base. Register as a signal provider, publish trades with transaction hash proof, and subscribe to top performers via REST API.

Annotates single-cell RNA-seq data by scoring marker genes, transferring labels with CellTypist, or reasoning over cluster markers with an LLM.

This skill recommends performing an imaging study to assess tumor size, appearance, and parasellar extent once biochemical diagnosis of acromegaly is confirmed. Trigger when IGF-1 is elevated and GH fails to suppress to <0.4 µg/L during an oral glucose tolerance test.

Use when running HMMER master or worker daemon services that front `phmmer`, `hmmsearch`, and `hmmscan` against cached databases.

Applies medicinal-chemistry filters with the medchem library — drug-likeness rules (Lipinski, Veber), PAINS filters, structural alerts, and molecular complexity metrics for compound prioritization and library cleanup. Use when filtering or triaging a compound library, flagging PAINS or reactive groups, or assessing drug-likeness of candidate molecules. Part of the AlterLab Academic Skills suite.

Manage, annotate, and trace biological data with LaminDB, an open-source FAIR data framework that makes datasets queryable, versioned, and reproducible. Use when registering or querying biological datasets (scRNA-seq, spatial, flow cytometry), validating and curating data against ontologies (genes, cell types, diseases, tissues), tracking data lineage and computational workflows, building data lakehouses, or wiring integrations with Nextflow, Snakemake, W&B, or MLflow. Part of the AlterLab Academic Skills suite.

Monitors a watchlist of Polymarket markets and surfaces meaningful shifts in price, volume, comments, or resolution proximity, with position context and optional Bankr integration.

Track investment theses across their lifecycle — from screening idea to closed position with postmortem. Register theses from screener outputs, manage state transitions, attach position sizing, review due dates, and generate postmortem reports with P&L and MAE/MFE analysis.

Annotates single-cell RNA-seq data by scoring marker genes, transferring labels with CellTypist, or reasoning over marker lists with an LLM.

Reranking retrieved documents with cross-encoders and LLM rerankers. Cohere Rerank v3, Voyage rerank-2, BGE reranker, ColBERT late interaction, Jina reranker. Cost and latency tradeoffs, top-K in / top-N out strategy. USE WHEN: user mentions "rerank", "reranker", "cross-encoder", "Cohere Rerank", "Voyage rerank", "BGE reranker", "ColBERT", "Jina reranker", "bi-encoder" DO NOT USE FOR: initial retrieval - use `advanced-retrieval` or `hybrid-search`; query rewriting - use `query-transformations`; agent decisions - use `agentic-rag`

Query the Cancer Dependency Map (DepMap) for cancer cell line gene dependency scores, drug sensitivity data, and gene effect profiles to identify cancer-specific vulnerabilities, synthetic lethal interactions, and validate oncology drug targets.