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Search Biomedical , found 14 results

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DNAnexus Cloud Genomics

dnanexus-integration

K-Dense-AI/claude-scientific-skills

Integrate with the DNAnexus cloud genomics platform to build apps/applets, manage FASTQ/BAM/VCF data, run workflows, and script automations via dxpy for biomedical pipelines.

Systematic Literature Review

literature-review

K-Dense-AI/claude-scientific-skills

Conduct rigorous, multi-database literature reviews with systematic workflows, verified citations in styles like APA or Nature, and AI-enhanced schematics for publication-ready markdown and PDF outputs in biomedical and technical domains.

TorchDrug GNN Toolkit

K-Dense-AI/claude-scientific-skills

TorchDrug is a PyTorch-native toolbox for building graph neural networks tailored to molecules, proteins, and biomedical knowledge graphs, covering property prediction, generation, retrosynthesis, and knowledge graph reasoning with curated datasets and models.

PyTorch Training Recipes

ml-training-recipes

Orchestra-Research/AI-Research-SKILLs

Collection of battle-tested PyTorch training recipes covering architecture selection, optimizers, LR scheduling, precision tips, and debugging to train or fine-tune LLMs, vision, diffusion, and biomedical models with high GPU throughput.

Comprehensive Systematic Literature Review

literature-review

K-Dense-AI/scientific-agent-skills

Conduct comprehensive systematic literature reviews across biomedical and scientific domains using multiple academic databases. Synthesize findings, verify citations, and generate professional markdown or PDF documents. Includes AI-generated scientific schematics for visual enhancement. Ideal for research synthesis, meta-analyses, and thesis writing.

Biomedical Literature Search Using PubMed API

pubmed-database

affaan-m/everything-claude-code

This guide provides a comprehensive workflow for searching and retrieving biomedical literature from PubMed and NCBI. It covers advanced query construction using MeSH terms and specific field tags, advanced filtering (date, publication type), and a repeatable programmatic workflow using NCBI E-utilities (esearch, efetch). Essential for researchers conducting systematic reviews and literature monitoring.

Deterministic Research Search Across Corpora

sickn33/antigravity-awesome-skills

A powerful tool for deterministic and reproducible retrieval of evidence from specialized academic and policy corpora. It supports searching arXiv (preprints), PubMed/PMC (biomedical literature), and US policy documents. Users can check corpus freshness, retrieve stable metadata, and fetch full-document Markdown for high-reliability research tasks.

Biomedical Literature Search Using PubMed API

pubmed-database

This guide provides a comprehensive workflow for searching and retrieving biomedical literature from PubMed and NCBI. It covers advanced query construction using MeSH terms and specific field tags, advanced filtering (date, publication type), and a repeatable programmatic workflow using NCBI E-utilities (esearch, efetch). Essential for researchers conducting systematic reviews and literature monitoring.

Conducting Systematic Literature Reviews

literature-review

Provides a comprehensive, step-by-step workflow for conducting rigorous literature reviews across academic, biomedical, and technical domains. It guides users through defining research questions (PICO), developing systematic search protocols, evidence logging, source screening, structured data extraction, and synthesizing findings to build high-quality, reproducible review reports.

Mining PubMed Literature with NCBI E-utilities

mining-pubmed-literature

maziyarpanahi/openmed

This skill programmatically searches and fetches biomedical literature from PubMed and PMC using NCBI E-utilities (ESearch, EFetch, ESummary). It allows users to gather large corpora of abstracts, full texts, and metadata related to specific conditions, drugs, or genes. Ideal for building evidence bases, performing biomedical Named Entity Recognition (NER), or summarizing scientific findings.

Search Clinical Trials.gov V2 API

searching-clinicaltrials

maziyarpanahi/openmed

This skill interfaces with the modern v2 REST API of ClinicalTrials.gov, allowing users to search for clinical studies matching specific conditions, interventions, and recruitment statuses. It is essential for building patient-to-trial matching features, generating a corpus of trial records for biomedical NER, or finding open studies for a given diagnosis or drug. It uses cursor pagination and requires no API key.

NCATS ARAX Knowledge Graph Query

K-Dense-AI/scientific-agent-skills

This skill queries the NCATS Translator ARAX API for biomedical knowledge-graph relationships. It supports one-hop and two-hop lookups with Biolink constraints, entity normalization, and provider federation. Users can inspect provenance and edge bindings. It is designed for public research queries only, requiring Python 3.10+ and HTTPS access. Do not use for clinical guidance or sensitive data.

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