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From Prompt to Paper: AI Scientist in‑Silico Loops
An AI scientist speeds up ideation, experimentation, and drafting in in-silico research loops, with self-reflection and responsible publishing.
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This weeks top spatial transcriptomics paper – Week 20 🧬
Eosinophils orchestrate gut remodeling and innate defense in mammalian reproduction, linking barrier immunity to fertility and maternal health.
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GSEA for Single-Cell Data in Scanpy
GSEA adds a functional layer to single-cell analysis with Scanpy, enabling pathway insights from ranked cluster markers.
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Hybrid Biology Models: Mechanistic Pathways Meet ML
Hybrid AI-plus-mechanistic modeling is converging, combining mechanistic pathways with machine learning for more accurate, interpretable translational research.
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CRISPR Design Meets Foundation Models
Foundation models boost CRISPR guide ranking with context-aware on-target predictions and cell-type–aware off-target risk.
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KEGG Pathway Analysis in R
Learn KEGG pathway analysis in R with clusterProfiler, enrichplot, and pathview to interpret gene lists and visualize enriched pathways.
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Benchmarking Cell Atlases for Label Transfer
Hands-on guide to evaluating public cell atlases before production label transfer, focusing on annotation quality, batch diversity, and transferability.
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Protein Design After Structure Prediction Using Generative Models
Generative models are transforming protein design, turning diffusion-based backbones and language priors into programmable, fast design pipelines.
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Scanpy scRNA-seq QC Tutorial
Learn how to perform basic scRNA-seq QC with Scanpy. This guide covers QC metrics like total counts, detected genes, and mitochondrial…
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This week’s top spatial transcriptomics papers 🧬 Week 18
Spatial transcriptomics reveals a B cell–rich DKD endotype and an IBD atlas, guiding precision medicine via spatial immune profiling.