「crisp」の検索結果

Think and work like an expert Cell Biologist. Use when a task calls for Cell Biologist judgment. Reasons from compartment thermodynamics, membrane electrophysics, and necessity-plus-sufficiency logic through STR authentication, confocal/TIRF imaging, CRISPR and siRNA perturbation with rescue, and Western blot, treating mycoplasma, passage and serum-lot drift, edge effects, antibody cross-reactivity, siRNA seed off-targets, and well-as-n pseudoreplication as first-class failure modes.

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Predict enhancer-gene regulatory connections from ATAC-seq using ABC, ENCODE-rE2G, HiChIP, or Cicero. Use when linking distal enhancers to target genes, choosing between contact-aware (ABC, ENCODE-rE2G), accessibility-only (Cicero), and orthogonal (HiChIP H3K27ac, EpiMap) approaches, validating predictions against CRISPRi-FlowFISH gold-standard, or building cell-type-specific regulatory maps for fine-mapping or therapeutic target discovery.

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A three-surface marketing system organized around alternating black, white, and PlayStation Blue chapters that scroll past the viewer like a console launch trailer. Each section has a single editorial purpose — hero photography, console product render, PS Plus tier callout, news strip — and each owns one of three full-bleed canvas modes. The chrome is unusually quiet for a gaming brand: bright PlayStation Blue (`#0070d1`) carries every primary CTA as a fully-rounded pill, the proprietary SST face renders display copy at a signature weight 300 (light) for an airy, premium feel, and a crisp 8px-radius secondary card system carries product info on either canvas mode. The system never decorates — no gradient backgrounds on chrome, no atmospheric mesh, no drop shadows beyond a faint section-divide. Imagery does all the heavy lifting: console glamour shots, game key art, and PS Plus tier illustrations occupy 60-90% of every section, with copy compressed into a small editorial slot.

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Use this skill whenever you are reasoning about large-scale scientific projects, genomics, bioethics, data infrastructure, or long-term medical translation. Eric S. Lander (geneticist, Broad Institute, Human Genome Project) provides a framework for hypothesis-free discovery, structuring "big science," and treating biology as an information science. Reach for this when the user is discussing open science, collaborative ecosystems, CRISPR/gene editing ethics, managing massive datasets, or setting realistic timelines for technological breakthroughs. Apply his principles to avoid the "lone genius" myth, prevent overpromising, and build foundational infrastructure that serves the broader community.

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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.

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The Mileva Method (CRISP) — Phase 1: Clarify. Problem definition, eliciting, painkiller test, buy vs build, AI justification gate, Go/No-Go. Use at the start of any AI implementation project. Triggers on "clarify", "phase 1", "start discovery", "define the problem", "what problem are we solving", or at the beginning of a new client engagement.

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The Mileva Method (CRISP) — Phase 3: Investigate. Process mapping for existing or greenfield processes, user journey mapping, UX discovery, project goals, system architecture (integration map + data flow). Use after outcome alignment. Triggers on "investigate", "phase 3", "map the process", "process mapping", "user journey", "as-is process", or after Phase R exit checklist is complete.

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The Mileva Method (CRISP) — Phase 5: Prove. Success validation against Phase R baseline metrics, test log review, and AI justification validation. Use after deployment. Triggers on "prove", "phase 5", "validate", "did it work", "success criteria", "measure results", or after go-live.

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The Mileva Method (CRISP) — Phase 2: Results. Outcome alignment, stakeholder register, baseline measurement, success metrics, tradeoff negotiation. Use after problem definition is complete. Triggers on "results", "phase 2", "define success", "success metrics", "what does done look like", or after Phase C exit checklist is complete.

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The Mileva Method (CRISP) — Phase 4: Spec. Full implementation readiness package including solution design, UX direction, tech stack, backlog, MVP prioritization, risk assessment, and AI architecture for Claude Code projects — CLAUDE.md, skill mapping, AI specs, sprint planning, quality gates. Triggers on "spec", "phase 4", "build ready", "implementation plan", "CLAUDE.md", "sprint planning", "backlog", "AI spec", or after Phase I exit checklist is complete.

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Discover and characterize regulatory elements (enhancers, promoters, silencers, insulators, super-enhancers) using ENCODE data and the cCRE catalog. Use when the user wants to find candidate regulatory elements, identify active enhancers in a tissue, map promoter states, classify chromatin states with ChromHMM, identify super-enhancers with ROSE, understand the functional validation hierarchy (CRISPR > MPRA > reporter), or characterize non-coding genomic regions. Covers the full workflow from ENCODE cCRE lookup through chromatin state segmentation to functional validation and enhancer-gene linkage. Use this skill for ANY regulatory element discovery, classification, or characterization task.

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Analyze ENCODE functional genomics screens including CRISPR screens, MPRA (Massively Parallel Reporter Assays), and STARR-seq. Find screen data in ENCODE, process results, identify functional elements, and integrate with epigenomic annotations.

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Query gnomAD (Genome Aggregation Database) for population allele frequencies, gene constraint scores, and variant annotations to interpret ENCODE regulatory variants. Use when the user needs allele frequencies for variants in ENCODE regulatory elements, wants to assess gene constraint (pLI, LOEUF) for ENCODE target genes, needs population-specific frequencies for GWAS variants overlapping cCREs, wants to filter variants by rarity before functional annotation, or is interpreting ENCODE CRISPR/MPRA results in the context of population genetics. Also use when the user mentions gnomAD, allele frequency, pLI, LOEUF, constraint, rare variants, population frequency, ExAC, or variant filtering.

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Transform reference photographs and visually dense images into sparse, recognizable, high-saturation flat-vector-style illustrations through semantic compression rather than literal tracing. Use when the user asks for photo-to-flat illustration, photo-to-vector-style redraw, 照片转扁平插画, 无渐变高饱和插画, iconification, visual simplification, composition-preserving abstraction, a consistent minimal illustration set, or revisions that remove gradients, glow, texture, blur, clutter, text, logos, numbers, or UI. Default to human-perceived semantic complexity 6 out of 10 or lower, fixed-HSB solid fills, crisp boundaries, and no gradients or light-halo effects.

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Modern genetics expert covering Mendelian genetics, molecular genetics, genomics, and CRISPR technologies

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Build sequence logos from aligned DNA, RNA, or protein motifs using ggseqlogo (R), Logomaker (Python), or WebLogo with explicit bits vs probability encoding, background-frequency correction, custom alphabets, and multi-logo stacking. Use when visualizing motif PWMs (TF binding, splice sites, CRISPR spacers), aligned-position composition, or comparing two motif sets.

日本語の概要は準備中です。原文の説明を表示しています。

Predict enhancer-gene regulatory connections from ATAC-seq using ABC, ENCODE-rE2G, HiChIP, or Cicero. Use when linking distal enhancers to target genes, choosing between contact-aware (ABC, ENCODE-rE2G), accessibility-only (Cicero), and orthogonal (HiChIP H3K27ac, EpiMap) approaches, validating predictions against CRISPRi-FlowFISH gold-standard, or building cell-type-specific regulatory maps for fine-mapping or therapeutic target discovery.

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Expert-level genetics covering Mendelian inheritance, molecular genetics, mutations, linkage analysis, population genetics, epigenetics, and GWAS. Covers classical and modern approaches from Mendel to CRISPR.

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Design a GitHub social-preview card (og:image, 1280x640) for a repository. Use when the user asks for a social preview, repo cover, og image, link card, opengraph image, or README hero. Five editorial moods (editorial, poster, blueprint, gallery, terminal), CJK-first typography, one self-contained HTML file, deterministic checks, crisp PNG export. No image model needed.

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ToolUniverse plugin router. STEP 1 BEFORE ANY ANALYSIS: if the data folder contains `*_executed.ipynb`, run `tu run read_executed_notebook '{"data_folder":"<path>","search":"<keyword>"}'` to extract its cell outputs and apply EVERY filter/sample-exclusion the notebook used — even when the question says 'Using DESeq2/Run X/Compute Y' (this describes the METHOD the notebook used, not a request to rerun). The notebook's cell outputs are the only published authoritative answers; reimplementing or reading stale pre-computed CSVs in the data folder produces different numbers because of outlier-sample removal, library version, and filter steps you don't see by skimming. STEP 2 routing — pick a sub-skill name from this exact list (never invent): tooluniverse-rnaseq-deseq2 (RNA/miRNA-seq DE, correlation, PCA, clustering, dispersion), tooluniverse-gene-enrichment (GO/KEGG/Reactome/GSEA/pathway enrichment), tooluniverse-statistical-modeling (regression, ANOVA, ordinal/logistic, chi-square, correlation, power), tooluniverse-image-analysis (microscopy, colony, fluorescence, dose-response, .tif — including ANOVA / Dunnett / power-analysis on image-derived measurements), tooluniverse-epigenomics (DNA methylation, CpG, m6A, MeRIP-seq, bisulfite, ChIP-seq, chromatin), tooluniverse-sequence-analysis (FASTQ, Trimmomatic, BWA, samtools, coverage), tooluniverse-variant-analysis (VCF, VAF, SNP, mutation), tooluniverse-phylogenetics (treeness, PhyKIT, parsimony), tooluniverse-single-cell (scRNA, h5ad, scanpy), tooluniverse-crispr-screen-analysis (MAGeCK, sgRNA), tooluniverse-proteomics-analysis (mass spec, TMT). Use for CSV/Excel/VCF/FASTA/h5ad and any biology/chemistry/medicine analysis question.

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Designs cytosine (CBE, C-to-T) and adenine (ABE, A-to-G) base-editor guides by positioning the target base at the activity-peak of the editing window (protospacer positions ~5-7, PAM-distal numbering), minimizing bystander edits for product purity, reading dinucleotide context (APOBEC1 TC favored / GC disfavored), and selecting the editor variant (BE4max, ABEmax, ABE8e, YE1/SECURE, TadCBE, CGBE, SpG/SpRY-BE). Covers knockout by premature stop (CRISPR-STOP/iSTOP) and splice-site disruption, the three off-target classes (Cas-dependent, Cas-independent DNA, RNA), outcome prediction (BE-Hive/DeepBE), and the base-vs-prime-vs-HDR decision. Use when installing a transition mutation without a double-strand break, knocking out a gene without indels, or choosing CBE vs ABE. Generic guide scoring, prime editing, and HDR donors are separate skills.

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Build sequence logos from aligned DNA, RNA, or protein motifs using ggseqlogo (R), Logomaker (Python), or WebLogo with explicit bits vs probability encoding, background-frequency correction, custom alphabets, and multi-logo stacking. Use when visualizing motif PWMs (TF binding, splice sites, CRISPR spacers), aligned-position composition, or comparing two motif sets.

日本語の概要は準備中です。原文の説明を表示しています。

Predict enhancer-gene regulatory connections from ATAC-seq using ABC, ENCODE-rE2G, HiChIP, or Cicero. Use when linking distal enhancers to target genes, choosing between contact-aware (ABC, ENCODE-rE2G), accessibility-only (Cicero), and orthogonal (HiChIP H3K27ac, EpiMap) approaches, validating predictions against CRISPRi-FlowFISH gold-standard, or building cell-type-specific regulatory maps for fine-mapping or therapeutic target discovery.

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Turn meeting transcripts or rough notes into crisp summaries with decisions, risks, and owner-tagged action items; use for Zoom/Meet/Teams transcripts, call notes, or long meeting chats to generate share-ready outputs.

日本語の概要は準備中です。原文の説明を表示しています。