I assume you mean the Zebrafish (Danio rerio) single-cell / spatial gene expression atlases commonly called "Zebrafish (Zeb) atlas" or resources like the ZEBRA/Zebrafish Expression Browser; here I treat "ZEB Atlas" as the body of atlases mapping zebrafish gene expression, cell types, and spatial organization across development and tissues. If you meant a different "ZEB Atlas," tell me which and I’ll adapt.
"Which is why you're not carrying it on your deck." She tapped the low-boy trailer. "This is a containment sled built by my team. The fragment is currently held in a magnetic-kinetic suspension field. The sled weighs nothing. But if the field fails—if the load becomes 'full,' as you'd say, meaning the suspension drops and the fragment's true weight bears down—the sled will sink through this quarry floor like a knife through butter. Then it will keep sinking until it reaches the mantle." zeb atlas full
| Modality | Description | Primary Source(s) | Typical Output | |----------|--------------|-------------------|----------------| | Bulk RNA‑seq | Whole‑tissue transcriptomes from mouse, human, zebrafish, and other vertebrates. | ENCODE, GTEx, SRA, ZFIN | TPM/FPKM matrices | | Single‑cell RNA‑seq (scRNA‑seq) | 10x Genomics, Smart‑seq2, SPLiT‑seq; > 30 M cells across developmental stages. | Human Cell Atlas, Zebrafish Single‑Cell Atlas (ZSC‑A) | Gene‑by‑cell count matrices, UMAP embeddings | | Spatial Transcriptomics | 10x Visium, Slide‑seqV2, MERFISH, seqFISH+. | Human Tumor Atlas Network (HTAN), ZFIN Spatial Atlas | Spatially resolved expression maps | | Chromatin Accessibility (ATAC‑seq) | Bulk and single‑cell ATAC‑seq to infer regulatory elements bound by ZEB proteins. | ENCODE, Roadmap Epigenomics, Zebrafish ATAC‑Atlas | Peaks, TF‑motif enrichment | | ChIP‑seq / CUT&RUN | Direct binding of ZEB1, ZEB2, and co‑factors (e.g., SMADs, p53). | Cistrome DB, GEO, ZEB‑ChIP Consortium | Peaks, binding intensity, motif logos | | DNA Methylation (WGBS / RRBS) | Epigenetic silencing at ZEB target promoters and enhancers. | BLUEPRINT, ZEB Methylation Atlas | CpG methylation percentages | | Proteomics / Phosphoproteomics | Quantitative MS of ZEB‑interacting complexes and post‑translational modifications. | PRIDE, CPTAC, Zebrafish Proteome Project | Protein abundance, PTM sites | | Phenotypic Imaging | 3‑D confocal, lightsheet, and micro‑CT images of whole embryos and adult organs. | ZFIN Image Repository, EMBL‑EBI BioImage Archive | Volumetric stacks, annotated atlases | | Lineage‑Tracing & CRISPR‑Perturbation | scRNA‑seq + barcode lineage tracking; CRISPRi/a screens targeting ZEB loci. | LARRY, Perturb‑seq, CRISPR‑Atlas | Lineage trees, differential expression after perturbation | Study: ZEB Atlas — Comprehensive Overview and Research