L1 ⚛ L1-006 ⊙ Testnet

Light Sheet Fluorescence Microscopy (LSFM / SPIM)

Microscopy · Selective plane illumination 3D imaging

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⬇ L1-006.md

# ⚛ L1 Principle — Light Sheet Fluorescence Microscopy (LSFM / SPIM) **ID:** `L1-006` · **Status:** ⊙ Testnet (genesis catalog) > **🌐 Domain:** Microscopy — *Selective plane illumination 3D imaging* > **🎯 Problem class:** linear inverse · **🧮 Solution space:** 3D intensity > **📡 Carrier:** photon · **🌫 Noise:** poisson gaussian > **⚖ Difficulty (δ):** 3 · **⛓ Block:** 41554154 --- ## 🧠 1. Introduction **Light Sheet Fluorescence Microscopy (LSFM / SPIM)** is a **linear inverse problem** whose unknown lives in **3D intensity** space, within the **Selective plane illumination 3D imaging** sub-domain of **Microscopy**. Measurements consist of photons collected by an optical detector via a **light sheet illumination** sensing mechanism. The forward operator applies, in order: L · illumination · sheet operator; K · psf · detection operator; S · scan · axial operator; detector accumulates flux over the exposure window. Observations are corrupted by Poisson shot noise plus Gaussian read-out noise. Existence of the recovered 3D intensity is guaranteed within the declared Omega bounds. Uniqueness holds on the measurement-supported subspace; out-of-support modes are controlled by the declared priors. Stability is moderately conditioned (kappa_eff ~= 10); sheet_thickness_nm dominates the stability cliff; sheet_tilt and the remaining mismatch parameters contribute higher-order bias terms. Poisson signal noise + gaussian read noise sets the irreducible data-fidelity floor, while mild Tikhonov or analytic inversion is sufficient at the nominal Omega point. ## ⚙ 2. Forward Model Physical chain: **x** → L · illumination · sheet → K · psf · detection → S · scan · axial → Temporal integration → **y** (detector). ``` y = ∫_t dt `S.scan.axial` `K.psf.detection` `L.illumination.sheet` x + n, Poisson + 𝒩(0, σ²) ``` **Measurement DAG:** | Primitive | What it does | |---|---| | `L.illumination.sheet` | L · illumination · sheet operator | | `K.psf.detection` | K · psf · detection operator | | `S.scan.axial` | S · scan · axial operator | | `int.temporal` | Detector accumulates flux over the exposure window | ## 🔬 3. Physics Fingerprint | Property | Value | |---|---| | Domain | Microscopy | | Sub domain | Selective plane illumination 3D imaging | | Carrier | photon | | Problem class | linear_inverse | | Solution space | 3D_intensity | | Noise model | poisson_gaussian | | Integration axis | axial | | Difficulty delta | 3 | | L dag | 3.2 | ## 📡 4. Measurement Model Existence of the recovered 3D intensity is guaranteed within the declared Omega bounds. Uniqueness holds on the measurement-supported subspace; out-of-support modes are controlled by the declared priors. Stability is moderately conditioned (kappa_eff ~= 10); sheet_thickness_nm dominates the stability cliff; sheet_tilt and the remaining mismatch parameters contribute higher-order bias terms. Poisson signal noise + gaussian read noise sets the irreducible data-fidelity floor, while mild Tikhonov or analytic inversion is sufficient at the nominal Omega point. | Metric | Value | |---|---| | Metric | PSNR_dB | | Secondary | SSIM | ## 📏 5. Operating Range (Ω) **Center problem class:** `lsfm` · **Forward operator:** `lsfm_forward` **Center point:** | Parameter | Unit | Value | |---|---|---| | H | px | 2048 | | W | px | 2048 | | Z | — | 200 | | Na det | — | 1 | | Sheet nm | nm | 2000 | | Z step nm | nm | 500 | | Sheet tilt | — | 0 | | Peak photons | photons | 500 | | Sample induced aberration | — | 0 | **Allowed bounds:** | Parameter | Unit | Range | |---|---|---| | H | px | 512 – 4096 | | W | px | 512 – 4096 | | Z | — | 32 – 1024 | | Na det | — | 0.8 – 1.2 | | Sheet nm | nm | 500 – 5000 | | Z step nm | nm | 200 – 2000 | | Sheet tilt | — | 0.0 – 0.05 | | Peak photons | photons | 50 – 5000 | | Sample induced aberration | — | 0.0 – 0.3 | ## 🎯 6. Tolerance (ε) **Center tolerance:** 29.0 | Metric | Range | |---|---| | Psnr db | 12.0 – 42.0 | ## ⚖ 7. Hardness Function Hardness scales as **`epsilon_fn`** on **PSNR_dB**, with κ = `200` and δ = `3`. ## 💾 8. Reference Dataset - **primary** · weight 1.0 · IPFS _(not pinned yet)_ ## 9. On-chain Registration - **Chain hash:** `0x4552e070d72334485b84438a43401a9f2900af150b67411a605d469039af1ed8` - **Chain tx hash:** `0xf9bccafe6d9127f4a84d783a9d930d7f838b507744c534769e550555ddd1ef65` - **Chain block:** `41554154` --- ## File Mapping This bundle consists of: `L1-006.md`, `L1-006.json`. | File | Role | How to regenerate | |------|------|-------------------| | `L1-006.md` | Source of truth — edit this | Human or LLM | | `L1-006.json` | Structured metadata for the registry | LLM regenerates from the sections above | **Prompt for your LLM after editing this Markdown:** > Read the attached Markdown. Regenerate the sibling `.json` so every field matches. > Preserve the schema documented in the rows above. > Output each file in its own fenced code block tagged with the filename. > Output only the JSON object. _This Markdown was auto-synthesized from the catalog row for `L1-006`._ _Edit it, regenerate the JSON, and submit at [/submit](/submit) to claim the artifact._

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Read the attached Markdown (L1-006.md).
Regenerate L1-006.json so every field matches the Markdown.
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L2-006-001 Light Sheet Fluorescence Microscopy (LSFM / SPIM) Mismatch-Only Spec

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📋 JSON metadata

{
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  "chain_block": 41554154,
  "chain_hash": "0x4552e070d72334485b84438a43401a9f2900af150b67411a605d469039af1ed8",
  "chain_tx_hash": "0xf9bccafe6d9127f4a84d783a9d930d7f838b507744c534769e550555ddd1ef65",
  "domain": "Microscopy",
  "hardness_fn": {
    "delta": 3,
    "kappa": 200,
    "metric": "PSNR_dB",
    "type": "epsilon_fn"
  },
  "initiator_dataset": [
    {
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      "license_hash": null,
      "name": "primary",
      "weight": 1.0
    }
  ],
  "layer": "L1",
  "observable_profile": {
    "metric": "PSNR_dB",
    "regime": "Existence of the recovered 3D intensity is guaranteed within the declared Omega bounds. Uniqueness holds on the measurement-supported subspace; out-of-support modes are controlled by the declared priors. Stability is moderately conditioned (kappa_eff ~= 10); sheet_thickness_nm dominates the stability cliff; sheet_tilt and the remaining mismatch parameters contribute higher-order bias terms. Poisson signal noise + gaussian read noise sets the irreducible data-fidelity floor, while mild Tikhonov or analytic inversion is sufficient at the nominal Omega point.",
    "secondary": "SSIM"
  },
  "physics_fingerprint": {
    "L_DAG": 3.2,
    "carrier": "photon",
    "difficulty_delta": 3,
    "domain": "Microscopy",
    "integration_axis": "axial",
    "noise_model": "poisson_gaussian",
    "primitives": [
      "L.illumination.sheet",
      "K.psf.detection",
      "S.scan.axial",
      "int.temporal"
    ],
    "problem_class": "linear_inverse",
    "sensing_mechanism": "light_sheet_illumination",
    "solution_space": "3D_intensity",
    "sub_domain": "Selective plane illumination 3D imaging",
    "title": "Light Sheet Fluorescence Microscopy (LSFM / SPIM)"
  },
  "size_tiers": {
    "allowed_forward_operators": [
      "lsfm_forward"
    ],
    "allowed_omega_dimensions": [
      "H",
      "W",
      "Z",
      "sheet_nm",
      "z_step_nm",
      "NA_det",
      "peak_photons",
      "sheet_tilt",
      "sample_induced_aberration",
      "sheet_thickness_nm",
      "sheet_tilt",
      "sample_induced_aberration"
    ],
    "allowed_problem_classes": [
      "lsfm"
    ],
    "center_spec": {
      "epsilon_fn_center": "29.0",
      "forward_operator": "lsfm_forward",
      "input_format": "measurement_only",
      "omega": {
        "H": 2048,
        "NA_det": 1.0,
        "W": 2048,
        "Z": 200,
        "peak_photons": 500,
        "sample_induced_aberration": 0.0,
        "sheet_nm": 2000,
        "sheet_tilt": 0.0,
        "z_step_nm": 500
      },
      "problem_class": "lsfm"
    },
    "epsilon_bounds": {
      "psnr_db": [
        12.0,
        42.0
      ]
    },
    "omega_bounds": {
      "H": [
        512,
        4096
      ],
      "NA_det": [
        0.8,
        1.2
      ],
      "W": [
        512,
        4096
      ],
      "Z": [
        32,
        1024
      ],
      "peak_photons": [
        50,
        5000
      ],
      "sample_induced_aberration": [
        0.0,
        0.3
      ],
      "sheet_nm": [
        500,
        5000
      ],
      "sheet_tilt": [
        0.0,
        0.05
      ],
      "z_step_nm": [
        200,
        2000
      ]
    }
  },
  "staked_pwm": 0.0,
  "status": "testnet",
  "sub_domain": "Selective plane illumination 3D imaging",
  "title": "Light Sheet Fluorescence Microscopy (LSFM / SPIM)"
}

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