Public

Correlative Light-Electron Microscopy (CLEM) — Public Tier

(3 scenes)

Full-access development tier with all data visible.

What you get

Measurements (y), ideal forward operator (H), spec ranges, ground truth (x_true), and true mismatch spec.

How to use

Load HDF5 → compare reconstruction vs x_true → check consistency → iterate.

What to submit

Reconstructed signals (x_hat) and corrected spec as HDF5.

Parameter Specifications

✓

True spec visible — use these exact values for Scenario III oracle reconstruction.

Parameter Spec Range True Value Unit
registration_error_(lm_to_em) -100.0 – 200.0 50.0 nm
sample_deformation_(fixation) -1.0 – 2.0 0.5 shrinkage
fluorescence_preservation 72.0 – 114.0 93.0 -

InverseNet Baseline Scores

Method: CPU_baseline — Mismatch parameter: nominal

Scenario I (Ideal)

7.72 dB

SSIM 0.3738

Scenario II (Mismatch)

7.66 dB

SSIM 0.2292

Scenario III (Oracle)

16.33 dB

SSIM 0.4587

Per-scene breakdown (4 scenes)
Scene PSNR I SSIM I PSNR II SSIM II PSNR III SSIM III
scene_00 7.57 0.3615 7.52 0.2249 16.28 0.4660
scene_01 7.70 0.3833 7.81 0.2328 16.28 0.4522
scene_02 7.97 0.3846 7.55 0.2285 16.43 0.4500
scene_03 7.63 0.3655 7.75 0.2308 16.33 0.4667

Public Tier Leaderboard

# Method Score PSNR SSIM Consistency Trust Source
1 DiffusionCLEM + gradient 0.834 36.37 0.975 0.9 ✓ Certified Chen et al., Nat. Methods 2024
2 TransMorph + gradient 0.821 34.67 0.966 0.94 ✓ Certified Chen et al., Med. Image Anal. 2022
3 PINN-CLEM + gradient 0.818 34.8 0.966 0.92 ✓ Certified Löffler et al., Nat. Methods 2023
4 SwinCLEM + gradient 0.817 35.31 0.97 0.88 ✓ Certified Huang et al., IEEE TMI 2023
5 CLEM-Net + gradient 0.779 32.38 0.947 0.88 ✓ Certified Spiers et al., Nat. Methods 2021
6 VoxelMorph + gradient 0.774 31.38 0.936 0.93 ✓ Certified Balakrishnan et al., IEEE TPAMI 2019
7 CNN-Reg + gradient 0.712 28.31 0.887 0.87 ✓ Certified de Vos et al., NeuroImage 2019
8 Landmark-Reg + gradient 0.604 23.05 0.733 0.9 ✓ Certified Arganda-Carreras et al., Bioinformatics 2006
9 Cross-Correlation + gradient 0.593 22.48 0.71 0.92 ✓ Certified Thévenaz et al., IEEE TIP 1998

Visible Data Fields

y H_ideal spec_ranges x_true true_spec

Dataset

Format: HDF5
Scenes: 3

Scoring Formula

0.4 × PSNR_norm + 0.4 × SSIM + 0.2 × (1 − ‖y − Ĥx̂‖/‖y‖)

PSNR: 40% SSIM: 40% Consistency: 20%
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