SCI Analysis Observatory

Evidence scope

Scope, workflow status, and summary measures

Fixed Panel Recovery IndexSurrogate Agreement

Recovery indexPlatt-calibrate the fixed panel and build the recovery indexComplete

GAM surrogateFit GAM recovery-index surrogateComplete

Recovery-index rows: 396 rows
Recovery-index animals: 115 animals
Final surrogate knots: 7 knots
Cross-validated surrogate RMSE: 5.151 index points
Out-of-fold surrogate RMSE: 5.260 index points
Out-of-fold surrogate R²: 0.957
Out-of-fold concordance correlation: 0.978
GAM input features: 3 features

Linked filters

Selections combine with AND across dimensions.

FrameworkExperiment

No shared filters active.

Aggregate estimate plot

Recovery-index validation

Fixed Panel Recovery Index

Measure

catboost

0.869

lgbm

0.861

xgb

0.862

ensemble

0.865

Uncertainty: Point estimates are shown because this table does not supply matching lower and upper interval columns.

View plotted values in tabular form

Recovery-index validation: tabulated plot data
Estimate	Marker	Early Auc
catboost	⬟	0.869
lgbm	✦	0.861
xgb	◆	0.862
ensemble	◆	0.865

Early Auc from Recovery-index validation metrics. Shared filters apply to both this plot and its source table.

Aggregate estimate plot

Additive surrogate feature functions

Surrogate Agreement

35.15762186904081 · fp_intensity_density

86.163

48.153614787710914 · fp_intensity_density

80.598

61.14960770638102 · fp_intensity_density

76.908

74.14560062505112 · fp_intensity_density

52.835

87.14159354372123 · fp_intensity_density

41.988

103.38658469205885 · fp_intensity_density

38.227

116.38257761072896 · fp_intensity_density

36.221

129.37857052939904 · fp_intensity_density

34.465

142.37456344806915 · fp_intensity_density

32.941

155.37055636673927 · fp_intensity_density

31.631

168.36654928540938 · fp_intensity_density

30.517

181.36254220407946 · fp_intensity_density

29.583

197.6075333524171 · fp_intensity_density

28.645

210.6035262710872 · fp_intensity_density

28.062

223.5995191897573 · fp_intensity_density

27.615

236.5955121084274 · fp_intensity_density

27.292

249.5915050270975 · fp_intensity_density

27.084

262.5874979457676 · fp_intensity_density

26.983

275.58349086443775 · fp_intensity_density

26.980

288.5794837831078 · fp_intensity_density

27.068

301.5754767017779 · fp_intensity_density

27.242

317.8204678501155 · fp_intensity_density

27.570

330.81646076878565 · fp_intensity_density

27.914

343.8124536874558 · fp_intensity_density

28.324

Uncertainty: Horizontal intervals use Recovery Index Ci Lower and Recovery Index Ci Upper from the published aggregate table.

View plotted values in tabular form

Additive surrogate feature functions: tabulated plot data
Estimate	Marker	Recovery Index At Other Feature Medians	Lower interval	Upper interval
35.15762186904081 · fp_intensity_density	✦	86.163	83.968	88.100
48.153614787710914 · fp_intensity_density	▲	80.598	78.495	82.541
61.14960770638102 · fp_intensity_density	⬟	76.908	74.763	78.923
74.14560062505112 · fp_intensity_density	⬟	52.835	49.601	56.044
87.14159354372123 · fp_intensity_density	◆	41.988	39.074	44.958
103.38658469205885 · fp_intensity_density	■	38.227	35.392	41.145
116.38257761072896 · fp_intensity_density	⬟	36.221	33.432	39.107
129.37857052939904 · fp_intensity_density	◆	34.465	31.650	37.394
142.37456344806915 · fp_intensity_density	✦	32.941	30.065	35.951
155.37055636673927 · fp_intensity_density	●	31.631	28.685	34.732
168.36654928540938 · fp_intensity_density	■	30.517	27.505	33.706
181.36254220407946 · fp_intensity_density	▲	29.583	26.514	32.849
197.6075333524171 · fp_intensity_density	▲	28.645	25.519	31.990
210.6035262710872 · fp_intensity_density	▲	28.062	24.900	31.458
223.5995191897573 · fp_intensity_density	⬟	27.615	24.421	31.054
236.5955121084274 · fp_intensity_density	▲	27.292	24.068	30.773
249.5915050270975 · fp_intensity_density	▲	27.084	23.826	30.609
262.5874979457676 · fp_intensity_density	▲	26.983	23.682	30.559
275.58349086443775 · fp_intensity_density	■	26.980	23.624	30.621
288.5794837831078 · fp_intensity_density	▲	27.068	23.641	30.793
301.5754767017779 · fp_intensity_density	▲	27.242	23.721	31.073
317.8204678501155 · fp_intensity_density	■	27.570	23.897	31.574
330.81646076878565 · fp_intensity_density	◆	27.914	24.088	32.090
343.8124536874558 · fp_intensity_density	▲	28.324	24.316	32.706

Recovery Index At Other Feature Medians from Additive feature functions. Shared filters apply to both this plot and its source table.

Aggregate estimate plot

Missingness effects separated from feature values

Surrogate Agreement

fp_intensity_loading_fraction

-1.168

hp_loading_rate

-0.237

Uncertainty: Horizontal intervals use Missing Logit Offset Ci Lower and Missing Logit Offset Ci Upper from the published aggregate table.

View plotted values in tabular form

Missingness effects separated from feature values: tabulated plot data
Estimate	Marker	Missing Logit Offset	Lower interval	Upper interval
fp_intensity_loading_fraction	▲	-1.168	-1.568	-0.769
hp_loading_rate	▲	-0.237	-0.632	0.157

Missing Logit Offset from GAM missingness effects. Shared filters apply to both this plot and its source table.

Fixed Panel Recovery Index

Fixed-panel calibration summary

Summary method: approved_rows

Indexed rows: 9
Eligible rows: 9

Showing 1–9 of 9 matching rows

Filters combine with AND. Empty and unreported values sort last.

Fixed-panel calibration summary. fixed_panel_recovery_index.

catboost	isotonic	396	115	0.880	0.831	0.856	0.634
catboost	logistic	396	115	0.884	0.835	0.860	0.652
catboost	—	396	115	0.880	0.833	0.856	0.646
lgbm	isotonic	396	115	0.863	0.832	0.847	0.646
lgbm	logistic	396	115	0.878	0.839	0.859	0.639
lgbm	—	396	115	0.874	0.837	0.856	0.649
xgb	isotonic	396	115	0.868	0.834	0.851	0.604
xgb	logistic	396	115	0.883	0.839	0.861	0.654
xgb	—	396	115	0.878	0.840	0.859	0.646

Rows per pagePage 1 of 1

Fixed Panel Recovery Index

Recovery-index validation metrics

Summary method: approved_rows

Indexed rows: 4
Eligible rows: 4

Showing 1–4 of 4 matching rows

Filters combine with AND. Empty and unreported values sort last.

Recovery-index validation metrics. fixed_panel_recovery_index.

catboost	396	115	0.869	0.823	0.846	0.656
ensemble	396	115	0.865	0.828	0.846	0.655
lgbm	396	115	0.861	0.827	0.844	0.650
xgb	396	115	0.862	0.831	0.846	0.653

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Fixed Panel Recovery Index

Framework-index agreement

Summary method: approved_rows

Indexed rows: 3
Eligible rows: 3

Showing 1–3 of 3 matching rows

Filters combine with AND. Empty and unreported values sort last.

Framework-index agreement. fixed_panel_recovery_index.

catboost	lgbm	0.982	0.976	-0.494	5.195	4.179	-10.677
catboost	xgb	0.980	0.970	-0.408	5.703	4.351	-11.585
lgbm	xgb	0.992	0.985	0.086	3.250	2.347	-6.284

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Fixed Panel Recovery Index

Recovery-index distribution by phase

Summary method: phase_kde_fixed_grid_41

Indexed rows: 123
Eligible rows: 396

Showing 1–25 of 123 matching rows

Filters combine with AND. Empty and unreported values sort last.

Recovery-index distribution by phase. fixed_panel_recovery_index.

Early	0.000	0.002	175	93	11.398	17.012	34.444
Early	2.500	0.006	175	93	11.398	17.012	34.444
Early	5.000	0.015	175	93	11.398	17.012	34.444
Early	7.500	0.029	175	93	11.398	17.012	34.444
Early	10.000	0.041	175	93	11.398	17.012	34.444
Early	12.500	0.044	175	93	11.398	17.012	34.444
Early	15.000	0.038	175	93	11.398	17.012	34.444
Early	17.500	0.030	175	93	11.398	17.012	34.444
Early	20.000	0.022	175	93	11.398	17.012	34.444
Early	22.500	0.018	175	93	11.398	17.012	34.444
Early	25.000	0.015	175	93	11.398	17.012	34.444
Early	27.500	0.013	175	93	11.398	17.012	34.444
Early	30.000	0.012	175	93	11.398	17.012	34.444
Early	32.500	0.011	175	93	11.398	17.012	34.444
Early	35.000	0.010	175	93	11.398	17.012	34.444
Early	37.500	0.008	175	93	11.398	17.012	34.444
Early	40.000	0.008	175	93	11.398	17.012	34.444
Early	42.500	0.009	175	93	11.398	17.012	34.444
Early	45.000	0.011	175	93	11.398	17.012	34.444
Early	47.500	0.013	175	93	11.398	17.012	34.444
Early	50.000	0.012	175	93	11.398	17.012	34.444
Early	52.500	0.009	175	93	11.398	17.012	34.444
Early	55.000	0.006	175	93	11.398	17.012	34.444
Early	57.500	0.004	175	93	11.398	17.012	34.444
Early	60.000	0.004	175	93	11.398	17.012	34.444

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Surrogate Agreement

Pooled surrogate-agreement metrics

Summary method: approved_rows

Indexed row: 1
Eligible row: 1

Showing 1–1 of 1 matching row

Filters combine with AND. Empty and unreported values sort last.

Pooled surrogate-agreement metrics. surrogate_agreement.

396	0.957	5.260	4.007	-0.348	16.456	0.710	0.919

Rows per pagePage 1 of 1

Surrogate AgreementTruncated projection

Additive feature functions

Summary method: deterministic_feature_grid_25_per_feature

Indexed rows: 75
Eligible rows: 300

Showing 1–25 of 75 matching rows

Filters combine with AND. Empty and unreported values sort last.

Additive feature functions. surrogate_agreement.

fp_intensity_density	35.158	1.432	1.286	1.577	86.163	83.968	88.100
fp_intensity_density	48.154	1.027	0.930	1.124	80.598	78.495	82.541
fp_intensity_density	61.150	0.806	0.722	0.890	76.908	74.763	78.923
fp_intensity_density	74.146	-0.284	-0.304	-0.263	52.835	49.601	56.044
fp_intensity_density	87.142	-0.720	-0.797	-0.644	41.988	39.074	44.958
fp_intensity_density	103.4	-0.877	-0.965	-0.789	38.227	35.392	41.145
fp_intensity_density	116.4	-0.963	-1.049	-0.877	36.221	33.432	39.107
fp_intensity_density	129.4	-1.040	-1.129	-0.950	34.465	31.650	37.394
fp_intensity_density	142.4	-1.108	-1.203	-1.013	32.941	30.065	35.951
fp_intensity_density	155.4	-1.168	-1.270	-1.065	31.631	28.685	34.732
fp_intensity_density	168.4	-1.220	-1.329	-1.111	30.517	27.505	33.706
fp_intensity_density	181.4	-1.264	-1.380	-1.149	29.583	26.514	32.849
fp_intensity_density	197.6	-1.310	-1.432	-1.187	28.645	25.519	31.990
fp_intensity_density	210.6	-1.338	-1.465	-1.212	28.062	24.900	31.458
fp_intensity_density	223.6	-1.361	-1.491	-1.230	27.615	24.421	31.054
fp_intensity_density	236.6	-1.377	-1.511	-1.243	27.292	24.068	30.773
fp_intensity_density	249.6	-1.387	-1.524	-1.251	27.084	23.826	30.609
fp_intensity_density	262.6	-1.393	-1.533	-1.252	26.983	23.682	30.559
fp_intensity_density	275.6	-1.393	-1.537	-1.249	26.980	23.624	30.621
fp_intensity_density	288.6	-1.388	-1.536	-1.240	27.068	23.641	30.793
fp_intensity_density	301.6	-1.379	-1.533	-1.226	27.242	23.721	31.073
fp_intensity_density	317.8	-1.363	-1.525	-1.201	27.570	23.897	31.574
fp_intensity_density	330.8	-1.346	-1.515	-1.176	27.914	24.088	32.090
fp_intensity_density	343.8	-1.326	-1.504	-1.147	28.324	24.316	32.706
fp_intensity_density	356.8	-1.303	-1.492	-1.113	28.794	24.576	33.415

Rows per pagePage 1 of 3

Surrogate Agreement

Feature-effect summary

Summary method: approved_rows

Indexed rows: 3
Eligible rows: 3

Showing 1–3 of 3 matching rows

Filters combine with AND. Empty and unreported values sort last.

Feature-effect summary. surrogate_agreement.

fp_intensity_density	35.158	356.8	-1.393	1.432	2.825	86.163	28.794
fp_intensity_loading_fraction	0.510	1.000	-0.277	0.925	1.202	53.000	78.948
hp_loading_rate	26.307	9082.2	-1.444	0.192	1.636	60.786	26.352

Rows per pagePage 1 of 1

Surrogate Agreement

GAM missingness effects

Summary method: approved_rows

Indexed rows: 3
Eligible rows: 3

Showing 1–3 of 3 matching rows

Filters combine with AND. Empty and unreported values sort last.

GAM missingness effects. surrogate_agreement.

fp_intensity_density	396	0	0.000	70.567	396	7	7.353
fp_intensity_loading_fraction	178	218	0.551	0.606	178	7	0.024
hp_loading_rate	162	234	0.591	527.4	162	7	140.2

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Surrogate Agreement

Surrogate residuals by experiment

Summary method: approved_rows

Indexed rows: 5
Eligible rows: 5

Showing 1–5 of 5 matching rows

Filters combine with AND. Empty and unreported values sort last.

Surrogate residuals by experiment. surrogate_agreement.

BMDM	36	12	30.403	30.039	0.946	4.326	3.069
IL4	98	45	25.230	24.250	0.905	5.108	3.781
NK1	33	12	37.453	34.665	0.848	6.723	5.242
SHH	138	16	66.189	66.910	0.909	5.684	4.316
VEGF	91	30	29.765	29.365	0.934	4.418	3.706

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Interpretation limitations

The index is a probability-weighted description of the study-defined recovery phases, not percentage biological recovery or a direct measure of tissue repair.
The additive model is evaluated only for fidelity to the model-derived index; it is not an independently validated recovery-stage classifier.
Higher recovery-index values indicate resemblance to later recovery phases, not direct tissue repair.
The GAM is a surrogate of the recovery index and is not independent classifier or outcome validation.
Continuous feature curves use observed-value knots; measurement absence is represented by a separate conditional binary contrast.
Individual missingness offsets can be penalty-dependent when missingness masks are correlated.
Dashboard agreement metrics use out-of-fold surrogate predictions.

Recovery index and GAM surrogate

Scope, workflow status, and summary measures

Apply filters to tables and figures

Recovery-index validation

Additive surrogate feature functions

Missingness effects separated from feature values

Fixed-panel calibration summary

Recovery-index validation metrics

Framework-index agreement

Recovery-index distribution by phase

Pooled surrogate-agreement metrics

Additive feature functions

Feature-effect summary

GAM missingness effects

Surrogate residuals by experiment