Study
Sequence-audited comparative genomics of genome-maintenance genes in vertebrate lifespan evolution
Processed data and frozen outputs supporting the manuscript “Sequence-audited comparative genomics of genome-maintenance genes in vertebrate lifespan evolution.” The archive includes source data for four main figures, 41 supplementary data tables, a dated species tree, protein alignments, gene-family trees, a reproducibility guide, and SHA-256 checksums.
Abstract
Processed data and frozen outputs supporting the manuscript “Sequence-audited comparative genomics of genome-maintenance genes in vertebrate lifespan evolution.” The archive includes source data for four main figures, 41 supplementary data tables, a dated species tree, protein alignments, gene-family trees, a reproducibility guide, and SHA-256 checksums. Analysis code is available at https://github.com/jackeikee-debug/nature-bird-lifespan, release v1.0.0.
This page presents preserved, source-backed released materials.
Source inventory
Deterministically extracted immutable study materials.
Extracted study record
Authoritative metadata and released result artifacts.
The preserved source contains 50 result tables; 50 have complete deterministic representation coverage.
Supplementary Data 8 Matched Random Gene Sets source data
2 materialized released rows from submission:submission-0874a5a043ddb0a424e0af00:1/nature-bird-lifespan-data-v1.0.0.zip!/Supplementary_Data/Supplementary_Data_8_matched_random_gene_sets.tsv.
Evidence visualization
Supplementary Data 8 Matched Random Gene Sets source data
2 materialized released rows from submission:submission-0874a5a043ddb0a424e0af00:1/nature-bird-lifespan-data-v1.0.0.zip!/Supplementary_Data/Supplementary_Data_8_matched_random_gene_sets.tsv.
Browse source data · 2 rows
Loading rows 1–2…
| Target Module | Target Gene Count | Background Gene Pool N | Background Definition | Candidate Draws | Retained Nearest Sets | Random Seed | Sampling Without Replacement Within Set | Unique Retained Set Compositions | Target Mean Gene Coverage | Matched Mean Gene Coverage | Mean Absolute Coverage Difference | P95 Absolute Coverage Difference | Maximum Absolute Coverage Difference | Gene Length Matched | Sequence Conservation Matched | Observed Residual Slope | Empirical P Residual Slope Greater | Observed Residual Correlation | Empirical P Residual Correlation Greater |
|---|
Source & verification
- File
- submission:submission-0874a5a043ddb0a424e0af00:1/nature-bird-lifespan-data-v1.0.0.zip!/Supplementary_Data/Supplementary_Data_8_matched_random_gene_sets.tsv
- Version
released- Integrity
69222763…135384
Supplementary Data 9 Annotation Bias Models source data
36 materialized released rows from submission:submission-0874a5a043ddb0a424e0af00:1/nature-bird-lifespan-data-v1.0.0.zip!/Supplementary_Data/Supplementary_Data_9_annotation_bias_models.tsv.
Evidence visualization
Supplementary Data 9 Annotation Bias Models source data
36 materialized released rows from submission:submission-0874a5a043ddb0a424e0af00:1/nature-bird-lifespan-data-v1.0.0.zip!/Supplementary_Data/Supplementary_Data_9_annotation_bias_models.tsv.
Browse source data · 36 rows
Rows 1–10 of 36
| Score Variant | Maintenance Module | Score Col | Model | Formula | N | Lambda | LogLik | AIC | Estimate | Se | T | P | Error | P Bh By Model | Rank By P |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| full_background_sensitivity | cancer_surveillance_senescence | cancer_surveillance_senescence_score | mass_clade_tier | log10_max_lifespan_years ~ log10_body_mass_g + clade + cancer_surveillance_senescence_score + tier_numeric | 68 | 1e-06 | 15.0440588562681 | -16.0881177125361 | 0.398766382422224 | 0.142342561382022 | 2.80145571746462 | 0.00680720744909724 | 0.015924952351829 | 1 | |
| full_background_sensitivity | transposon_repeat_suppression | transposon_repeat_suppression_score | mass_clade_tier | log10_max_lifespan_years ~ log10_body_mass_g + clade + transposon_repeat_suppression_score + tier_numeric | 68 | 1e-06 | 14.9108322313396 | -15.8216644626792 | 0.358023618600413 | 0.130049425209265 | 2.75298116869266 | 0.00776868955653853 | 0.015924952351829 | 2 | |
| full_background_sensitivity | chromatin_repression_heterochromatin | chromatin_repression_heterochromatin_score | mass_clade_tier | log10_max_lifespan_years ~ log10_body_mass_g + clade + chromatin_repression_heterochromatin_score + tier_numeric | 68 | 1e-06 | 14.6327109666431 | -15.2654219332862 | 0.324592995043552 | 0.122507851008441 | 2.6495689245352 | 0.0102492713323272 | 0.015924952351829 | 3 | |
| full_background_sensitivity | inflammation_innate_immune_restraint | inflammation_innate_immune_restraint_score | mass_clade_tier | log10_max_lifespan_years ~ log10_body_mass_g + clade + inflammation_innate_immune_restraint_score + tier_numeric | 68 | 1e-06 | 14.5975004404315 | -15.1950008808631 | 0.390347067859587 | 0.148069106895819 | 2.63624922202193 | 0.0106166349012193 | 0.015924952351829 | 4 | |
| full_background_sensitivity | DNA_repair_replication_stress | DNA_repair_replication_stress_score | mass_clade_tier | log10_max_lifespan_years ~ log10_body_mass_g + clade + DNA_repair_replication_stress_score + tier_numeric | 68 | 1e-06 | 14.2232138035461 | -14.4464276070921 | 0.349871328077175 | 0.140444995273983 | 2.49116266047528 | 0.0154689400984447 | 0.0164041544233646 | 5 | |
| full_background_sensitivity | proteostasis_autophagy_mitophagy | proteostasis_autophagy_mitophagy_score | mass_clade_tier | log10_max_lifespan_years ~ log10_body_mass_g + clade + proteostasis_autophagy_mitophagy_score + tier_numeric | 68 | 1e-06 | 14.1652094885771 | -14.3304189771542 | 0.382507082593801 | 0.154982702290532 | 2.46806306084888 | 0.0164041544233646 | 0.0164041544233646 | 6 | |
| full_background_sensitivity | inflammation_innate_immune_restraint | inflammation_innate_immune_restraint_score | mass_clade_tier_coverage | log10_max_lifespan_years ~ log10_body_mass_g + clade + inflammation_innate_immune_restraint_score + tier_numeric + inflammation_innate_immune_restraint_coverage | 68 | 1e-06 | 17.1432767766838 | -18.2865535533676 | -3.20018578235749 | 1.66859678767639 | -1.91789041306614 | 0.059888012699203 | 0.359328076195218 | 1 | |
| full_background_sensitivity | DNA_repair_replication_stress | DNA_repair_replication_stress_score | mass_clade_tier_coverage | log10_max_lifespan_years ~ log10_body_mass_g + clade + DNA_repair_replication_stress_score + tier_numeric + DNA_repair_replication_stress_coverage | 68 | 1e-06 | 15.329058199586 | -14.6581163991721 | -1.97828727490014 | 1.65892054441609 | -1.19251478412214 | 0.237754343295368 | 0.622140570722248 | 2 | |
| full_background_sensitivity | chromatin_repression_heterochromatin | chromatin_repression_heterochromatin_score | mass_clade_tier_coverage | log10_max_lifespan_years ~ log10_body_mass_g + clade + chromatin_repression_heterochromatin_score + tier_numeric + chromatin_repression_heterochromatin_coverage | 68 | 1e-06 | 15.3013619879565 | -14.602723975913 | -4.76111170665899 | 4.66043135669406 | -1.0216032255942 | 0.311070285361124 | 0.622140570722248 | 3 | |
| full_background_sensitivity | transposon_repeat_suppression | transposon_repeat_suppression_score | mass_clade_tier_coverage | log10_max_lifespan_years ~ log10_body_mass_g + clade + transposon_repeat_suppression_score + tier_numeric + transposon_repeat_suppression_coverage | 68 | 1e-06 | 15.0620226062845 | -14.1240452125689 | -1.21562707289741 | 3.04598762230397 | -0.399091271414264 | 0.691242897849812 | 0.780902417801604 | 4 |
Source & verification
- File
- submission:submission-0874a5a043ddb0a424e0af00:1/nature-bird-lifespan-data-v1.0.0.zip!/Supplementary_Data/Supplementary_Data_9_annotation_bias_models.tsv
- Version
released- Integrity
8490b8c3…924727
Deterministic extraction method
No generative model selected, summarized, or transformed the results.
Evidence classified preserved repository files, parsed bounded structured tables, inferred column types, and selected registered components using versioned rules.
Data and provenance
Immutable publication and repository sources.
Reuse boundary
Only released and preserved source rows are displayed.
No model is rerun and no missing value is inferred.
Pinned scientific commit: bf6ac86b961d575f3524b994dcce9fff993637be
Limitations
Deterministic coverage boundaries.
Every accepted released table cell is represented by registered Evidence components; unstructured claims are not converted into numerical results.
Citation
Cite the scholarly record and pinned analysis source.
Scholarly publication
Si Li, Yanyan Huang. Sequence-audited comparative genomics of genome-maintenance genes in vertebrate lifespan evolution. 10.5281/zenodo.20798437.
Pinned analysis source
https://github.com/jackeikee-debug/nature-bird-lifespan, commit bf6ac86b961d575f3524b994dcce9fff993637be.