Knowledge Graph Triples
Generated: 2026-07-11
Sources: 29 verified source summaries (16 produced biological/methodological triples)
Total unique triples: 94
Format: subject relation object provenance evidence_level
Unresolved entities (no wiki page yet): NRAS, MYC, WT1, APC, SMAD4, ERBB2, MET, STAT6, FOLH1, BRCA1, bladder-cancer, cervical-cancer, head-and-neck-cancer, Hodgkin-lymphoma, multiple-myeloma, WHIM-syndrome, crizotinib, nivolumab, DeCiFer, PyClone
Phase 1.5 needed: create entity pages for entities appearing in >=3 triples from >=2 sources
clonal_hematopoiesis confounds ctdna asco-gu-2025-ctdna-next-generation verified epigenomic_technologies enhances ctdna asco-gu-2025-ctdna-next-generation verified category-theory provides_formalism_for valid-analogy buehler2011-reoccurring-patterns “Category theory provides formal criteria for valid analogies; commutativity condition distinguishes valid analogies from mere metaphors” commutativity-condition is_formal_criterion_for structure-preserving-mapping buehler2011-reoccurring-patterns “Commutativity condition — if two paths in the source olog point to the same instance, their images in the target olog must also point to the same instance” functorial-analogy is_applied_to cross-domain-knowledge-transfer buehler2011-reoccurring-patterns “Functorial mapping that validates cross-domain knowledge transfer is category theory’s added value over graph theory” driver-mutation affects clone-fitness buehler2011-reoccurring-patterns “Hierarchical interaction captures why driver mutations (lower-level genetic changes) affect clone fitness (higher-level population property)” hierarchical-olog provides_formalism_for cross-domain-analogy buehler2011-reoccurring-patterns “Hierarchical olog captures shared structure as a functorial isomorphism; spider silk and classical music share structurally identical hierarchical architecture” APOBEC3B-deletion associated_with increased-breast-cancer-risk burns2014-apobec3b-pathological-consequences verified_with_caveats APOBEC3B upregulated_in bladder-cancer burns2014-apobec3b-pathological-consequences verified_with_caveats APOBEC3B upregulated_in breast-cancer burns2014-apobec3b-pathological-consequences verified_with_caveats APOBEC3B upregulated_in cervical-cancer burns2014-apobec3b-pathological-consequences verified_with_caveats APOBEC3B upregulated_in head-and-neck-cancer burns2014-apobec3b-pathological-consequences verified_with_caveats APOBEC3B upregulated_in lung-cancer burns2014-apobec3b-pathological-consequences verified_with_caveats ctdna captures intratumor_heterogeneity cfdna-vs-ctdna-explained verified_with_caveats ctdna detects cancer cfdna-vs-ctdna-explained verified_with_caveats ctdna is_subset_of cfdna cfdna-vs-ctdna-explained verified_with_caveats ctdna monitors treatment_response cfdna-vs-ctdna-explained verified_with_caveats biomolecular-condensate is_simultaneously text-and-reader extended-brain-2026-life-is-interpretation “BMC is simultaneously text and reader; carries meaningful configuration and performs the reading; epistemic cut is functional, not physical” biomolecular-condensate combines five-constitutive-properties extended-brain-2026-life-is-interpretation “BMCs combine five mutually constitutive properties: liquid, solid, chemical reactor, signaling hub, computational element; entanglement defeats existing physical theory” write-read-rewrite-loop is_mechanism_of cell-differentiation extended-brain-2026-life-is-interpretation “Cell differentiation proceeds through continuous self-reading and self-modification: eRNAs → condensate nucleation → histone modification → new gene activation → new eRNAs” epistemic-cut is_applied_to biomolecular-condensate extended-brain-2026-life-is-interpretation “Epistemic cut runs through the condensate, not between separate objects; the cut is functional, not physical” interpretation is_organizational_principle_of life extended-brain-2026-life-is-interpretation “Interpretation is the organizational principle of life at every scale: bacterial chemotaxis, immune recognition, plant-insect signaling — same structural logic operates” APC mutated_in colorectal-cancer lee2026-clonal-evolution-crc verified BRCA1 inactivated_by LINE-1-retrotransposition lee2026-clonal-evolution-crc verified chromothripsis occurs_in colorectal-cancer lee2026-clonal-evolution-crc verified ERBB2 amplified_in colorectal-cancer lee2026-clonal-evolution-crc verified KRAS mutated_in colorectal-cancer lee2026-clonal-evolution-crc verified LINE-1-retrotransposition elevated_in colorectal-cancer lee2026-clonal-evolution-crc verified MDM2 amplified_in colorectal-cancer lee2026-clonal-evolution-crc verified MYC amplified_in colorectal-cancer lee2026-clonal-evolution-crc verified NRAS lost_in liver-metastasis lee2026-clonal-evolution-crc verified NRAS mutated_in colorectal-cancer lee2026-clonal-evolution-crc verified RBFOX1 deleted_in colorectal-cancer lee2026-clonal-evolution-crc verified SMAD4 deleted_in colorectal-cancer lee2026-clonal-evolution-crc verified TP53 mutated_in colorectal-cancer lee2026-clonal-evolution-crc verified hierarchical-interaction describes_relation_between higher-level-property lower-level-element buehler2011-reoccurring-patterns “Property of a higher-level structure can relate to an element of a lower-level structure, crossing hierarchical boundaries that usually separate composition levels” chromothripsis occurs_in neuroblastoma ma2018-pediatric-pancancer verified chromothripsis occurs_in osteosarcoma ma2018-pediatric-pancancer verified chromothripsis occurs_in pediatric-AML ma2018-pediatric-pancancer verified chromothripsis occurs_in pediatric-B-ALL ma2018-pediatric-pancancer verified chromothripsis occurs_in Wilms-tumor ma2018-pediatric-pancancer verified KRAS-novel-isoform expressed_in pediatric-leukemia ma2018-pediatric-pancancer verified WT1 epigenetically-silenced_in pediatric-AML ma2018-pediatric-pancancer verified chromothripsis deletes CXCR4-mutant-allele mcdermott2015-chromothriptic-cure-whim verified CXCR4-haploinsufficiency confers_selective_advantage hematopoietic-stem-cell mcdermott2015-chromothriptic-cure-whim verified CXCR4 mutated_in WHIM-syndrome mcdermott2015-chromothriptic-cure-whim verified chromosome-1q-gain occurs_in multiple-myeloma miething2019-clonal-evolution-myeloma verified_with_caveats MYC translocated_in multiple-myeloma miething2019-clonal-evolution-myeloma verified_with_caveats RB1 inactivated_in multiple-myeloma miething2019-clonal-evolution-myeloma verified_with_caveats TP53 inactivated_in multiple-myeloma miething2019-clonal-evolution-myeloma verified_with_caveats ar downregulated_in prostate-cancer mikutenaite2025-clonal-evolution-transcriptional-plasticity verified_with_caveats JAK-STAT_pathway activated_in prostate-cancer mikutenaite2025-clonal-evolution-transcriptional-plasticity verified_with_caveats monophyletic_dissemination occurs_in prostate-cancer mikutenaite2025-clonal-evolution-transcriptional-plasticity verified_with_caveats polyphyletic_dissemination occurs_in prostate-cancer mikutenaite2025-clonal-evolution-transcriptional-plasticity verified_with_caveats single_biopsy underestimates intratumor_heterogeneity mikutenaite2025-clonal-evolution-transcriptional-plasticity verified_with_caveats transcriptional_plasticity associated_with metastasis mikutenaite2025-clonal-evolution-transcriptional-plasticity verified_with_caveats WNT_pathway activated_in prostate-cancer mikutenaite2025-clonal-evolution-transcriptional-plasticity verified_with_caveats subject relation object provenance evidence DCF detects truncal_mutations satas2022-decifer verified_with_caveats DCF reclassifies SNV_clonality satas2022-decifer verified_with_caveats DeCiFer outperforms PyClone satas2022-decifer verified_with_caveats DeCiFer resolves homoplasy satas2022-decifer verified_with_caveats SSCN_assumption improves_upon constant_mutation_multiplicity_assumption satas2022-decifer verified_with_caveats chemotherapy preserves ancestral_clones spina2018-ctdna-hodgkin-lymphoma verified ctdna detects Hodgkin_lymphoma spina2018-ctdna-hodgkin-lymphoma verified ctdna genotypes Hodgkin_lymphoma spina2018-ctdna-hodgkin-lymphoma verified ctdna predicts treatment_response spina2018-ctdna-hodgkin-lymphoma verified ITPKB mutated_in Hodgkin_lymphoma spina2018-ctdna-hodgkin-lymphoma verified nivolumab suppresses ancestral_clones spina2018-ctdna-hodgkin-lymphoma verified STAT6 mutated_in Hodgkin_lymphoma spina2018-ctdna-hodgkin-lymphoma verified TNFAIP3 mutated_in Hodgkin_lymphoma spina2018-ctdna-hodgkin-lymphoma verified cfdna released_by apoptosis stejskal2023-ctdna-biology-review verified ctdna assesses intratumor_heterogeneity stejskal2023-ctdna-biology-review verified ctdna has_half_life short stejskal2023-ctdna-biology-review verified ctdna measured_in cfdna stejskal2023-ctdna-biology-review verified ctRNA released_by active_secretion stejskal2023-ctdna-biology-review verified clonal_diversity decreases_in breast-cancer walens2020-adaptation-selection-clonal-evolution verified_with_caveats crizotinib treats breast-cancer walens2020-adaptation-selection-clonal-evolution verified_with_caveats EMT occurs_in breast-cancer walens2020-adaptation-selection-clonal-evolution verified_with_caveats IL-6-Jak-Stat3_pathway activated_in breast-cancer walens2020-adaptation-selection-clonal-evolution verified_with_caveats Jak_inhibitor treats breast-cancer walens2020-adaptation-selection-clonal-evolution verified_with_caveats MET amplified_in breast-cancer walens2020-adaptation-selection-clonal-evolution verified_with_caveats CDK4/6i+ET-R associated_with worse_outcome wander2026-ctdna-cdk46-breast-cancer verified_with_caveats ctdna associated_with prognosis wander2026-ctdna-cdk46-breast-cancer verified_with_caveats esr1 enriched_in breast-cancer wander2026-ctdna-cdk46-breast-cancer verified_with_caveats esr1 under_selection_in breast-cancer wander2026-ctdna-cdk46-breast-cancer verified_with_caveats rb1 enriched_in breast-cancer wander2026-ctdna-cdk46-breast-cancer verified_with_caveats rb1 under_selection_in breast-cancer wander2026-ctdna-cdk46-breast-cancer verified_with_caveats tp53 under_selection_in breast-cancer wander2026-ctdna-cdk46-breast-cancer verified_with_caveats clonal_evolution generates transcriptional_noise weng2026-ith-prostate-cancer verified_with_caveats FOLH1 expression_driven_by transcriptional_plasticity weng2026-ith-prostate-cancer verified_with_caveats transcriptional_ITH independent_of clonal_evolution weng2026-ith-prostate-cancer verified_with_caveats transcriptional_ITH occurs_in prostate-cancer weng2026-ith-prostate-cancer verified_with_caveats tumor_microenvironment limited_role_in transcriptional_ITH weng2026-ith-prostate-cancer verified_with_caveats