Machine Learning-Integrated Analysis of SULF1, CXCL8, and PBLD Expression as Discriminative Biomarkers for Early Detection and Prognosis in Colorectal Cancer.

{"sci_version": "1.0", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:41367897", "kind": "science-record", "revision": 2, "content_hash": "sha256:9bfeb87bb81261c613600051d09935037547a8b92e6f0bceaa1a420326d23f86", "created_at": "2026-11-01T10:25:54Z", "updated_at": "2026-11-01T14:01:52Z", "generator": {"name": "corpus-assay-engine", "converter": "sep_to_sci_v1", "source_package_schema": "urn:bntrg:sep:1.0.0"}, "paper": {"state": "partial", "title": "Machine Learning-Integrated Analysis of SULF1, CXCL8, and PBLD Expression as Discriminative Biomarkers for Early Detection and Prognosis in Colorectal Cancer.", "doi": "10.2147/ijgm.s553709", "pmid": "41367897", "authors": null, "journal": "International journal of general medicine", "year": 2025, "abstract": null, "claims": [{"id": "claim-1", "statement": "the headline numerical result the paper states for its main finding", "kind": "qualitative", "state": "blocked", "target": {"value": null, "unit": null, "tolerance": null, "source": null}, "evidence": []}], "gaps": ["abstract", "authors"]}, "experiment": {"state": "partial", "objective": "the headline numerical result the paper states for its main finding", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate and its interval from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The number a replication must land on, and the sentence it came from.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:41367897"], "outputs": ["the published estimate, its unit and its interval"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data behind the published result", "kind": "data-preparation", "state": "blocked", "blocked_on": "data:accession_absent", "description": "The published result cannot be recomputed without the data the paper analysed.", "duration_hours": null, "parameters": {}, "inputs": [], "outputs": ["the source data with its provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the analysis programme", "kind": "analysis", "state": "blocked", "blocked_on": "no owned computational capability is bound to this experiment", "description": "Re-run the paper's analysis on the source data and produce the registered result. | SEP input not carried into the asset list: materials:the source data behind the published result in pmid:41367897", "duration_hours": null, "parameters": {}, "inputs": [], "outputs": ["the registered result"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:obtain_source_data blocked on data:accession_absent", "step:run_analysis blocked on no owned computational capability is bound to this experiment", "step:run_analysis input 'materials:the source data behind the published result in pmid:41367897' does not resolve to a declared asset"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:41367897", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.2147/ijgm.s553709", "sha256": "sha256:abe8b3fe8d291e5a6d048dd39af0813d49e504d3dd9225b9fb15e23381364a8b", "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.2147/ijgm.s553709", "version": null, "note": "Source read by the package builder: full_text.", "structure": {"access_state": "full_text"}}, {"id": "asset:table:pmid:41367897:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:d11c8a9a8782ef91612b3d83b559e34405e6a9281056dd6881d93f69f5a9e7c5", "bytes": 508, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[10]/table-wrap[1]#t0001", "version": null, "note": "Sequences of Primers", "structure": {"pmcid": "PMC12684262", "section_index": 10, "section_title": "Quantitative Real-Time Polymerase Chain Reaction (RT-qPCR)", "row_count": 6, "column_count": 3}, "table": {"label": "Table 1", "caption": "Sequences of Primers", "rows": [["Gene name", "Forward 5′-3′", "Reverse 5′-3′"], ["CXCL8", "TTGGCAGCCTTCCTGATTTCT", "TTCTCAGCCCTCTTCAAAAACT"], ["SULF1", "GGCTTGATCGGCAACTAGGA", "GTTCCTCATCTGCCCTGACC"], ["LRRC19", "CACTGGCCTATCGGCTGTAAT", "TGACCTTGCTCCATCCATACC"], ["PBLD", "TCTGCACACGCTGTTCTCA", "CAGCAGCGTCACAGCATAAC"], ["GAPDH", "CAAATTCCATGGCACCGTCA", "GATGGCATGGACTGTGGTCA"]], "row_count": 6, "column_count": 3, "numeric_cells": 3, "header_rows": 1, "locator": "section[10]/table-wrap[1]#t0001"}}, {"id": "asset:table:pmid:41367897:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:085bd58011351d461ee8609b5c8d511ea4d7ee12f5243a4b4f01746edf564753", "bytes": 10857, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[16]/table-wrap[1]#t0002", "version": null, "note": "Detailed Information of the up-Regulated DEGs", "structure": {"pmcid": "PMC12684262", "section_index": 16, "section_title": "PPI Network Analysis of DEGs", "row_count": 20, "column_count": 6}, "table": {"label": "Table 2", "caption": "Detailed Information of the up-Regulated DEGs", "rows": [["ID", "Gene Name", "GOTERM_BP_DIRECT", "GOTERM_CC_DIRECT", "GOTERM_MF_DIRECT", "KEGG_PATHWAY"], ["CXCL8", "C-X-C motif chemokine ligand 8(CXCL8)", "GO:0001525~angiogenesis,GO:000223 7~response to molecule of bacterial origin,GO:0006928~movement of cell or subcellular component,GO:000 6935~chemotaxis,G O:0006954~inflam matory response,GO:00069 55~immune response,GO:00070 50~cell cycle arrest,GO:0007165~ signal transduction,GO:00 07186~G-protein coupled receptor signaling pathway,GO:000828 5~negative regulation of cellproliferation,GO:00", "GO:0005576~extrac ellular region,GO:0005615~extracellular space,GO:0005622~ intracellular,", "GO:0005153~interle ukin-8 receptor binding,GO:000551 5~protein binding,GO:000800 9~chemokine activity,", "hsa04060:Cytokine-cytokine receptor interaction,hsa0406 2:Chemokine signaling pathway,hsa04064: NF-kappa B signaling pathway,hsa04620: Toll-like receptor signaling pathway,hsa04621: NOD-like receptor signaling pathway,hsa04622: RIG-I-like receptor signaling pathway,hsa04932: Non-alcoholic fatty liver disease (NAFLD),hsa05120:Epithelial cellsignaling in Helicobacter pylori infection,hsa05131: Shigellosis,hsa0513"], ["SULF1", "sulfatase 1(SULF1)", "GO:0001822~kidney development,GO:0 001937~negative regulation of endothelial cell proliferation,GO:00 02063~chondrocyte development,GO:0 003094~glomerular filtration,GO:00069 15~apoptotic process,GO:000815 2~metabolic process,GO:001057 5~positive regulation of vascular endothelial growth factor production,GO:001 4846~esophagus smooth muscle contraction,GO:001 6525~negative regulation of", "GO:0005615~extrac ellular space,GO:0005783~ endoplasmic reticulum,GO:00057 94~Golgi apparatus,GO:0005 795~Golgi stack,GO:0005886~ plasma membrane,GO:0009 986~cell surface,GO:0045121~membrane raft,", "GO:0003824~cataly tic activity,GO:0004065~arylsulfatase activity,GO:0005509~calcium ion binding,GO:000844 9~N-acetylglucosamine- 6-sulfatase activity,GO:0008484~sulfuric ester hydrolase activity,", ""], ["HMGCS2", "3-hydroxy-3- methylglutaryl-CoA synthase 2(HMGCS2)", "", "GO:0006695~choles terol biosynthetic process,GO:000829 9~isoprenoid biosynthetic process,GO:004695 1~ketone body biosynthetic process,", "GO:0005739~mitoc hondrion,GO:00057 43~mitochondrial inner membrane,GO:0005 759~mitochondrial matrix,", "hsa00072:Synthesis and degradation of ketone bodies,hsa00280:Va line, leucine and isoleucine degradation,hsa006 50:Butanoate metabolism,hsa009 00:Terpenoid backbone biosynthesis,hsa01 100:Metabolic pathways,hsa01130: Biosynthesis of antibiotics,"], ["ABCG2", "ATP binding cassette subfamily G member 2 (Junior blood group)(ABCG2)", "", "GO:0006810~transp ort,GO:0006855~dr ug transmembrane transport,GO:00068 79~cellular iron ion homeostasis,GO:00 15886~heme transport,GO:00424 93~response to drug,GO:0042908~x enobiotic transport,GO:00464 15~urate metabolic process,", "GO:0005634~nucle us,GO:0005886~pla sma membrane,GO:0016 021~integral component of membrane,GO:0031 966~mitochondrial membrane,", "hsa02010:ABCtransporters,hsa049 76:Bile secretion,"], ["CD177", "CD177molecule(CD177)", "", "GO:0007596~blood coagulation,GO:005 0900~leukocyte migration,", "GO:0005886~plasm a membrane,GO:0031 225~anchored component of membrane,GO:0070 062~extracellular exosome,", ""], ["ANPEP", "alanyl aminopeptidase, membrane(ANPEP)", "Amino acid transport and metabolism,", "GO:0001525~angio genesis,GO:000650 8~proteolysis,GO:0 030154~cell differentiation,GO: 0043171~peptide catabolic process,GO:004671 8~viral entry into host cell,", "GO:0005615~extracellular space,GO:0005765~ lysosomal membrane,GO:0005 793~endoplasmic reticulum-Golgi intermediate compartment,GO:0 005829~cytosol,GO:0005887~integral component of plasma membrane,GO:0009 897~external side of plasma membrane,GO:0016 021~integral component of membrane,GO:0070 062~extracellular exosome,", "hsa00480:Glutathio ne metabolism,hsa011 00:Metabolic pathways,hsa04614: Renin-angiotensin system,hsa04640:H ematopoietic cell lineage,"], ["ADH1C", "alcohol dehydrogenase 1C (class I), gamma polypeptide(ADH1C)", "Energy production and conversion,", "GO:0006069~ethan ol oxidation,", "GO:0005829~cytos ol,", "hsa00010:Glycolysis/ Gluconeogenesis,h sa00071:Fatty acid degradation,hsa003 50:Tyrosine metabolism,hsa008 30:Retinol metabolism,hsa009 80:Metabolism of xenobiotics by cytochrome P450,hsa00982:Drug metabolism - cytochrome P450,hsa01100:Metabolic pathways,hsa05204: Chemical carcinogenesis,"], ["AKR1B10", "aldo-keto reductase family 1 member B10(AKR1B10)", "", "GO:0001523~retino id metabolic process,GO:000608 1~cellular aldehyde metabolic process,GO:000758 6~digestion,GO:00 08202~steroid metabolic process,GO:001648 8~farnesol catabolic process,GO:004459 7~daunorubicin metabolic process,GO:004459 8~doxorubicin metabolic process,GO:005511 4~oxidation- reduction process,", "GO:0005764~lysoso me,GO:0005829~cy tosol,GO:0070062~ extracellular exosome,", "hsa00040:Pentose and glucuronate interconversions,hs a00051:Fructose and mannose metabolism,hsa000 52:Galactose metabolism,hsa005 61:Glycerolipid metabolism,hsa011 00:Metabolic pathways,"], ["AQP8", "aquaporin 8(AQP8)", "", "GO:0006810~transp ort,GO:0006833~wa ter transport,GO:00099 92~cellular water homeostasis,GO:00 15793~glycerol transport,GO:00342 20~ion transmembrane transport,GO:00713 20~cellular response to cAMP,", "GO:0005886~plasm a membrane,GO:0005 887~integral component of plasma membrane,GO:0016 021~integral component of membrane,GO:0045 177~apical part of cell,", "hsa04976:Bile secretion,"], ["CHP2", "calcineurin like EF- hand protein 2(CHP2)", "Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only,", "GO:0008284~positi ve regulation of cell proliferation,GO:00 10922~positive regulation of phosphatase activity,GO:0015031~protein transport,GO:00423 07~positive regulation of protein import into nucleus,GO:004594 4~positive regulation of transcription from RNA polymerase II promoter,GO:00708 86~positive regulation of calcineurin-NFAT signaling cascade,GO:007127 7~cellular response to calcium ion,", "GO:0005634~nucle us,GO:0005737~cyt oplasm,GO:0005886~plasma membrane,", ""], ["CA2", "carbonic anhydrase 2(CA2)", "", "GO:0001822~kidney development,GO:0 002009~morphoge nesis of an epithelium,GO:0006 730~one-carbon metabolic process,GO:000926 8~response to pH,GO:0010043~response to zinc ion,GO:0015670~ca rbon dioxide transport,GO:00157 01~bicarbonate transport,GO:00322 30~positive regulation of synaptic transmission, GABAergic,GO:0032849~positive regulation of cellular pHreduction,GO:00381", "GO:0005615~extracellular space,GO:0005737~ cytoplasm,GO:0005 829~cytosol,GO:00 05886~plasma membrane,GO:0005 902~microvillus,GO:0016323~basolater al plasma membrane,GO:0030 424~axon,GO:0043 209~myelin sheath,GO:0045177~apical part of cell,GO:0070062~ex tracellular exosome,", "hsa00910:Nitrogen metabolism,hsa049 64:Proximal tubule bicarbonate reclamation,hsa049 66:Collecting duct acid secretion,hsa04971: Gastric acid secretion,hsa04972: Pancreatic secretion,hsa04976: Bile secretion,"], ["CLCA1", "chloride channel accessory 1(CLCA1)", "", "GO:0006508~prote olysis,GO:0006810~ transport,GO:00068 16~calcium ion transport,GO:00342 20~ion transmembrane transport,GO:00714 56~cellular response to hypoxia,GO:190247 6~chloride transmembrane transport,", "GO:0005615~extracellular space,GO:0005886~ plasma membrane,GO:0005 887~integral component of plasma membrane,GO:0005 902~microvillus,GO:0042589~zymogen granule membrane,", "hsa04924:Renin secretion,hsa04972: Pancreatic secretion,"], ["DHRS9", "dehydrogenase/reductase 9(DHRS9)", "General function prediction only,", "GO:0002138~retino ic acid biosynthetic process,GO:000820 9~androgen metabolic process,GO:003085 5~epithelial cell differentiation,GO: 0042448~progester one metabolic process,GO:004257 2~retinol metabolic process,GO:004290 4~9-cis-retinoic acid biosynthetic process,GO:005511 4~oxidation- reduction process,", "GO:0005789~endo plasmic reticulum membrane,GO:0030 176~integral component of endoplasmic reticulum membrane,GO:0031 090~organelle membrane,", "hsa00830:Retinol metabolism,hsa011 00:Metabolic pathways,"], ["LRRC19", "leucine rich repeat containing 19(LRRC19)", "", "GO:0006469~negati ve regulation of protein kinase activity,GO:0019221~cytokine- mediated signaling pathway,GO:004642 6~negative regulation of JAK- STAT cascade,", "GO:0005737~cytopl asm,GO:0016021~integral component of membrane,", ""], ["PADI2", "peptidyl arginine deiminase 2(PADI2)", "", "GO:0006325~chromatin organization,GO:00 10848~regulation of chromatin disassembly,GO:00 18101~protein citrullination,GO:00 21762~substantia nigra development,GO:0 030520~intracellula r estrogen receptor signaling pathway,GO:003641 3~histone H3-R26 citrullination,GO:00 48096~chromatin- mediated maintenance of transcription,GO:00 70100~negative regulation of chemokine- mediated signaling pathway,GO:190162", "GO:0005737~cytopl asm,GO:0005829~c ytosol,GO:0035327~transcriptionally active chromatin,GO:0070 062~extracellular exosome,", ""], ["PBLD", "phenazine biosynthesis like protein domain containing(PBLD)", "", "GO:0009058~biosynthetic process,GO:001063 3~negative regulation of epithelial cell migration,GO:0010 719~negative regulation of epithelial to mesenchymal transition,GO:00302 77~maintenance of gastrointestinal epithelium,GO:0030 512~negative regulation of transforming growth factor beta receptor signaling pathway,GO:005068 0~negative regulation of epithelial cell proliferation,GO:00 60392~negative", "GO:0005737~cytopl asm,GO:0070062~extracellular exosome,", ""], ["SELENBP1", "selenium binding protein 1(SELENBP1)", "", "GO:0015031~protei n transport,", "GO:0005615~extracellular space,GO:0005730~ nucleolus,GO:00058 29~cytosol,GO:001 6020~membrane,G O:0070062~extracellular exosome,", ""], ["SLC4A4", "solute carrier family 4 member 4(SLC4A4)", "", "GO:0006810~transp ort,GO:0006814~sodium ion transport,GO:00156 98~inorganic anion transport,GO:00157 01~bicarbonate transport,GO:00357 25~sodium ion transmembrane transport,GO:00514 53~regulation of intracellular pH,GO:0098656~anion transmembrane transport,", "GO:0005886~plasm a membrane,GO:0005 887~integral component of plasma membrane,GO:0016 021~integral component of membrane,GO:0016 323~basolateral plasma membrane,GO:0070 062~extracellular exosome,", "hsa04964:Proximal tubule bicarbonate reclamation,hsa049 72:Pancreatic secretion,hsa04976: Bile secretion,"], ["ZG16", "zymogen granule protein 16(ZG16)", "", "GO:0015031~protei n transport,", "GO:0005578~protei naceous extracellular matrix,GO:0005796~Golgi lumen,GO:0031012~extracellular matrix,GO:0042589~zymogen granule membrane,GO:0060 205~cytoplasmic membrane- bounded vesicle lumen,", ""]], "row_count": 20, "column_count": 6, "numeric_cells": 72, "header_rows": 1, "locator": "section[16]/table-wrap[1]#t0002"}}, {"id": "asset:table:pmid:41367897:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:a8604a243bba991a030dd0afab87e9da0c48d61b2404120eb69bbd09ffc9c6d9", "bytes": 1278, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[17]/table-wrap[1]#t0003", "version": null, "note": "Clinicopathologic Data from Patients", "structure": {"pmcid": "PMC12684262", "section_index": 17, "section_title": "CXCL8, SULF1, LRRC19 and PBLD Gene Expression", "row_count": 16, "column_count": 8}, "table": {"label": "Table 3", "caption": "Clinicopathologic Data from Patients", "rows": [["Access ID", "Age", "Gender", "TumorSize (cm)", "TumorLocation", "HistologicGrade", "LymphaticMetastasis", "VenousInvasion"], ["4671602", "61", "Male", "7*6", "Colon", "T4a", "Present", "Present"], ["4673620", "50", "Male", "4.5*4", "Rectum", "T3", "Absent", "Absent"], ["4671722", "66", "Male", "4.5*3.5", "Rectum", "T3", "Absent", "Absent"], ["4672724", "59", "Male", "5*2.8", "Colon", "T4a", "Present", "Present"], ["4673143", "63", "Male", "4*3", "Colon", "T3", "Absent", "Absent"], ["4673502", "61", "Female", "4*4", "Colon", "T3", "Absent", "Present"], ["4672637", "46", "Female", "3*3", "Colon", "T3", "Present", "Absent"], ["4831533", "56", "Male", "6*4", "Colon", "T3", "Present", "Absent"], ["4832474", "61", "Male", "4*3.5", "Colon", "T3", "Present", "Absent"], ["4831603", "82", "Female", "4.5*4.3", "Colon", "T3", "Absent", "Absent"], ["4831626", "71", "Female", "4.5*4", "Colon", "T3", "Present", "Absent"], ["4834073", "67", "Female", "3.9*3", "Colon", "T3", "Absent", "Absent"], ["4832133", "65", "Female", "4.5*4.5", "Rectum", "T3", "Absent", "Absent"], ["4833061", "77", "Male", "5.3*4.7", "Rectum", "T2", "Absent", "Absent"], ["4830659", "64", "Male", "3*2.5", "Rectum", "T2", "Absent", "Absent"]], "row_count": 16, "column_count": 8, "numeric_cells": 45, "header_rows": 1, "locator": "section[17]/table-wrap[1]#t0003"}}], "gaps": ["asset:source:pmid:41367897 not verified"]}, "analysis": {"state": "absent", "methods": [], "targets": [], "gaps": ["method", "targets"]}, "capability": {"state": "absent", "requirements": [], "gaps": ["capability"]}, "readiness": {"state": "partial", "tier": null, "blocking_axis": null, "blocked_on": null, "axes": {}, "can_run": {"dsl_operations": [], "assets": ["source:pmid:41367897", "asset:table:pmid:41367897:1", "asset:table:pmid:41367897:2", "asset:table:pmid:41367897:3"], "steps": ["read_published_estimate"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": ["xml"], "capabilities": [], "data_gaps": ["source:pmid:41367897"]}, "gaps": ["corpus_record_absent"]}, "review": {"state": "partial", "machine_critique": {"status": "blocked", "providers": [], "target_providers": [], "agreement": false, "disagreements": [], "agreement_basis": {"policy": "decisive_fields", "decisive_fields": ["work_type", "number_stated", "parent_value", "unit"]}, "blinded": true}, "human_critique": {"status": "not_run", "reviewer": null, "signed_at": null, "conflict_checked": false, "commentary": null}, "stages": [{"key": "target_materials", "status": "pending", "reason": null, "evidence": null}, {"key": "independent_readings", "status": "blocked", "reason": "The independent readings are incomplete or disagree; the source evidence must resolve the difference.", "evidence": {"provider_errors": [{"provider": "minimax", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}, {"provider": "minimax_alt", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}, {"provider": "minimax", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}, {"provider": "minimax_alt", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}]}}, {"key": "source_resolution", "status": "pending", "reason": null, "evidence": null}, {"key": "protocol_reconstruction", "status": "pending", "reason": null, "evidence": null}, {"key": "control_execution", "status": "pending", "reason": null, "evidence": null}, {"key": "control_comparison", "status": "pending", "reason": null, "evidence": null}, {"key": "publication", "status": "pending", "reason": null, "evidence": null}], "gaps": ["review.human_critique", "review.machine_critique.blocked", "review.machine_critique.providers"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "package:6db87eb078f3b77fc0aa4c213a11259e037d0fb34d4d1c61f075d3b7074244b7", "type": "sep_package", "label": "SEP v1 package for pmid:41367897"}], "activities": [{"id": "activity:conversion:pmid:41367897", "type": "conversion", "used": ["package:6db87eb078f3b77fc0aa4c213a11259e037d0fb34d4d1c61f075d3b7074244b7"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}], "source_run_id": "run-20261023T122449232913", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:41367897", "parent_hash": "sha256:5dc3aa928717d14d931379644cfb920d6215da9bad657c10804a6e6607b47033", "fork_of": null, "generation": 2}, "gaps": ["abstract", "asset:source:pmid:41367897 not verified", "authors", "capability", "corpus_record_absent", "execution.not_run", "method", "review.human_critique", "review.machine_critique.blocked", "review.machine_critique.providers", "step:obtain_source_data blocked on data:accession_absent", "step:run_analysis blocked on no owned computational capability is bound to this experiment", "step:run_analysis input 'materials:the source data behind the published result in pmid:41367897' does not resolve to a declared asset", "targets"]}