{"id":"idc-ct-lymph-nodes","title":"CT Lymph Nodes","short_title":"ct_lymph_nodes","aliases":["ct_lymph_nodes"],"summary":"This collection consists of Computed Tomography (CT) images of the mediastinum and abdomen in which lymph node positions are marked by radiologists at the National Institutes of Health, Clinical Center. Radiologists at the Imaging Biomarkers and Computer-Aided Diagnosis Laboratory labeled a total of 388 mediastinal lymph nodes in CT images of 90 patients and a total of 595 abdominal lymph nodes in 86 patients. Please see the CT Lymph Nodes wiki page to learn more about the images and to obtain supporting data from this collection.","one_liner":null,"identifiers":[{"scheme":"idc_collection_id","value":"ct_lymph_nodes","url":"https://portal.imaging.datacommons.cancer.gov/explore/?collection_id=ct_lymph_nodes","is_primary":true,"evidence":[{"method":"api","source_url":"https://api.imaging.datacommons.cancer.gov/v3/collections/ct_lymph_nodes","source_label":"IDC v3 API /collections","retrieved_at":"2026-09-18T02:44:36.389375Z","snippet":null,"locator":null,"confidence":"high","reviewer":null,"reviewed_at":null,"note":null}]},{"scheme":"tcia_collection","value":"CT Lymph Nodes","url":"https://www.cancerimagingarchive.net/collections/","is_primary":false,"evidence":[{"method":"api","source_url":"https://api.imaging.datacommons.cancer.gov/v3/collections/ct_lymph_nodes","source_label":"IDC v3 API /collections","retrieved_at":"2026-09-18T02:44:36.389375Z","snippet":null,"locator":null,"confidence":"high","reviewer":null,"reviewed_at":null,"note":null}]},{"scheme":"doi","value":"10.7937/K9/TCIA.2015.AQIIDCNM","url":null,"is_primary":false,"evidence":[{"method":"fulltext","source_url":"https://api.imaging.datacommons.cancer.gov/v3/collections/ct_lymph_nodes","source_label":"IDC collection description","retrieved_at":"2026-09-18T02:44:36.389375Z","snippet":"of 90 patients and a total of 595 abdominal lymph nodes in 86 patients. Please see the CT Lymph Nodes wiki page to learn more about the images and to obtain supporting data from this collecti","locator":"accession extracted from description prose","confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Cross-repository link recovered from prose; verify before relying on it."}]}],"repository":{"name":"NCI Imaging Data Commons","short_name":"IDC","url":"https://portal.imaging.datacommons.cancer.gov","is_nci_crdc_node":true,"is_nih_repository":true},"additional_repositories":[],"program_name":"NCI Imaging Data Commons / The Cancer Imaging Archive","program_url":"https://imaging.datacommons.cancer.gov/","nci_program":"IDC","generating_institutions":[],"data_generation_funding_role":"unknown","version":null,"release_date":null,"last_upstream_update":null,"retrieved_at":"2026-09-18T02:44:36.389375Z","landing_page_url":"https://portal.imaging.datacommons.cancer.gov/explore/?collection_id=ct_lymph_nodes","cancer_types":[{"label":"Lymphadenopathy (non-cancer)","ontology":null,"code":null,"url":null}],"primary_sites":["Abdomen","Mediastinum"],"subject":{"scope":"non_cancer","tissues":[],"evidence":[{"method":"derived","source_url":null,"source_label":"cds.subjects","retrieved_at":null,"snippet":null,"locator":"cancer_types: Lymphadenopathy (non-cancer); primary_sites: Abdomen, Mediastinum","confidence":"medium","reviewer":null,"reviewed_at":null,"note":"The repository filed only non-cancer material."}]},"is_pediatric":null,"model_systems":[],"cohort":{"n_cases":176,"n_samples":null,"n_aliquots":null,"n_files":null,"total_bytes":null,"n_tumor_cases":null,"n_normal_cases":null,"has_matched_normal":null,"demographics":{"sex":{},"race":{},"ethnicity":{},"age_at_diagnosis_years":{},"vital_status":{},"country_or_region":{},"evidence":[]},"evidence":[{"method":"api","source_url":"https://api.imaging.datacommons.cancer.gov/v3/collections/ct_lymph_nodes","source_label":"IDC v3 API /collections","retrieved_at":"2026-09-18T02:44:36.389375Z","snippet":null,"locator":null,"confidence":"high","reviewer":null,"reviewed_at":null,"note":null}]},"assays":[{"modality":"radiology","label":"DICOM medical imaging","platform":null,"n_cases":176,"n_samples":null,"n_files":null,"data_levels":["DICOM series"],"access_tier":"open","evidence":[{"method":"api","source_url":"https://api.imaging.datacommons.cancer.gov/v3/collections/ct_lymph_nodes","source_label":"IDC v3 API /collections","retrieved_at":"2026-09-18T02:44:36.389375Z","snippet":null,"locator":null,"confidence":"high","reviewer":null,"reviewed_at":null,"note":null}]}],"clinical_variables":[],"longitudinal":{"has_followup":null,"has_survival_endpoint":null,"survival_endpoints":[],"median_followup_months":null,"max_followup_months":null,"n_cases_with_followup":null,"has_serial_samples":null,"timepoints":[],"n_cases_with_serial":null,"has_treatment_response":null,"response_criteria":[],"evidence":[]},"access":{"tier":"open","open_components":[],"controlled_components":[],"mechanism":"Public DICOM download from the IDC portal, its API, or the idc-index Python package; no account required for public collections.","dua_url":null,"data_access_committee":null,"typical_turnaround":null,"embargo_until":null,"login_required":false,"citation_requirement":"Cite the collection DOI and the IDC/TCIA data-citation guidance.","license":"Per-collection license, typically CC BY 3.0/4.0 or CC BY-NC","publication_policy_url":"https://www.cancerimagingarchive.net/data-usage-policies-and-restrictions/","evidence":[{"method":"api","source_url":"https://api.imaging.datacommons.cancer.gov/v3/collections/ct_lymph_nodes","source_label":"IDC v3 API /collections","retrieved_at":"2026-09-18T02:44:36.389375Z","snippet":null,"locator":null,"confidence":"high","reviewer":null,"reviewed_at":null,"note":null}]},"useful_for":[],"limitations":[{"kind":"missing_data","statement":"IDC serves no clinical table for this collection, so nothing about outcome, stage, treatment or demographics can be read from the repository. Any such variable would have to come from the originating trial or publication.","severity":"blocking","affected_analyses":["survival","treatment response","stage-adjusted modelling","analysis by race or ethnicity"],"mitigation":null,"evidence":[{"method":"api","source_url":"https://api.imaging.datacommons.cancer.gov/v3/clinical/tables","source_label":"IDC v3 API /clinical/tables","retrieved_at":"2026-09-19T03:20:46.830869Z","snippet":null,"locator":"collection_id=ct_lymph_nodes: no clinical table is served","confidence":"high","reviewer":null,"reviewed_at":null,"note":null}]}],"inappropriate_uses":[],"primary_publications":[],"reuse":[],"reuse_metrics":{"n_candidates_screened":0,"n_by_tier":{},"n_by_tier_raw":{},"accession_precision":null,"n_citations_to_primary_publication":null,"citation_to_reuse_ratio":null,"has_citable_accession":false,"n_verified_reuse":null,"n_reuse_examined":0,"n_independent_reuse":0,"n_nci_funded_reuse":0,"first_reuse_year":null,"latest_reuse_year":null,"years_since_release":null,"expected_reuse":null,"reuse_gap_index":null,"reuse_gap_percentile":null,"search_strategy_id":"epmc-index-v3","searched_at":"2026-09-20T18:07:48.535265Z","no_reuse_identified":false,"evidence":[{"method":"derived","source_url":null,"source_label":"reuse index","retrieved_at":"2026-09-20T18:07:48.535265Z","snippet":null,"locator":null,"confidence":"low","reviewer":null,"reviewed_at":null,"note":"This dataset has no accession specific enough to search for in the literature, so citation-based reuse cannot be measured. Absence of a count here is not evidence of absence of reuse."}]},"underexplored":{"is_underexplored":false,"basis":["Not assessed: this dataset has no accession specific enough for citation-based reuse tracing, so a shortfall cannot be measured."],"index_value":null,"percentile":null,"comparator_set":"rgi-huber-v2","evidence":[]},"grants":[],"access_steps":[{"order":1,"action":"Open the collection in the IDC portal","detail":"Browse the series before downloading; imaging collections can be very large.","url":"https://portal.imaging.datacommons.cancer.gov/explore/?collection_id=ct_lymph_nodes","requires":[],"est_time":"5 minutes","cli_snippet":null,"audience":"human","evidence":[{"method":"derived","source_url":"https://portal.imaging.datacommons.cancer.gov/explore/?collection_id=ct_lymph_nodes","source_label":"IDC access documentation","retrieved_at":"2026-09-21T12:30:59.432347Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":2,"action":"Read the collection's own licence","detail":"Per-collection license, typically CC BY 3.0/4.0 or CC BY-NC. IDC licences differ by collection.","url":"https://www.cancerimagingarchive.net/data-usage-policies-and-restrictions/","requires":[],"est_time":"5 minutes","cli_snippet":null,"audience":"human","evidence":[{"method":"derived","source_url":"https://www.cancerimagingarchive.net/data-usage-policies-and-restrictions/","source_label":"IDC access documentation","retrieved_at":"2026-09-21T12:30:59.432349Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":3,"action":"Download with idc-index","detail":"The package resolves the collection to its buckets and pulls selected data.","url":"https://github.com/ImagingDataCommons/idc-index","requires":[],"est_time":"hours for a full collection","cli_snippet":"pip install idc-index\npython - <<'PY'\nfrom idc_index import IDCClient\nIDCClient().download_from_selection(collection_id=\"ct_lymph_nodes\", downloadDir=\".\")\nPY","audience":"human","evidence":[{"method":"derived","source_url":"https://github.com/ImagingDataCommons/idc-index","source_label":"IDC access documentation","retrieved_at":"2026-09-21T12:30:59.432351Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":4,"action":"List the series before pulling pixels","detail":"List modality and size first so an agent can choose what to fetch.","url":"https://learn.canceridc.dev/","requires":[],"est_time":null,"cli_snippet":"python - <<'PY'\nfrom idc_index import IDCClient\ni = IDCClient().index\ns = i[i[\"collection_id\"] == \"ct_lymph_nodes\"]\nprint(len(s), \"series\", s[\"PatientID\"].nunique(), \"patients\",\n      round(s[\"series_size_MB\"].sum() / 1024, 1), \"GB\")\nprint(s[\"Modality\"].value_counts().to_dict())\nPY","audience":"agent","evidence":[{"method":"derived","source_url":"https://learn.canceridc.dev/","source_label":"IDC access documentation","retrieved_at":"2026-09-21T12:30:59.432353Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]}],"analysis_examples":[],"agent_package":{"json_url":"/data/datasets/idc-ct-lymph-nodes.json","jsonld_url":"/data/jsonld/idc-ct-lymph-nodes.jsonld","croissant_url":"/data/croissant/idc-ct-lymph-nodes.json","instructions_url":"/data/agent/idc-ct-lymph-nodes.md","bundle_url":null,"mcp_resource_uri":null},"related_dataset_ids":[],"related_underexplored_ids":[],"review":{"status":"machine_only","reviewer":null,"reviewer_affiliation":null,"reviewed_at":null,"sections_reviewed":[],"open_questions":[],"notes":null},"verification":{"last_verified_at":null,"link_checks":[],"n_links_ok":0,"n_links_broken":0,"upstream_version_seen":null,"upstream_version_changed":false,"upstream_counts_seen":{},"upstream_drift":{},"notes":[]},"is_showcase":false,"completeness_score":16.1,"tags":["idc","imaging"],"search_text":null}