algorithms.eod_public.1.1.schemas.colon_rectum.json Maven / Gradle / Ivy
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A cancer staging client library
{
"id" : "colon_rectum",
"algorithm" : "eod_public",
"version" : "1.1",
"name" : "Colon and Rectum",
"title" : "Colon and Rectum (excluding Appendix, Gastrointestinal Stromal Tumor, and Neuroendocrine Tumor)",
"notes" : "8000-8149, 8154, 8157, 8160-8231, 8243-8248, 8250-8682, 8690-8700, 8720-8790, 9700-9701 \n\nC180 Cecum\nC182 Ascending colon\nC183 Hepatic flexure of colon\nC184 Transverse colon\nC185 Splenic flexure of colon\nC186 Descending colon\nC187 Sigmoid colon\nC188 Overlapping lesion of colon\nC189 Colon, NOS\nC199 Rectosigmoid junction\nC209 Rectum, NOS\n\n**Note 1:** The following sources were used in the development of this schema\n* SEER Extent of Disease 1988: Codes and Coding Instructions (3rd Edition, 1998) (https://seer.cancer.gov/archive/manuals/EOD10Dig.3rd.pdf)\n* SEER Summary Staging Manual-2000: Codes and Coding Instructions (https://seer.cancer.gov/tools/ssm/)\n* Collaborative Stage Data Collection System, version 02.05: https://cancerstaging.org/cstage/Pages/default.aspx \n* Chapter 20 *Colon and Rectum*, in the AJCC Cancer Staging Manual, Eighth Edition (2017) published by Springer International Publishing. Used with permission of the American College of Surgeons, Chicago, Illinois.\n\n**Note 2:** See the following schemas for the listed histologies \n* 8150-8153, 8155-8156, 8158, 8240-8242, 8249, 8683: *NET Colon and Rectum*\n* 8710-8714, 8800-8803, 8810-8921, 8932-8934, 8940-8990, 9000-9016, 9030-9043, 9045-9137, 9141-9230, 9240-9580, 9582: *Soft Tissue Abdomen and Thoracic*\n* 8804-8806, 8930-8931, 8991, 9020, 9044, 9231, 9581: *Soft Tissue Other*\n* 8935-8936: *GIST*\n* 9140: *Kaposi Sarcoma*",
"schema_selection_table" : "schema_selection_colon",
"inputs" : [ {
"key" : "year_dx",
"name" : "Year of Diagnosis",
"naaccr_item" : 390,
"table" : "year_dx_validation",
"used_for_staging" : false
}, {
"key" : "site",
"name" : "Primary Site",
"naaccr_item" : 400,
"table" : "primary_site",
"used_for_staging" : true
}, {
"key" : "hist",
"name" : "Histology",
"naaccr_item" : 522,
"table" : "histology",
"used_for_staging" : true
}, {
"key" : "size_clin",
"name" : "Tumor Size Clinical",
"naaccr_item" : 752,
"table" : "tumor_size_clinical_60979",
"used_for_staging" : false
}, {
"key" : "size_path",
"name" : "Tumor Size Pathological",
"naaccr_item" : 754,
"table" : "tumor_size_pathological_25597",
"used_for_staging" : false
}, {
"key" : "size_summary",
"name" : "Tumor Size Summary",
"naaccr_item" : 756,
"default" : "999",
"table" : "tumor_size_summary_63115",
"used_for_staging" : false
}, {
"key" : "nodes_pos",
"name" : "Regional Nodes Positive",
"naaccr_item" : 820,
"default" : "99",
"table" : "nodes_pos_fpa",
"used_for_staging" : true
}, {
"key" : "nodes_exam",
"name" : "Regional Nodes Examined",
"naaccr_item" : 830,
"default" : "99",
"table" : "nodes_exam_76029",
"used_for_staging" : false
}, {
"key" : "radiation_surg_seq",
"name" : "RX Summ Surgery/Radiation Sequence",
"naaccr_item" : 1380,
"table" : "radiation_surg_seq",
"used_for_staging" : false
}, {
"key" : "systemic_surg_seq",
"name" : "RX Summ Systemic/Surgery Sequence",
"naaccr_item" : 1639,
"table" : "systemic_surg_seq",
"used_for_staging" : false
}, {
"key" : "eod_primary_tumor",
"name" : "EOD Primary Tumor",
"naaccr_item" : 772,
"default" : "999",
"table" : "extension_bao",
"used_for_staging" : true
}, {
"key" : "eod_regional_nodes",
"name" : "EOD Regional Nodes",
"naaccr_item" : 774,
"default" : "999",
"table" : "nodes_dan",
"used_for_staging" : true
}, {
"key" : "eod_mets",
"name" : "EOD Mets",
"naaccr_item" : 776,
"default" : "00",
"table" : "mets_hae",
"used_for_staging" : true
}, {
"key" : "ss2018",
"name" : "SS2018",
"naaccr_item" : 764,
"table" : "ss2018_colon_and_rectum_including_net_40538",
"used_for_staging" : false
}, {
"key" : "grade_clin",
"name" : "Grade Clinical",
"naaccr_item" : 3843,
"default" : "9",
"table" : "grade_clinical_73056",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "NPCR_REQUIRED", "SSDI", "CCCR_REQUIRED", "SEER_REQUIRED" ]
}, {
"key" : "grade_path",
"name" : "Grade Pathological",
"naaccr_item" : 3844,
"default" : "9",
"table" : "grade_pathological_31963",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "NPCR_REQUIRED", "SSDI", "CCCR_REQUIRED", "SEER_REQUIRED" ]
}, {
"key" : "grade_post_therapy",
"name" : "Grade Post Therapy",
"naaccr_item" : 3845,
"table" : "grade_post_therapy_6526",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "NPCR_REQUIRED", "SSDI", "CCCR_REQUIRED", "SEER_REQUIRED" ]
}, {
"key" : "cea_pretx_lab_value",
"name" : "CEA PreTX Lab Value",
"naaccr_item" : 3820,
"default" : "XXXX.8",
"table" : "cea_pretx_lab_value_33864",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "SSDI", "SEER_REQUIRED" ]
}, {
"key" : "cea_pretx_interpretation",
"name" : "CEA PreTX Interpretation",
"naaccr_item" : 3819,
"default" : "8",
"table" : "cea_pretx_interpretation_99474",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "SSDI", "CCCR_REQUIRED", "SEER_REQUIRED" ]
}, {
"key" : "tumor_deposits",
"name" : "Tumor Deposits",
"naaccr_item" : 3934,
"default" : "X8",
"table" : "tumor_deposits_40070",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "SSDI", "SEER_REQUIRED" ]
}, {
"key" : "perineural_invasion",
"name" : "Perineural Invasion",
"naaccr_item" : 3909,
"default" : "8",
"table" : "perineural_invasion_24604",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "SSDI", "SEER_REQUIRED" ]
}, {
"key" : "crm",
"name" : "Circumferential Resection Margin",
"naaccr_item" : 3823,
"default" : "XX.8",
"table" : "circumferential_resection_margin_77909",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "SSDI", "CCCR_REQUIRED", "SEER_REQUIRED" ]
}, {
"key" : "kras",
"name" : "KRAS",
"naaccr_item" : 3866,
"default" : "8",
"table" : "kras_79447",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "SSDI", "SEER_REQUIRED" ]
}, {
"key" : "msi",
"name" : "Microsatellite Instability (MSI)",
"naaccr_item" : 3890,
"default" : "8",
"table" : "microsatellite_instability_7008",
"used_for_staging" : false,
"metadata" : [ "COC_REQUIRED", "NPCR_REQUIRED", "SSDI", "CCCR_REQUIRED", "SEER_REQUIRED" ]
} ],
"outputs" : [ {
"key" : "naaccr_schema_id",
"name" : "Schema ID",
"naaccr_item" : 3800,
"default" : "00200"
}, {
"key" : "ajcc_id",
"name" : "AJCC ID",
"naaccr_item" : 995,
"default" : "XX"
}, {
"key" : "derived_version",
"name" : "Derived Version",
"default" : "{{ctx_alg_version}}"
}, {
"key" : "eod_2018_t",
"name" : "Derived EOD 2018 T",
"naaccr_item" : 785,
"default" : "88"
}, {
"key" : "eod_2018_n",
"name" : "Derived EOD 2018 N",
"naaccr_item" : 815,
"default" : "88"
}, {
"key" : "eod_2018_m",
"name" : "Derived EOD 2018 M",
"naaccr_item" : 795,
"default" : "88"
}, {
"key" : "eod_2018_stage_group",
"name" : "Derived EOD 2018 Stage Group",
"naaccr_item" : 818,
"default" : "88"
}, {
"key" : "ss2018_derived",
"name" : "Derived Summary Stage 2018",
"naaccr_item" : 762,
"default" : "9"
} ],
"mappings" : [ {
"id" : "ajcc_chapter_calculation",
"name" : "AJCC Chapter Calculation",
"tables" : [ {
"id" : "ajcc_chapter_calculation_21765",
"inputs" : [ "hist" ],
"outputs" : [ "ajcc_id" ]
} ]
}, {
"id" : "summary_stage_2018",
"name" : "Summary Stage 2018",
"initial_context" : [ {
"key" : "eod_2018_t",
"value" : "90"
}, {
"key" : "eod_2018_n",
"value" : "90"
}, {
"key" : "eod_2018_m",
"value" : "90"
} ],
"tables" : [ {
"id" : "extension_bao",
"inputs" : [ "eod_primary_tumor" ],
"outputs" : [ "eod_2018_t", "ss2018_t" ]
}, {
"id" : "nodes_dan",
"inputs" : [ "nodes_pos", "eod_regional_nodes" ],
"outputs" : [ "eod_2018_n", "ss2018_n" ]
}, {
"id" : "mets_hae",
"inputs" : [ "eod_mets" ],
"outputs" : [ "eod_2018_m", "ss2018_m" ]
}, {
"id" : "summary_stage_rpa",
"inputs" : [ "ss2018_m", "ss2018_n", "ss2018_t" ],
"outputs" : [ "ss2018_derived" ]
} ]
}, {
"id" : "eod_2018_stage_group",
"name" : "EOD 2018 Stage Group",
"inclusion_tables" : [ {
"id" : "tnm8_inclusions_94807",
"inputs" : [ "ajcc_id" ]
} ],
"initial_context" : [ {
"key" : "eod_2018_stage_group",
"value" : "90"
} ],
"tables" : [ {
"id" : "parse_t_2177",
"input_mapping" : [ {
"from" : "eod_2018_t",
"to" : "t"
} ],
"output_mapping" : [ {
"from" : "root_t",
"to" : "tmp_eod_t"
} ],
"inputs" : [ "eod_2018_t" ],
"outputs" : [ "t_prefix", "tmp_eod_t" ]
}, {
"id" : "parse_n_67182",
"input_mapping" : [ {
"from" : "eod_2018_n",
"to" : "n"
} ],
"output_mapping" : [ {
"from" : "root_n",
"to" : "tmp_eod_n"
} ],
"inputs" : [ "eod_2018_n" ],
"outputs" : [ "n_prefix", "tmp_eod_n" ]
}, {
"id" : "parse_m_47057",
"input_mapping" : [ {
"from" : "eod_2018_m",
"to" : "m"
} ],
"output_mapping" : [ {
"from" : "root_m",
"to" : "tmp_eod_m"
} ],
"inputs" : [ "eod_2018_m" ],
"outputs" : [ "m_prefix", "tmp_eod_m" ]
}, {
"id" : "tnm8_path_stage_upw",
"input_mapping" : [ {
"from" : "tmp_eod_n",
"to" : "n"
}, {
"from" : "tmp_eod_m",
"to" : "m"
}, {
"from" : "tmp_eod_t",
"to" : "t"
} ],
"output_mapping" : [ {
"from" : "stage",
"to" : "eod_2018_stage_group"
} ],
"inputs" : [ "tmp_eod_n", "tmp_eod_m", "tmp_eod_t" ],
"outputs" : [ "eod_2018_stage_group" ]
} ]
}, {
"id" : "eod_tnm_cleanup",
"name" : "EOD TNM Cleanup",
"exclusion_tables" : [ {
"id" : "tnm8_inclusions_94807",
"inputs" : [ "ajcc_id" ]
} ],
"tables" : [ {
"id" : "eod_tnm_component_cleanup_58170",
"inputs" : [ "ajcc_id" ],
"outputs" : [ "eod_2018_n", "eod_2018_m", "eod_2018_t", "eod_2018_stage_group" ]
} ]
} ],
"involved_tables" : [ "radiation_surg_seq", "kras_79447", "ss2018_colon_and_rectum_including_net_40538", "grade_pathological_31963", "nodes_pos_fpa", "tnm8_inclusions_94807", "parse_t_2177", "mets_hae", "grade_post_therapy_6526", "parse_n_67182", "tumor_deposits_40070", "histology", "nodes_exam_76029", "schema_selection_colon", "nodes_dan", "tumor_size_summary_63115", "circumferential_resection_margin_77909", "perineural_invasion_24604", "tnm8_path_stage_upw", "extension_bao", "cea_pretx_lab_value_33864", "tumor_size_pathological_25597", "systemic_surg_seq", "tumor_size_clinical_60979", "cea_pretx_interpretation_99474", "parse_m_47057", "primary_site", "rn_positive_with_regional_nodes_for_ajcc_n_45992", "microsatellite_instability_7008", "eod_tnm_component_cleanup_58170", "year_dx_validation", "grade_clinical_73056", "summary_stage_rpa", "ajcc_chapter_calculation_21765" ],
"on_invalid_input" : "CONTINUE",
"last_modified" : "2018-04-19T21:52:46.170Z"
}