-- DBMS: bigquery
CREATE TABLE `isb-cgc-bq.HTAN_versioned.massSpectrometry_level3_metadata_r4`
(
  entityId STRING OPTIONS(description="Synapse ID of entity"),
  MS_Assay_Category STRING OPTIONS(description="Type of Mass Spectrometry performed."),
  HTAN_Data_File_ID STRING OPTIONS(description="Self-identifier for this data file - HTAN ID of this file HTAN ID SOP (eg HTANx_yyy_zzz)"),
  Id STRING OPTIONS(description="Unique identifier of entity e.g. a96059eb-81af-4b24-ae50-9242c0d8f819"),
  Software_and_Version STRING OPTIONS(description="Name of software used to generate expression values. String"),
  HTAN_Parent_Biospecimen_ID STRING OPTIONS(description="HTAN Biospecimen Identifier (eg HTANx_yyy_zzz) indicating the biospecimen(s) from which these files were derived; multiple parent biospecimen should be comma-separated"),
  Component STRING OPTIONS(description="Category of metadata (e.g. Diagnosis, Biospecimen, scRNA-seq Level 1, etc.); provide the same one for all items/rows."),
  Mass_Spectrometry_Auxiliary_File STRING OPTIONS(description="Auxiliary software parameter file used in mass spectrometry data processing, recorded as synapse ID (syn12345)."),
  File_Format STRING OPTIONS(description="Format of a file (e.g. txt, csv, fastq, bam, etc.)"),
  Filename STRING OPTIONS(description="Name of a file"),
  HTAN_Parent_Data_File_ID STRING OPTIONS(description="HTAN Data File Identifier indicating the file(s) from which these files were derived"),
  HTAN_Center STRING OPTIONS(description="Name of HTAN Center e.g. HTAN HTAPP"),
  Manifest_Id STRING OPTIONS(description="Synapse ID of manifest containing file annotation"),
  Manifest_Version INT64 OPTIONS(description="Latest version of metadata manifest"),
  File_Size INT64 OPTIONS(description="Size of file (bucket object) in bytes"),
  md5 STRING OPTIONS(description="md5 hash of file"),
  Data_Release STRING OPTIONS(description="Inclusion in HTAN Data Release e.g. Release 1.0"),
  CDS_Release STRING OPTIONS(description="CDS transfer package in which file was included e.g. v22.6.1.seq")
)
OPTIONS(
  friendly_name="HTAN MASS SPECTROMETRY LEVEL 3 METADATA R4 VERSIONED",
  description="This table contains the file metadata for the third level of Mass Spectrometry. Data was extracted from HTAN Synapse projects in October 2023. More details: see https://humantumoratlas.org/standards",
  labels=[("access", "open"), ("data_type", "file_metadata"), ("program", "htan"), ("source", "htan"), ("category", "metadata"), ("status", "current")]
);

INSERT INTO `isb-cgc-bq.HTAN_versioned.massSpectrometry_level3_metadata_r4` (entityId, MS_Assay_Category, HTAN_Data_File_ID, Id, Software_and_Version, HTAN_Parent_Biospecimen_ID, Component, Mass_Spectrometry_Auxiliary_File, File_Format, Filename, HTAN_Parent_Data_File_ID, HTAN_Center, Manifest_Id, Manifest_Version, File_Size, md5, Data_Release, CDS_Release) VALUES ('syn23879777', 'proteomics TMT', 'HTA10_0000_06337', '09663275-5e7c-4094-9599-74e7f1867e7f', 'Proteome Discoverer 2.5', 'HTA10_01_004,HTA10_01_005,HTA10_01_021,HTA10_01_102,HTA10_01_107,HTA10_01_122,HTA10_01_124,HTA10_01_210,HTA10_01_214,HTA10_01_219,HTA10_01_222,HTA10_02_010,HTA10_02_016,HTA10_02_019,HTA10_02_021,HTA10_02_023,HTA10_02_024,HTA10_02_025,HTA10_02_103,HTA10_02_107,HTA10_02_116,HTA10_02_121,HTA10_02_122,HTA10_02_123,HTA10_02_201,HTA10_02_202,HTA10_02_203,HTA10_02_204,HTA10_02_207,HTA10_02_209,HTA10_02_211,HTA10_02_212,HTA10_02_213,HTA10_03_001,HTA10_03_052,HTA10_03_055,HTA10_03_114,HTA10_03_201,HTA10_04_002,HTA10_04_008,HTA10_04_010,HTA10_04_102,HTA10_04_109,HTA10_04_206,HTA10_05_002,HTA10_05_004,HTA10_05_007,HTA10_05_008,HTA10_05_025,HTA10_05_027,HTA10_05_037,HTA10_05_038,HTA10_05_039,HTA10_05_040,HTA10_05_046,HTA10_05_053,HTA10_05_061,HTA10_05_063,HTA10_05_065,HTA10_05_072,HTA10_05_073,HTA10_05_074,HTA10_05_076,HTA10_05_105,HTA10_05_088,HTA10_05_092,HTA10_05_095,HTA10_05_098,HTA10_05_103,HTA10_05_104,HTA10_06_105,HTA10_06_002,HTA10_06_004,HTA10_06_005,HTA10_06_024,HTA10_06_025,HTA10_06_032,HTA10_06_043,HTA10_06_044,HTA10_06_045,HTA10_06_049,HTA10_06_051,HTA10_06_055,HTA10_06_061,HTA10_06_062,HTA10_06_065,HTA10_06_107,HTA10_06_110,HTA10_07_001,HTA10_07_006,HTA10_07_101,HTA10_07_201,HTA10_04_001', 'MassSpectrometryLevel3', 'DatabaseSearchParameters.docx', 'txt', 'proteomics/search-results/replicate01/Lumos1_FAP2_C1S1_HDR_091120_Fr_PeptideGroups.txt', 'HTA10_0000_06001,HTA10_0000_06002,HTA10_0000_06003,HTA10_0000_06004,HTA10_0000_06005,HTA10_0000_06006,HTA10_0000_06007,HTA10_0000_06008,HTA10_0000_06009,HTA10_0000_06010,HTA10_0000_06011,HTA10_0000_06012', 'HTAN Stanford', 'syn51732852', 2, 22224778, '77989c47f18e65bc8f9998a5da8cc514', 'Release 1.0', NULL), ('syn23879787', 'proteomics TMT', 'HTA10_0000_06339', 'd404525d-e9cb-4219-9d5f-177703595933', 'Proteome Discoverer 2.5', 'HTA10_01_004,HTA10_01_005,HTA10_01_021,HTA10_01_102,HTA10_01_107,HTA10_01_122,HTA10_01_124,HTA10_01_210,HTA10_01_214,HTA10_01_219,HTA10_01_222,HTA10_02_010,HTA10_02_016,HTA10_02_019,HTA10_02_021,HTA10_02_023,HTA10_02_024,HTA10_02_025,HTA10_02_103,HTA10_02_107,HTA10_02_116,HTA10_02_121,HTA10_02_122,HTA10_02_123,HTA10_02_201,HTA10_02_202,HTA10_02_203,HTA10_02_204,HTA10_02_207,HTA10_02_209,HTA10_02_211,HTA10_02_212,HTA10_02_213,HTA10_03_001,HTA10_03_052,HTA10_03_055,HTA10_03_114,HTA10_03_201,HTA10_04_002,HTA10_04_008,HTA10_04_010,HTA10_04_102,HTA10_04_109,HTA10_04_206,HTA10_05_002,HTA10_05_004,HTA10_05_007,HTA10_05_008,HTA10_05_025,HTA10_05_027,HTA10_05_037,HTA10_05_038,HTA10_05_039,HTA10_05_040,HTA10_05_046,HTA10_05_053,HTA10_05_061,HTA10_05_063,HTA10_05_065,HTA10_05_072,HTA10_05_073,HTA10_05_074,HTA10_05_076,HTA10_05_105,HTA10_05_088,HTA10_05_092,HTA10_05_095,HTA10_05_098,HTA10_05_103,HTA10_05_104,HTA10_06_105,HTA10_06_002,HTA10_06_004,HTA10_06_005,HTA10_06_024,HTA10_06_025,HTA10_06_032,HTA10_06_043,HTA10_06_044,HTA10_06_045,HTA10_06_049,HTA10_06_051,HTA10_06_055,HTA10_06_061,HTA10_06_062,HTA10_06_065,HTA10_06_107,HTA10_06_110,HTA10_07_001,HTA10_07_006,HTA10_07_101,HTA10_07_201,HTA10_04_001', 'MassSpectrometryLevel3', 'DatabaseSearchParameters.docx', 'txt', 'proteomics/search-results/replicate01/Lumos1_FAP2_C1S2_HDR_091320_Fr_PeptideGroups.txt', 'HTA10_0000_06013,HTA10_0000_06014,HTA10_0000_06015,HTA10_0000_06016,HTA10_0000_06017,HTA10_0000_06018,HTA10_0000_06019,HTA10_0000_06020,HTA10_0000_06021,HTA10_0000_06022,HTA10_0000_06023,HTA10_0000_06024', 'HTAN Stanford', 'syn51732852', 2, 24220576, '764a95e78a4c09437952502d4938c194', 'Release 1.0', NULL), ('syn25002163', 'proteomics TMT', 'HTA10_0000_06341', '968c5492-fe33-4990-8a7c-c823ba40e7eb', 'Proteome Discoverer 2.5', 'HTA10_01_004,HTA10_01_005,HTA10_01_021,HTA10_01_102,HTA10_01_107,HTA10_01_122,HTA10_01_124,HTA10_01_210,HTA10_01_214,HTA10_01_219,HTA10_01_222,HTA10_02_010,HTA10_02_016,HTA10_02_019,HTA10_02_021,HTA10_02_023,HTA10_02_024,HTA10_02_025,HTA10_02_103,HTA10_02_107,HTA10_02_116,HTA10_02_121,HTA10_02_122,HTA10_02_123,HTA10_02_201,HTA10_02_202,HTA10_02_203,HTA10_02_204,HTA10_02_207,HTA10_02_209,HTA10_02_211,HTA10_02_212,HTA10_02_213,HTA10_03_001,HTA10_03_052,HTA10_03_055,HTA10_03_114,HTA10_03_201,HTA10_04_002,HTA10_04_008,HTA10_04_010,HTA10_04_102,HTA10_04_109,HTA10_04_206,HTA10_05_002,HTA10_05_004,HTA10_05_007,HTA10_05_008,HTA10_05_025,HTA10_05_027,HTA10_05_037,HTA10_05_038,HTA10_05_039,HTA10_05_040,HTA10_05_046,HTA10_05_053,HTA10_05_061,HTA10_05_063,HTA10_05_065,HTA10_05_072,HTA10_05_073,HTA10_05_074,HTA10_05_076,HTA10_05_105,HTA10_05_088,HTA10_05_092,HTA10_05_095,HTA10_05_098,HTA10_05_103,HTA10_05_104,HTA10_06_105,HTA10_06_002,HTA10_06_004,HTA10_06_005,HTA10_06_024,HTA10_06_025,HTA10_06_032,HTA10_06_043,HTA10_06_044,HTA10_06_045,HTA10_06_049,HTA10_06_051,HTA10_06_055,HTA10_06_061,HTA10_06_062,HTA10_06_065,HTA10_06_107,HTA10_06_110,HTA10_07_001,HTA10_07_006,HTA10_07_101,HTA10_07_201,HTA10_04_001', 'MassSpectrometryLevel3', 'DatabaseSearchParameters.docx', 'txt', 'proteomics/search-results/replicate01/Lumos1_FAP2_C1S3_HDR_091520_Fr_PeptideGroups.txt', 'HTA10_0000_06025,HTA10_0000_06026,HTA10_0000_06027,HTA10_0000_06028,HTA10_0000_06029,HTA10_0000_06030,HTA10_0000_06031,HTA10_0000_06032,HTA10_0000_06033,HTA10_0000_06034,HTA10_0000_06035,HTA10_0000_06036', 'HTAN Stanford', 'syn51732852', 2, 21743639, 'b1ad350eb6aedf21eb5d3d80f7d12c4f', 'Release 1.0', NULL), ('syn25002164', 'proteomics TMT', 'HTA10_0000_06343', 'e658b20a-38b0-4f94-a02b-7039b8349b6e', 'Proteome Discoverer 2.5', 'HTA10_01_004,HTA10_01_005,HTA10_01_021,HTA10_01_102,HTA10_01_107,HTA10_01_122,HTA10_01_124,HTA10_01_210,HTA10_01_214,HTA10_01_219,HTA10_01_222,HTA10_02_010,HTA10_02_016,HTA10_02_019,HTA10_02_021,HTA10_02_023,HTA10_02_024,HTA10_02_025,HTA10_02_103,HTA10_02_107,HTA10_02_116,HTA10_02_121,HTA10_02_122,HTA10_02_123,HTA10_02_201,HTA10_02_202,HTA10_02_203,HTA10_02_204,HTA10_02_207,HTA10_02_209,HTA10_02_211,HTA10_02_212,HTA10_02_213,HTA10_03_001,HTA10_03_052,HTA10_03_055,HTA10_03_114,HTA10_03_201,HTA10_04_002,HTA10_04_008,HTA10_04_010,HTA10_04_102,HTA10_04_109,HTA10_04_206,HTA10_05_002,HTA10_05_004,HTA10_05_007,HTA10_05_008,HTA10_05_025,HTA10_05_027,HTA10_05_037,HTA10_05_038,HTA10_05_039,HTA10_05_040,HTA10_05_046,HTA10_05_053,HTA10_05_061,HTA10_05_063,HTA10_05_065,HTA10_05_072,HTA10_05_073,HTA10_05_074,HTA10_05_076,HTA10_05_105,HTA10_05_088,HTA10_05_092,HTA10_05_095,HTA10_05_098,HTA10_05_103,HTA10_05_104,HTA10_06_105,HTA10_06_002,HTA10_06_004,HTA10_06_005,HTA10_06_024,HTA10_06_025,HTA10_06_032,HTA10_06_043,HTA10_06_044,HTA10_06_045,HTA10_06_049,HTA10_06_051,HTA10_06_055,HTA10_06_061,HTA10_06_062,HTA10_06_065,HTA10_06_107,HTA10_06_110,HTA10_07_001,HTA10_07_006,HTA10_07_101,HTA10_07_201,HTA10_04_001', 'MassSpectrometryLevel3', 'DatabaseSearchParameters.docx', 'txt', 'proteomics/search-results/replicate01/Lumos1_FAP2_C1S4_HDR_091820_Fr_PeptideGroups.txt', 'HTA10_0000_06037,HTA10_0000_06038,HTA10_0000_06039,HTA10_0000_06040,HTA10_0000_06041,HTA10_0000_06042,HTA10_0000_06043,HTA10_0000_06044,HTA10_0000_06045,HTA10_0000_06046,HTA10_0000_06047,HTA10_0000_06048', 'HTAN Stanford', 'syn51732852', 2, 20435958, 'efb793ff857a451ed4f18c4d284f4eff', 'Release 1.0', NULL), ('syn25002162', 'proteomics TMT', 'HTA10_0000_06345', '1bd4ac58-8f38-4ef4-a8e9-2d590158dde3', 'Proteome Discoverer 2.5', 'HTA10_01_004,HTA10_01_005,HTA10_01_021,HTA10_01_102,HTA10_01_107,HTA10_01_122,HTA10_01_124,HTA10_01_210,HTA10_01_214,HTA10_01_219,HTA10_01_222,HTA10_02_010,HTA10_02_016,HTA10_02_019,HTA10_02_021,HTA10_02_023,HTA10_02_024,HTA10_02_025,HTA10_02_103,HTA10_02_107,HTA10_02_116,HTA10_02_121,HTA10_02_122,HTA10_02_123,HTA10_02_201,HTA10_02_202,HTA10_02_203,HTA10_02_204,HTA10_02_207,HTA10_02_209,HTA10_02_211,HTA10_02_212,HTA10_02_213,HTA10_03_001,HTA10_03_052,HTA10_03_055,HTA10_03_114,HTA10_03_201,HTA10_04_002,HTA10_04_008,HTA10_04_010,HTA10_04_102,HTA10_04_109,HTA10_04_206,HTA10_05_002,HTA10_05_004,HTA10_05_007,HTA10_05_008,HTA10_05_025,HTA10_05_027,HTA10_05_037,HTA10_05_038,HTA10_05_039,HTA10_05_040,HTA10_05_046,HTA10_05_053,HTA10_05_061,HTA10_05_063,HTA10_05_065,HTA10_05_072,HTA10_05_073,HTA10_05_074,HTA10_05_076,HTA10_05_105,HTA10_05_088,HTA10_05_092,HTA10_05_095,HTA10_05_098,HTA10_05_103,HTA10_05_104,HTA10_06_105,HTA10_06_002,HTA10_06_004,HTA10_06_005,HTA10_06_024,HTA10_06_025,HTA10_06_032,HTA10_06_043,HTA10_06_044,HTA10_06_045,HTA10_06_049,HTA10_06_051,HTA10_06_055,HTA10_06_061,HTA10_06_062,HTA10_06_065,HTA10_06_107,HTA10_06_110,HTA10_07_001,HTA10_07_006,HTA10_07_101,HTA10_07_201,HTA10_04_001', 'MassSpectrometryLevel3', 'DatabaseSearchParameters.docx', 'txt', 'proteomics/search-results/replicate01/Lumos1_FAP2_C1S5_HDR_092120_Fr_PeptideGroups.txt', 'HTA10_0000_06049,HTA10_0000_06050,HTA10_0000_06051,HTA10_0000_06052,HTA10_0000_06053,HTA10_0000_06054,HTA10_0000_06055,HTA10_0000_06056,HTA10_0000_06057,HTA10_0000_06058,HTA10_0000_06059,HTA10_0000_06060', 'HTAN Stanford', 'syn51732852', 2, 17204483, '385ca5ab46907643de5585aa72b636ce', 'Release 1.0', NULL);