ExperimentMethod¶

Description¶

The Experiment Method captures technical metadata describing the parameters used to generate output from the Sample.

Fields¶

name¶

description : A short name identifying this Experiment Method.
required : True
data type : string

description¶

description : A short description of this Experiment Method.
required : True
data type : string

type¶

description : The type associated with this Experiment Method.
required : True
data type : string

library_type¶

description : Describe the level of omics analysis (e.g., WGS, ATAC).
required : True
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`WGS`	`Whole genome sequencing library`
`WXS`	`Whole exome sequencing library`
`WCS`	`Whole chromosome sequencing library`
`TOTAL_RNA`	`Total RNA sequencing library`
`M_RNA`	`mRNA sequencing library`
`MI_RNA`	`miRNA sequencing library`
`NC_RNA`	`ncRNA sequencing library`
`ATAC`	`ATAC sequencing library`
`METHYLATION`	`Methylation library`
`CHROMOSOME_CONFORMATION_CAPTURE`	`Chromosome conformation capture library`
`CHIP_SEQ`	`A combination of chromatin immunoprecipitation with DNA sequencing.`
`OTHER`	`A library type not captured by the above vocabulary.`

library_selection_methods¶

description : One or more methods used to select for or against, enrich, or screen the material being sequenced (e.g., random, PCA, cDNA).
required : True
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`5_METHYLCYTIDINE_ANTIBODY_METHOD`	`Selection of methylated DNA fragments using an antibody raised against 5-methylcytosine or 5-methylcytidine (m5C).`
`CAGE_METHOD`	`Cap-analysis gene expression.`
`C_DNA_METHOD`	`PolyA selection or enrichment for messenger RNA (mRNA). complementary DNA.`
`CF_H_METHOD`	`Cot-filtered highly repetitive genomic DNA.`
`CF_M_METHOD`	`Cot-filtered moderately repetitive genomic DNA.`
`CF_S_METHOD`	`Cot-filtered single/low-copy genomic DNA.`
`CF_T_METHOD`	`Cot-filtered theoretical single-copy genomic DNA.`
`CHIP_SEQ_METHOD`	`Chromatin immunoprecipitation.`
`D_NASE_METHOD`	`Deoxyribonuclease (MNase) digestion.`
`HMPR_METHOD`	`Hypo-methylated partial restriction digest.`
`HYBRID_SELECTION_METHOD`	`Selection by hybridization in array or solution.`
`MBD2_PROTEIN_METHYL_CP_G_BINDING_DOMAIN_METHOD`	`Enrichment by methyl-CpG binding domain.`
`MF_METHOD`	`Methyl Filtrated`
`M_NASE_METHOD`	`Micrococcal Nuclease (MNase) digestion.`
`MSLL_METHOD`	`Methylation Spanning Linking Library.`
`PCR_METHOD`	`Source material was selected by designed primers.`
`RACE_METHOD`	`Rapid Amplification of cDNA Ends.`
`RANDOM_PCR_METHOD`	`Source material was selected by randomly generated primers.`
`RANDOM_METHOD`	`Random selection by shearing or other method.`
`RT_PCR_METHOD`	`Source material was selected by reverse transcription PCR.`
`REDUCED_REPRESENTATION_METHOD`	`Reproducible genomic subsets, often generated by restriction fragment size selection, containing a manageable number of loci to facilitate re-sampling.`
`RESTRICTION_DIGEST_METHOD`	`DNA fractionation using restriction enzymes.`
`SIZE_FRACTIONATION_METHOD`	`Physical selection of size appropriate targets.`
`UNSPECIFIED`	`The library selection cannot be specified.`
`OTHER`	`Other library enrichment, screening, or selection process.`

library_preparation¶

description : The general method for preparation of the sequencing library (e.g., KAPA PCR-free).
required : True
data type : string

library_preparation_kit_retail_name¶

description : The retail name for the kit used to construct a genomic library. This may include the vendor name, kit name and kit version (e.g., Agilent sure select Human Exome V8, Twist RefSeq Exome).
required : False
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`10X_GENOMICS_CHROMIUM_SINGLE_CELL_3_V2`	`10X Genomics Chromium Single Cell 3' v2 Reagent Kit`
`10X_GENOMICS_CHROMIUM_SINGLE_CELL_3_V3`	`10X Genomics Chromium Single Cell 3' v3 Reagent Kit`
`ACCEL_NGS_2_S_PLUS_DNA_LIBRARY_KIT`	`Accel-NGS 2S Plus DNA Library Kit`
`ACCEL_NGS_METHYL_SEQ_DNA`	`Accel-NGS Methyl-Seq DNA Library Kit`
`AGILENT_STRAND_SPECIFIC_RNA`	`Agilent SureSelect Strand Specific RNA Library Preparation Kit`
`AGILENT_SURE_SELECT_CUSTOM_ENRICHMENT_KIT`	`Agilent SureSelect Target Enrichment System`
`AGILENT_SURE_SELECT_V3`	`Agilent SureSelect Human All Exon V3`
`AGILENT_SURE_SELECT_V4`	`Agilent SureSelect Human All Exon V4`
`AGILENT_SURE_SELECT_V4_UTRS`	`Agilent SureSelect Human All Exon V4 + UTRs`
`AGILENT_SURE_SELECT_V5`	`Agilent SureSelect Human All Exon V5`
`AGILENT_SURE_SELECT_V5_UTRS`	`Agilent SureSelect Human All Exon V5 + UTRs`
`AGILENT_SURE_SELECT_V6`	`Agilent SureSelect Human All Exon V6`
`AGILENT_SURE_SELECT_V6_UTRS`	`Agilent SureSelect Human All Exon V6 + UTRs`
`AGILENT_SURE_SELECT_V6_PLUS_ONE`	`Agilent SureSelect XT Human All Exon V6 Plus 1`
`AGILENT_SURE_SELECT_V6_PLUS_TWO`	`Agilent SureSelect XT Human All Exon V6 Plus 2`
`AGILENT_SURE_SELECT_V8`	`Agilent SureSelect XT HS Human All Exon V8`
`AGILENT_SURE_SELECT_V8_UTRS`	`Agilent SureSelect XT HS Human All Exon V8 + UTRs`
`AGILENT_SURE_SELECT_V8_NCV`	`Agilent SureSelect XT HS Human All Exon V8 + NCV`
`AGILENT_SURE_SELECT_QXT_WGS`	`Agilent SureSelectQXT Library Prep for WGS`
`AGILENT_SURE_SELECT_XT_HS_HUMAN_ALL_EXON_V7`	`Agilent SureSelect CT HS and Low Input Human All Exon V7`
`AGILENT_SURE_SELECT_XT_HS_HUMAN_ALL_EXON_V7_ONE`	`Agilent SureSelect CT HS and Low Input Human All Exon V7 Plus 1`
`AGILENT_SURE_SELECT_XT_HS_HUMAN_ALL_EXON_V7_TWO`	`Agilent SureSelect CT HS and Low Input Human All Exon V7 Plus 2`
`AGILENT_SURE_SELECT_CLINICAL_RESEARCH_EXOME_V2`	`Agilent SureSelect XT Clinical Research Exome V2`
`AGILENT_SURE_SELECT_CLINICAL_RESEARCH_EXOME_V2_ONE`	`Agilent SureSelect XT Clinical Research Exome V2 Plus 1`
`AGILENT_SURE_SELECT_CLINICAL_RESEARCH_EXOME_V2_TWO`	`Agilent SureSelect XT Clinical Research Exome V2 Plus 2`
`AGILENT_CLEAR_SEQ_COMPREHENSIVE_CANCER_XT`	`Agilent ClearSeq Comprehensive Cancer XT`
`AGILENT_SURE_SELECT_CUSTOM_TIER1`	`Agilent SureSelect Custom Tier1`
`AGILENT_SURE_SELECT_CUSTOM_TIER2`	`Agilent SureSelect Custom Tier2`
`AGILENT_SURE_SELECT_CUSTOM_TIER3`	`Agilent SureSelect Custom Tier3`
`AGILENT_SURE_SELECT_CUSTOM_TIER4`	`Agilent SureSelect Custom Tier4`
`AGILENT_SURE_SELECT_CUSTOM_TIER5`	`Agilent SureSelect Custom Tier5`
`AVENIO_CT_DNA_TARGETED_KIT`	`AVENIO ctDNA Targeted Kit V2`
`AVENIO_CT_DNA_SURVEILLANCE_KIT`	`AVENIO ctDNA Surveillance Kit V2`
`AVENIO_CT_DNA_EXPANDED_KIT`	`AVENIO ctDNA Expanded Kit V2`
`IDT_X_GEN_EXOME_RESEARCH_PANEL`	`IDT xGen Exome Research Panel V2`
`ILLUMINA_DNA_PCR_FREE_PREP`	`Illumina DNA PCR-Free Prep`
`ILLUMINA_NEXTERA_DNA_FLEX`	`Illumina Nextera DNA Flex`
`ILLUMINA_DNA_PREP`	`Illumina DNA Prep`
`ILLUMINA_NEXTERA_EXOME_ENRICHMENT_KIT`	`Illumina Nextera Exome Enrichment Kit`
`ILLUMINA_DNA_PREP_WITH_ENRICHMENT`	`Illumina DNA Prep with Enrichment`
`ILLUMINA_DNA_PREP_WITH_EXOME_2_5_ENRICHMENT`	`Illumina DNA Prep with Exome 2.5 Enrichment`
`ILLUMINA_STRANDED_M_RNA_PREP`	`Illumina Stranded mRNA Prep`
`ILLUMINA_NEXTERA_DNA_LIBRARY_PREPARATION_KIT`	`Illumina Nextera DNA Library Preparation Kit`
`ILLUMINA_NEXTERA_XT_DNA_LIBRARY_PREPARATION_KIT`	`Illumina Nextera XT DNA Library Preparation Kit`
`ILLUMINA_RNA_PREP_WITH_ENRICHMENT`	`Illumina RNA Prep with Enrichment`
`ILLUMINA_TRU_SEQ_CH_IP_LIBRARY_PREPARATION_KIT`	`TruSeq ChIP Library Preparation Kit`
`ILLUMINA_TRU_SEQ_CUSTOM_AMPLICON_LOW_INPUT_KIT`	`Illumina TruSeq Custom Amplicon Low Input Kit`
`ILLUMINA_TRU_SEQ_CUSTOM_AMPLICON_V_1_5`	`Illumina TruSeq Custom Amplicon v1.5`
`ILLUMINA_TRU_SEQ_DNA_EXOME`	`Illumina TruSeq DNA Exome`
`ILLUMINA_TRU_SEQ_DNA_NANO`	`Illumina TruSeq DNA Nano`
`ILLUMINA_TRU_SEQ_DNA_NANO_LIBRARY_PREP_KIT_FOR_NEO_PREP`	`Illumina TruSeq DNA Nano Library Prep Kit for NeoPrep`
`ILLUMINA_TRU_SEQ_NANO_DNA_HT`	`Illumina TruSeq Nano DNA High Throughput`
`ILLUMINA_TRU_SEQ_NANO_DNA_LT`	`Illumina TruSeq Nano DNA Low Throughput`
`ILLUMINA_TRU_SEQ_FFPE_DNA_LIBRARY_PREP_QC_KIT`	`TruSeq FFPE DNA Library Prep QC Kit`
`ILLUMINA_TRU_SEQ_DNA_PCR_FREE`	`Illumina TruSeq DNA PCR-Free`
`ILLUMINA_TRU_SEQ_RNA_LIBRARY_PREP_KIT_V2`	`Illumina TruSeq RNA Library Prep Kit v2`
`ILLUMINA_TRU_SEQ_RNA_EXOME`	`Illumina TruSeq RNA Exome`
`ILLUMINA_TRU_SEQ_SMALL_RNA_LIBRARY_PREPARATION_KIT`	`Illumina TruSeq Small RNA Library Preparation Kit`
`ILLUMINA_TRU_SEQ_STRANDED_TOTAL_RNA`	`Illumina TruSeq Stranded Total RNA`
`ILLUMINA_TRU_SEQ_STRANDED_M_RNA`	`Illumina TruSeq Stranded mRNA`
`ILLUMINA_TRU_SEQ_STRANDED_TOTAL_RNA_WITH_RIBO_ZERO_GOLD`	`Illumina TruSeq Stranded Total RNA with Ribo-Zero Globin`
`VAHTS_TOTAL_RNA_SEQ_H_M_R_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`VAHTS Total RNA (H/M/R) Library Prep Kit for Illumina`
`ILLUMINA_NEXTERA_XT_DNA`	`Illumina Nextera XT DNA Library Preparation Kit`
`ILLUMINA_TRU_SEQ_TARGETED_RNA_EXPRESSION_STEM_CELL_PANEL`	`Illumina TruSeq Targeted RNA Expression Stem Cell Panel`
`ILLUMINA_TRU_SEQ_TARGETED_RNA_EXPRESSION_P_53_PANEL`	`Illumina TruSeq Targeted RNA Expression p53 Panel`
`ILLUMINA_TRU_SIGHT_ONCOLOGY_500`	`Illumina TruSight Oncology 500`
`ILLUMINA_TRU_SIGHT_ONCOLOGY_500_HIGH_THROUGHPUT`	`Illumina TruSight Oncology High Throughput`
`ILLUMINA_TRU_SIGHT_ONCOLOGY_500_CT_DNA`	`Illumina TruSight Oncology 500 ctDNA`
`ILLUMINA_TRU_SIGHT_RNA_FUSION_PANEL`	`Illumina TruSight RNA Fusion Panel`
`ILLUMINA_TRU_SIGHT_RNA_PAN_CANCER`	`Illumina TruSight RNA Pan-Cancer`
`ILLUMINA_TRU_SIGHT_TUMOR_15`	`Illumina TruSight Tumor 15`
`ILLUMINA_TRU_SIGHT_TUMOR_170`	`Illumina TruSight Tumor 170`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_BRCA_PANEL`	`Illumina AmpliSeq for Illumina BRCA Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_CANCER_HOTSPOT_PANEL_V2`	`Illumina AmpliSeq for Illumina Cancer Hotspot Panel v2`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_CHILDHOOD_CANCER_PANEL`	`Illumina AmpliSeq for Illumina Childhood Cancer Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_COMPREHENSIVE_PANEL_V3`	`Illumina AmpliSeq for Illumina Comprehensive Panel v3`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_CUSTOM_DNA_PANEL`	`Illumina AmpliSeq for Illumina Custom DNA Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_CUSTOM_RNA_FUSION_PANEL`	`Illumina AmpliSeq for Illumina Custom RNA Fusion Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_CUSTOM_RNA_PANEL`	`Illumina AmpliSeq for Illumina Custom RNA Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_FOCUS_PANEL`	`Illumina AmpliSeq for Illumina Focus Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_IMMUNE_REPERTOIRE_PLUS_TCR_BETA_PANEL`	`Illumina AmpliSeq for Illumina Immune Repertoire Plus, TCR beta Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_IMMUNE_RESPONSE_PANEL`	`Illumina AmpliSeq for Illumina Immune Response Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_LIBRARY_PREP_INDEXES_AND_ACCESSOIRES`	`Illumina AmpliSeq for Illumina Library Prep, Indexes, and Accessoires`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_MYELOID_PANEL`	`Illumina AmpliSeq for Illumina Myeloid Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_ON_DEMAND`	`Illumina AmpliSeq for Illumina On-Demand`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_TCR_BETA_SR_PANEL`	`Illumina AmpliSeq for Illumina TCR beta-SR Panel`
`ILLUMINA_AMPLI_SEQ_FOR_ILLUMINA_TRANSCRIPTOME_HUMAN_GENE_EXPRESSION_PANEL`	`Illumina AmpliSeq for Illumina Transcriptome Human Gene Expression Panel`
`ILLUMINA_COMPLETE_LONG_READ_PREP_HUMAN`	`Illumina Complete Long Read Prep, Human`
`INFORM_ONCO_PANEL_HG19`	`Inform Onco Panel Hg19`
`ION_AMPLI_SEQ_EXOME_KIT`	`Ion AmpliSeq Exome RDY Kit`
`KAPA_HIFI_HOT_START_READYMIX`	`KAPA HiFi HotStart ReadyMix Kit`
`KAPA_HYPER_PREP_KIT`	`KAPA HyperPrep Kit`
`KAPA_HYPER_PREP_PCR_FREE_KIT`	`KAPA HyperPrep Kit (PCR-free)`
`KAPA_HYPER_PLUS_KIT`	`KAPA HyperPlus Kit`
`KAPA_M_RNA_HYPER_PREP_KIT`	`KAPA RNA HyperPrep Kit`
`NEB_NEXT_GLOBIN_R_RNA_DEPLETION_HU_MO_RAT_RNA_SAMPLE_PURIFICATION_BEADS`	`NEBNext Globin & rRNA Depletion Kit (Human/Mouse/Rat) with RNA Sample Purification Beads`
`NEB_NEXT_GLOBIN_R_RNA_DEPLETION_KIT_HUMAN_MOUSE_RAT`	`NEBNext Globin & rRNA Depletion Kit (Human/Mouse/Rat)`
`NEB_NEXT_GLOBIN_R_RNA_DEPLET_V2_HU_MO_RAT_RNA_SAMPLE_PURIFICATION_BEADS`	`NEBNext Globin & rRNA Depletion Kit v2 (Human/Mouse/Rat) with RNA Sample Purification Beads`
`NEB_NEXT_GLOBIN_R_RNA_DEPLETION_KIT_V2_HUMAN_MOUSE_RAT`	`NEBNext Globin & rRNA Depletion Kit v2 (Human/Mouse/Rat)`
`NEB_NEXT_RNA_DEPLETION_CORE_REAGENT_SET`	`NEBNext RNA Depletion Core Reagent Set`
`NEB_NEXT_RNA_DEPLETION_CORE_REAGENT_SET_RNA_SAMPLE_PURIFICATION_BEADS`	`NEBNext RNA Depletion Core Reagent Set with RNA Sample Purification Beads`
`NEB_NEXT_POLY_A_M_RNA_MAGNETIC_ISOLATION_MODULE`	`NEBNext Poly(A) mRNA Magnetic Isolation Module`
`NEB_NEXT_SINGLE_CELL_LOW_INPUT_CDNA_SYNTHESIS_AND_AMPLIFICATION_MODULE`	`NEBNext Single Cell / Low Input cDNA Synthesis and Amplification Module`
`NEB_NEXT_SINGLE_CELL_LOW_INPUT_RNA_LIBRARY_KIT_FOR_ILLUMINA`	`NEBNext Single Cell / Low Input RNA Library Kit for Illumina`
`NEB_NEXT_RNA_ULTRA_II_FIRST_STRAND_SYNTHESIS_MODULE`	`NEBNext Ultra II RNA First Strand Synthesis Module`
`NEB_NEXT_RNA_ULTRA_II_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`NEBNext Ultra II RNA Library Prep Kit for Illumina`
`NEB_NEXT_RNA_ULTRA_II_LIBRARY_PREP_WITH_SAMPLE_PURIFICATION_BEADS`	`NEBNext Ultra II RNA Library Prep with Sample Purification Beads`
`NEB_NEXT_ULTRA_II_DIRECTIONAL_RNA_SAMPLE_WITH_SAMPLE_PURIFICATION_BEADS`	`NEBNext Ultra II Directional RNA Library Prep with Sample Purification Beads`
`NEB_NEXT_ULTRA_II_DIRECTIONAL_RNA_SECOND_STRAND_SYNTHESIS_MODULE`	`NEBNext Ultra II Directional RNA Second Strand Synthesis Module`
`NEB_NEXT_ULTRA_DNA`	`NEBNext Ultra DNA Library Prep for Illumina`
`NEB_NEXT_ULTRA_II_DNA_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`NEBNext Ultra II DNA Library Prep Kit for Illumina`
`NEB_NEXT_ULTRA_II_DNA_ILLUMINA_SAMPLE_PURIFICATION_BEADS`	`NEBNext Ultra II DNA Library Prep for Illumina with Sample Purification Beads`
`NEB_NEXT_ULTRA_II_DIRECTIONAL_RNA_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`NEBNext Ultra II Directional RNA Library Prep Kit for Illumina`
`NEB_NEXT_ULTRA_II_FS_DNA_MODULE`	`NEBNext Ultra II FS DNA Module`
`NEB_NEXT_ULTRA_II_END_REPAIR_DA_TAILING_MODULE`	`NEBNext Ultra II End Repair/dA-Tailing Module`
`NEB_NEXT_ULTRA_II_FS_DNA_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`NEBNext Ultra II FS DNA Library Prep Kit for Illumina`
`NEB_NEXT_ULTRA_II_FS_DNA_ILLUMINA_SAMPLE_PURIFICATION_BEADS`	`NEBNext Ultra II FS DNA Library Prep for Illumina with Sample Purification Beads`
`NEB_NEXT_ULTRA_II_DNA_PCR_FREE_SAMPLE_PURIFICATION_BEADS`	`NEBNext Ultra II DNA PCR-free Library Prep with Sample Purification Beads`
`NEB_NEXT_ULTRA_II_FS_DNA_PCR_FREE_SAMPLE_PURIFICATION_BEADS`	`NEBNext Ultra II FS DNA PCR-free Library Prep with Sample Purification Beads`
`NEB_NEXT_ULTRA_II_DNA_PCR_FREE_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`NEBNext Ultra II DNA PCR-free Library Prep Kit for Illumina`
`NEB_NEXT_ULTRA_II_FS_DNA_PCR_FREE_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`NEBNext Ultra II FS DNA PCR-free Library Prep Kit for Illumina`
`NEB_NEXT_ULTRA_II_LIGATION_MODULE`	`NEBNext Ultra II Ligation Module`
`NEB_NEXT_ULTRA_II_Q5_MASTER_MIX`	`NEBNext Ultra II Q5 Master Mix`
`NEB_NEXT_Q5_HOT_START_HIFI_PCR_MASTER_MIX`	`NEBNext Q5 Hot Start HiFi PCR Master Mix`
`NEB_TEMPLATE_SWITCHING_RT_ENZYME_MIX`	`NEB Template Switching RT Enzyme Mix`
`NEB_NEXT_LIBRARY_PCR_MASTER_MIX`	`NEBNext Library PCR Master Mix`
`NEB_NEXT_ULTRA_SHEAR`	`NEBNext UltraShear`
`NEB_NEXT_ULTRA_SHEAR_FFPE_DNA_LIBRARY_PREP_KIT`	`NEBNext UltraShear FFPE DNA Library Prep Kit`
`NEB_NEXT_COMPANION_MODULE_ONT_LIGATION_SEQUENCING`	`NEBNext Companion Module for Oxford Nanopore Technologies Ligation Sequencing`
`NEB_NEXT_FAST_DNA_FRAGMENTATION_AND_LIBRARY_PREP_SET_FOR_ION_TORRENT`	`NEBNext Fast DNA Fragmentation and Library Prep Set for Ion Torrent`
`NEB_NEXT_FAST_DNA_LIBRARY_PREP_SET_FOR_ION_TORRENT`	`NEBNext Fast DNA Library Prep Set for Ion Torrent`
`NEB_NEXT_FFPE_DNA_LIBRARY_PREP_KIT`	`NEBNext FFPE DNA Library Prep Kit`
`NEB_NEXT_FFPE_DNA_REPAIR_MIX`	`NEBNext FFPE DNA Repair Mix`
`NEB_NEXT_FFPE_DNA_REPAIR_V2_MODULE`	`NEBNext FFPE DNA Repair v2 Module`
`NEB_NEXT_DS_DNA_FRAGMENTASE`	`NEBNext dsDNA Fragmentase`
`NEB_NEXT_MAGNETIC_SEPARATION_RACK`	`NEBNext Magnetic Separation Rack`
`NEB_NEXT_LIBRARY_QUANT_FOR_ILLUMINA`	`NEBNext Library Quant for Illumina`
`NEB_NEXT_LIBRARY_QUANT_DNA_STANDARDS`	`NEBNext Library Quant DNA Standards`
`NEB_NEXT_MAGNESIUM_RNA_FRAGMENTATION_MODULE`	`NEBNext Magnesium RNA Fragmentation Module`
`NEB_NEXT_DIRECT_GENOTYPING_SOLUTION`	`NEBNext Direct Genotyping Solution`
`NEB_NEXT_ENZYMATIC_METHYL_SEQ_CONVERSION_MODULE`	`NEBNext Enzymatic Methyl-seq Conversion Module`
`NEB_NEXT_ENZYMATIC_METHYL_SEQ_KIT`	`NEBNext Enzymatic Methyl-seq Kit`
`NEB_NEXT_MULTIPLEX_SMALL_RNA_LIBRARY_PREP_KIT_FOR_ILLUMINA`	`NEBNext Multiplex Small RNA Library Prep Kit for Illumina`
`NEB_NEXT_SMALL_RNA_LIBRARY_PREP_SET_FOR_ILLUMINA_MULTIPLEX_COMPATIBLE`	`NEBNext Small RNA Library Prep Set for Illumina (Multiplex Compatible)`
`EPI_MARK_5_HMC_AND_5_MC_ANALYSIS_KIT`	`EpiMark 5-hmC and 5-mC Analysis Kit`
`EPI_MARK_METHYLATED_DNA_ENRICHMENT_KIT`	`EpiMark Methylated DNA Enrichment Kit`
`EPI_MARK_N6_METHYLADENOSINE_ENRICHMENT_KIT`	`EpiMark N6-Methyladenosine Enrichment Kit`
`EPI_MARK_NUCLEOSOME_ASSEMBLY_KIT`	`EpiMark Nucleosome Assembly Kit`
`EPI_MARK_HOT_START_TAG_DNA_POLYMERASE`	`EpiMark Hot Start Tag DNA Polymerase`
`PICO_METHYL_SEQ`	`Pico Methyl-Seq Library Prep Kit`
`TAKARA_SMART_SEQ_V4_ULTRA_LOW_INPUT_RNA_KIT`	`Takara SMART-Seq v4 Ultra Low Input RNA Kit`
`TAKARA_SMART_ER_STRANDED_TOTAL_RNA_SEQ_KIT`	`Takara SMARTer Stranded RNA-Seq Kit`
`TAKARA_SMART_ER_ULTRA_LOW_INPUT_RNA_KIT`	`Takara SMARTer Universal Low Input RNA Kit`
`TAKARA_SMART_SEQ2_TAG`	`Takara Smart-Seq2 library preparation`
`TAKARA_SMART_ER_PREP_X_DNA_LIBRARY_KIT`	`Takara SMARTer PrepX DNA Library Kit`
`SUPER_SCRIPT_II_RT_BULK`	`SuperScript II Reverse Transkriptase`
`SURE_CELL_ATAC_SEQ_LIBRARY_PREP_KIT`	`SureCell ATAC-Seq Library Prep Kit`
`EUROFINS_ENRICHMENT_CUSTOM`	`Eurofins Genomics Custom Enrichment Kit`
`TWIST_HUMAN_CORE_EXOME_KIT`	`Twist Human Core Exome Kit`
`TWIST_HUMAN_CORE_EXOME_PLUS_KIT`	`Twist Human Core Exome Plus Kit`
`ULTRALOW_METHYL_SEQ_WITH_TRUE_METHYL_OX_BS`	`TECAN Ultralow Methyl-Seq with TrueMethyl oxBS`
`OTHER`	`A Library Preparation Kit not captured by the controlled vocabulary.`

library_preparation_kit_manufacturer¶

description : The manufacturer of the kit used for library preparation.
required : False
data type : string

primer¶

description : The type of primer used for reverse transcription (e.g., oligo-dT or random).
required : False
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`OLIGO_D_T`	`An oligonucleotide primer consisting of thymidine bases only. It is used to target messenger RNA molecules with poly-adenosine 3' end.`
`RANDOM`	`An oligonucleotide primer with random sequence.`
`GENE_SPECIFIC`	`Ready-to-use, usually commercially prepared primers that are used to detect specific genes.`
`OTHER`	`A primer not captured by the controlled vocabulary.`

end_bias¶

description : The end of the cDNA molecule that is preferentially sequenced (e.g., ⅗ prime end, full-length).
required : False
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`3_PRIME_END`	`The sequencing method preferentially captures the nucleic acids towards the 3 prime end of the targeted molecule.`
`5_PRIME_END`	`The sequencing method preferentially captures the nucleic acids towards the 5 prime end of the targeted molecule.`
`FULL_LENGTH`	`Captures the full length of the targeted molecule.`

target_regions¶

description : Subset of genes or specific regions of the genome, which are most likely to be involved in the phenotype under study.
required : False
data type : string

rnaseq_strandedness¶

description : The strandedness of the library, whether reads come from both strands of the cDNA or only from the first (antisense) or the second (sense) strand.
required : False
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`SENSE`	`Having a DNA sequence identical to that of a messenger RNA molecule; the coding strand in double-stranded DNA.`
`ANTISENSE`	`Having a DNA sequence complementary to that of a messenger RNA molecule; the non-coding strand in double-stranded DNA.`
`UNSTRANDED`	`Non-directional sequencing, where the reads can map from either the transcript strand or its complement.`

instrument_model¶

description : The name and model of the technology platform used to perform sequencing.
required : True
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`454_GS`	`454 GS`
`454_GS_20`	`454 GS 20`
`454_GS_FLX`	`454 GS FLX`
`454_GS_FLX_TITANIUM`	`454 FS FLX Titanium`
`454_GS_FLX+`	`454 GS FLX+`
`454_GS_JUNIOR`	`454 GS Junior`
`AB_310_GENETIC_ANALYZER`	`AB 310 Genetic Analyzer`
`AB_3130_GENETIC_ANALYZER`	`AB 3130 Genetic Analyzer`
`AB_3130XL_GENETIC_ANALYZER`	`AB 3130XL Genetic Analyzer`
`AB_3500_GENETIC_ANALYZER`	`AB 3500 Genetic Analyzer`
`AB_3500XL_GENETIC_ANALYZER`	`AB 3500XL Genetic Analyzer`
`AB_3730_GENETIC_ANALYZER`	`AB 3730 Genetic Analyzer`
`AB_3730XL_GENETIC_ANALYZER`	`AB 3730XL Genetic Analyzer`
`AB_5500_GENETIC_ANALYZER`	`AB 5500 Genetic Analyzer`
`AB_5500XL_GENETIC_ANALYZER`	`AB 5500XL Genetic Analyzer`
`AB_5500XL-W_GENETIC_ANALYSIS_SYSTEM`	`AB 5500 XL-W Genetic Analysis System`
`BGISEQ-50`	`BGISEQ-50:`
`BGISEQ-500`	`BGISEQ-500`
`DNBSEQ-G400`	`DNBSEQ-G400`
`DNBSEQ-G400_FAST`	`DNBSEQ-G400_FAST`
`DNBSEQ-G50`	`DNBSEQ-G50`
`DNBSEQ-T7`	`DNBSEQ-T7`
`ELEMENT_AVITI`	`Element AVITI`
`GRIDION`	`GridION`
`HELICOS_HELISCOPE`	`Helicos HeliScope`
`HISEQ_X_FIVE`	`HiSeq X Five`
`HISEQ_X_TEN`	`HiSeq X Ten`
`ILLUMINA_GENOME_ANALYZER`	`Illumina Genome Analyzer`
`ILLUMINA_GENOME_ANALYZER_II`	`Illumina Genome Analyzer II`
`ILLUMINA_GENOME_ANALYZER_IIX`	`Illumina Genome Analyzer IIx`
`ILLUMINA_HISCANSQ`	`Illumina HiScanSQ`
`ILLUMINA_HISEQ_1000`	`Illumina HiSeq 1000`
`ILLUMINA_HISEQ_1500`	`Illumina HiSeq 1500`
`ILLUMINA_HISEQ_2000`	`Illumina HiSeq 2000`
`ILLUMINA_HISEQ_2500`	`Illumina HiSeq 2500`
`ILLUMINA_HISEQ_3000`	`Illumina HiSeq 3000`
`ILLUMINA_HISEQ_4000`	`Illumina HiSeq 4000`
`ILLUMINA_HISEQ_X`	`Illumina HiSeq X`
`ILLUMINA_MISEQ`	`Illumina MiSeq`
`ILLUMINA_MINISEQ`	`Illumina MiniSeq`
`ILLUMINA_NOVASEQ_6000`	`Illumina NovaSeq 6000`
`ILLUMINA_NOVASEQ_X`	`Illumina NovaSeq X`
`ILLUMINA_ISEQ_100`	`Illumina iSeq 100`
`ION_GENESTUDIO_S5`	`Ion Genestudio S5`
`ION_GENESTUDIO_S5_PLUS`	`Ion Genestudio S5 Plus`
`ION_GENESTUDIO_S5_PRIME`	`Ion Genestudio S5 Prime`
`ION_TORRENT_GENEXUS`	`Ion Torrent Genexus`
`ION_TORRENT_PGM`	`Ion Torrent PGM`
`ION_TORRENT_PROTON`	`Ion Torrent Proton`
`ION_TORRENT_S5`	`Ion Torrent S5`
`ION_TORRENT_S5_XL`	`Ion Torrent S5 XL`
`MGISEQ-2000RS`	`MGISEQ-2000RS`
`MINION`	`MinION`
`NEXTSEQ_1000`	`NextSeq 1000`
`NEXTSEQ_2000`	`NextSeq 2000`
`NEXTSEQ_500`	`NextSeq 500`
`NEXTSEQ_550`	`NextSeq 550`
`PACBIO_RS`	`PacBio RS`
`PACBIO_RS_II`	`PacBio RS II`
`PROMETHION`	`PromethION`
`SEQUEL`	`Sequel`
`SEQUEL_II`	`Sequel II`
`SEQUEL_IIE`	`Sequel IIe`
`UG_100`	`UG 100`
`UNSPECIFIED`	`Instrument model is unspecified.`
`OTHER`	`Other instrument model than mentioned above.`

sequencing_center¶

description : Center where sample was sequenced.
required : False
data type : string

sequencing_read_length¶

description : Length of sequencing reads (e.g., long or short or actual number of the read length).
required : False
data type : string

sequencing_layout¶

description : Describe whether the library was sequenced in single-end (forward or reverse) or paired-end mode.
required : True
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`SE`	`Single end sequencing.`
`PE`	`Paired end sequencing.`

target_coverage¶

description : Mean coverage for whole genome sequencing, or mean target coverage for whole exome and targeted sequencing, (i.e. the number of times a particular locus was sequenced).
required : False
data type : string

flow_cell_id¶

description : Flow cell ID (e.g., Experiment ID_Cell 1_Lane_1).
required : False
data type : string

flow_cell_type¶

description : Type of flow cell used (e.g., S4, S2 for NovaSeq; PromethION, Flongle for Nanopore).
required : False
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`ILLUMINA_NOVA_SEQ_S2`	`Usage of Illumina NovaSeq S2 flow cell.`
`ILLUMINA_NOVA_SEQ_S4`	`Usage of Illumina NovaSeq S4 flow cell.`
`PROMETHION`	`Usage of PromethION flow cell.`
`FLONGLE`	`Usage of Flongle flow cell.`
`MINION`	`Usage of MinION flow cell.`
`GRIDION`	`Usage of GridION flow cell.`
`OTHER`	`Usage of a flow cell not captured by the controlled vocabulary.`

sample_barcode_read¶

description : The type of read that contains the sample barcode (e.g., index1, index2, read1, read2).
required : False
data type : Controlled Vocabulary

Permissible Values

Permissible Values	Description
`INDEX1`	`Sample barcode read location is in Index 1.`
`INDEX1_AND_INDEX2`	`Sample barcode read location is in Index 1 and Index 2.`
`OTHER`	`Sample barcode read is neither in Index 1 or Index 1 and Index 2.`

ega_accession¶

description : The EGA accession of the 'Experiment' entity (EGAX).
required : False
data type : string

attributes¶

description : One or more attributes that further characterize this Experiment Method.
required : False
data type : Attribute

alias¶

description : The alias for an entity at the time of submission.
required : True
data type : string