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gold

URI: https://w3id.org/jgi/gold

Name: gold

Classes

Class Description
AnalysisProject
AnalysisProjectPublication
AnalysisProjectSraRunV2
ApiUser
Assembly
AssemblyLibrary
AssemblyMethod
AssemblyMethodMapping
AuditLog
Bacdive
Biosample
BiosampleDisease
CvaerospaceStruc
CvapStatus
Cvcolor
Cvdisease
CvdoorTypeWood
Cvhabitat
Cvmodel
CvorganismType
DwAnalysisProject
DwSamples
DwSequencingProduct
DwSequencingProject
Excel
GoldMasterSequencingMethod
NcbiAssembly
NcbiGenbank
NcbiRawSraRun
NcbiTaxonomy
OrganismCellArrangement
OrganismMetabolism
OrganismV2
PackageSoil
Project
ProjectAnalysisProject
Ror
SequencingMethod
SigsView
SraExperimentV2
SraSampleV2
Study

Slots

Slot Description
absorbance_260_230
absorbance_260_280
active
actual_sequencing_product_id
adapters
add_date
added_by
admin_ap_count
admin_biosample_count
admin_dap_count
admin_sp_count
alias
altitude
altitude2
analysis_product_id
analysis_project_id
analysis_project_name
analysis_project_name_full
analysis_project_type
analysis_system
analyst_name
annotation_date
annotation_name
annotation_provider
annotator_comments
ap_for_nonowner
api_user_id
appended_ap_name
asm_name
asm_not_live_date
asm_submitter
assemblers
assembly_accession
assembly_accession_no_version
assembly_id
assembly_level
assembly_method
assembly_method_id
assembly_type
audit_log_id
author_names
availability_date
bacdive_id
bacdive_json
bicarbonate_millimol
bin_param
binning_method
biogas_acetic_acid
biogas_ammonium_nh4
biogas_butanol
biogas_butyl_acid
biogas_ethanol
biogas_fed_substrates
biogas_iso_butyl_acid
biogas_iso_valeric_acid
biogas_methane_pct
biogas_methanol
biogas_propanol
biogas_propionic_acid
biogas_retention_time
biogas_temperature
biogas_total_inorganic_carbon
biogas_valeric_acid
biogas_voa_tic
biogas_volatile_organic_acids
biogas_yield
bioproject
biosafety_level
biosample
biosample_id
biosample_name
biotic_relationship
carbon_source
cell_arrangement_id
cell_diameter
cell_length
cell_shape
chlorophyll_concentration
chromosome_count
clade
collabor_concentration_ngul
collabor_volume_ul
collection_altit_depth_meters
collection_date
collection_latitude
collection_longitude
collection_site_growth
collection_time
color Foreign key to cvcolor
comments
commercial
commercial_comments
common_name
community
compl_appr
completeness_percentage
completion
completion_date
contact_id
contam_screen_input
contamination_percentage
contig_count
country
created_by_id
created_by_name
cruise_line_name
culture_collection
culture_collection_id
culture_strain_pure_descr
culture_type
cultured
curated_id Foreign key to assembly_method
current_concentration_ngul
current_status
current_status_id
current_volume_ul
date_created
decontamination_method
default_account_id
deleted
depth
depth2
description
developmental_stage_age
dir_num
disease_id Foreign key to cvdisease
diseases
dna_isolation_method
dna_treated
domain
ecosystem
ecosystem_category
ecosystem_path_id
ecosystem_subtype
ecosystem_type
ecotype
elevation
elevation2
eligible_public_release
email
embargo_days
embargo_start_date
encoded_traits
entity_id
entity_name
env_broad_scale
env_local_scale
env_medium
est_count
est_size
excluded_from_refseq
exemplar_doi
exemplar_name
expected_final_version
expected_num_samples
experimental_conditions
external_id
feature
field_name
file1
filename
final_deliv_project_id
finishing_goal_id
finishing_quality
fold_coverage
ftp_path
funding_program
funding_year
gbrs_paired_asm
gc_percent
genbank_16s_id
genbank_accession
genbank_accession_no_version
genbank_id
genbank_json
genbank_low_quality_annotation
gene_calling_method
gene_count
genome_coverage
genome_rep
genome_size
genome_size_ungapped
genome_type
genomic_resources
genus
genus_synonyms
geo_location
geographic_location
global_package_id
gls_sample_id
gls_sequencing_project_id
gold_analysis_project_id
gold_biosample_id
gold_class
gold_family
gold_id
gold_order
gold_phylogeny
gold_sequencing_project_id
gold_study_id
gold_study_name
gpts_disambiguator
gpts_proposal_id
gpts_sample_id
gram_stain
group_
group_name
growth_conditions
growth_temperature
growth_temperature2
gtdb_class
gtdb_family
gtdb_genus
gtdb_order
gtdb_phylum
gtdb_species
gtdb_superkingdom
gtdb_taxonomy_lineage
gtdb_version_id
h2s_millimol
h2s_present
habitat
health_disease_stat
host_age
host_body_product
host_body_product_id
host_body_site
host_body_site_id
host_body_subsite
host_body_subsite_id
host_comments
host_gender
host_health_condition
host_medication
host_name
host_race
host_specificity
host_taxonomy_id
hydrocarbon_core_package_id
hydrocarbon_fs_package_id
id
identifier
img_analysis_complete
img_annotation_version
img_bin_count
img_breadth_calc
img_dataset_id
img_predicted_plasmid_contigs
img_predicted_viral_contigs
img_rnaseq_id
img_submission_prority
img_taxon_id
img_use
in_vivo_conditions
infraspecific_name
irradiance
is_approved
is_assembled_deleted
is_curated
is_decontamination
is_draft
is_geba
is_hmp
is_img_annotation
is_jgi
is_locked
is_primary
is_public
is_single_cell_material
is_test
is_virocell
isolate
isolation_publication_id
isolation_pubmed_id
its_analysis_project_id
its_analysis_project_name
its_annotation_at_id
its_assembly_at_type
its_concentration_ng_ul
its_data_utilization_status
its_density_g_ml
its_growth_conditions
its_isotope_label
its_ncbi_tax_id
its_product_name
its_project_name
its_proposal_id
its_sample_group_name
its_sample_id
its_sample_name
its_sequencing_product_name
its_source_sample_pid
its_spid
its_version_number
its_volume_ul
jpa_entity
keycloak_id
known_non_hosts
last_mod_by
last_updated
last_updated_by_id
last_updated_by_name
lat_long_inferred
latitude
latitude_test
legacy_depth_data
legacy_gold_id
libraries
library_id
library_instrument
library_layout
library_method
library_name
library_screen
library_selection
library_source
library_strategy
lineage
lineage_with_ranks
literature_references
location
locus_tag
longhurst_code
longitude
longitude_test
low_quality_genome
mag_cov_software
master_group_id Foreign key to organism_v2
master_study_id Foreign key to study
material
material_type
max_depth_meters
max_elevation_meters
max_insert_size_kb
metabolism_id
metagenomic
methane_conc_millimol
method Foreign key to assembly_method
method_generated
microbial_mat_package_id
min_depth_meters
min_elevation_meters
mod_by
mod_date
modified
motility
mrn
multiplex_identifiers
name
ncbi_assembly_id
ncbi_bioproject_accession
ncbi_bioproject_id
ncbi_biosample_accession
ncbi_biosample_id
ncbi_class
ncbi_family
ncbi_genbank_id
ncbi_genus
ncbi_kingdom
ncbi_locus_tag
ncbi_order
ncbi_phylum
ncbi_project_name
ncbi_species
ncbi_sra_id
ncbi_superkingdom
ncbi_tax_id
ncbi_taxonomy_id
ncbi_taxonomy_lineage
ncbi_taxonomy_name
new_value
nitrate_concentration
non_coding_gene_count
notes
nucl_acid_amp_lit
nucl_acid_ext_lit
nucleic_acid
nucleic_acid_id
number_tubes_plates
old_legacy_gold_id
old_value
organism_id Foreign key to organism_v2
organism_name
organism_type Foreign key to cvorganism_type
other_ecosystem
other_groups_info
other_hosts
other_names
other_project_names
owner_id
oxygen_concentration
oxygen_presence
oxygen_requirement
package_built_environment_id
package_host_associated_id
package_human_associated_id
package_version_id
package_wastewater_id
paired_asm_comp
parent_ncbi_tax_id
pathogenicity
patient_visit_number
pcr_cond
pcr_primers
ph
ph1
ph2
phylogeny_suggestion
phylum
pi_id
pi_name
pipeline_annotation_method
plant_package_id
plasmid_count
plate_location
ploidy
pmo_project_id
pressure
project_comments
project_id
project_manager_id
project_name
project_oid
project_status
project_subtype
propagation
proport_isolation
proport_ocean
proport_station
proport_woa_dissolved_oxygen
proport_woa_nitrate
proport_woa_phosphate
proport_woa_salinity
proport_woa_silicate
proport_woa_temperature
protein_coding_gene_count
public_ap_count
public_biosample_count
public_dap_count
public_sp_count
publication_date
publication_id
pubmed_id
qc_report_location
qc_status
qc_total_mass_ng
rank
read_count
read_size
reassembly_bin
recover_16s
recover_16s_software
ref_genome
ref_genome_type
reference_ap_id Foreign key to analysis_project
refseq_assembly_accession
refseq_category
rejection_reasons
relation_to_type_material
relationship
release_date
release_type
relevance
replacement_ncbi_tax_id
replaces_ap_id Foreign key to analysis_project
replicate_number
replicon_count
review_status
rework_of_ap_id
risk_group_level
ror_id
rqc_assembly_id
run_bases
run_size
run_spots
salinity
salinity_concentration
sample_biomass
sample_collection_day
sample_collection_hour
sample_collection_minute
sample_collection_month
sample_collection_site
sample_collection_temperature
sample_collection_temperature2
sample_collection_year
sample_conductivity
sample_contact_email
sample_contact_id
sample_contact_name
sample_format
sample_group_name
sample_id
sample_isolated_from
sample_isolation_comments
sample_isolation_country_id
sample_name
sample_oid
sample_tube_barcode
sample_vol_we_dna_ext
sample_volume
sample_weight_dna_ext
sampling_strategy
scaffold_count
scientific_name
screening_method
sediment_package_id
seq_proj_manager_name
seq_rel_date
sequence
sequencing_comments
sequencing_depth
sequencing_method_id Foreign key to sequencing_method
sequencing_platforms
sequencing_product_id
sequencing_product_name
sequencing_product_type
sequencing_product_type_id
sequencing_project_comments
sequencing_project_contact_id
sequencing_project_id
sequencing_project_manager_id
sequencing_project_name
sequencing_quality_id
sequencing_status_id
sequencing_strategy
sequencing_strategy_full
sequencing_strategy_id
sequencing_technology
serovar
sex
shipment_storage_comments
sim_search_meth
single_cell_lysis_appr
single_cell_lysis_prot
size_fraction
soil_agrochem_addition
soil_aluminium_sat
soil_aluminium_sat_method
soil_crop_rotation
soil_curr_land_use
soil_curr_vegetation
soil_curr_vegetation_method
soil_depth
soil_depth2
soil_drainage_class
soil_elevation
soil_elevation2
soil_extreme_event
soil_fao_class
soil_fire
soil_flooding
soil_heavy_metals
soil_heavy_metals_method
soil_horizon
soil_horizon_method
soil_link_addit_analys
soil_link_class_info
soil_link_climate_info
soil_local_class
soil_local_class_method
soil_mean_annual_precpt
soil_mean_annual_temp
soil_mean_seasonal_precpt
soil_mean_seasonal_temp
soil_microbial_biomass
soil_microbial_biomass_method
soil_misc_param
soil_package_id Foreign key to package_soil
soil_ph
soil_ph2
soil_ph_method
soil_pool_dna_extracts
soil_prev_land_use
soil_prev_land_use_meth
soil_profile_position
soil_salinity
soil_salinity_method
soil_sample_biomass
soil_sample_volume
soil_sieving
soil_slope_aspect
soil_slope_gradient
soil_storage_condition
soil_texture
soil_texture_method
soil_tillage
soil_tot_n_method
soil_tot_org_c_method
soil_type
soil_type_method
soil_water_content
soil_water_content_soil_meth
soluble_iron_micromol
sort_tech
source
source_analysis_project_id
source_sample_pid
sp_project_visibility
sp_visibility
species
species_synonyms
species_taxid
specific_ecosystem
specimen
specimen_id
sporulation
spot_length
sra_experiment_id
sra_id
sra_ncbi_id
sra_run_id
sra_sample_id Foreign key to sra_sample_v2
sra_srs_accession
sra_srx_accession
sra_study_id
starting_culture_pure
status_comments
status_date
status_id Foreign key to cvap_status
storage_solution
strain
strain_info_id
straininfo_group_id
study_id Foreign key to study
study_name
study_type_id
submission_comments
submission_id
submission_status_id
submission_status_name
submit_biosample_name
submit_organism_name
submitter_id
subspecies
subsurface_depth
subsurface_depth1
subsurface_depth2
suggest_img_annotation_version
symbiont_name
symbiont_taxon_id
symbiotic_physical_interaction
symbiotic_relationship
target_gene
target_subfragment
tax_class_method
tax_ident
taxid
taxon_doi
taxonomy_info_id
taxonomy_status
temperature_range
term
tissue_organ_source
title
tot_nitrogen
tot_org_carbon
total_gene_count
trna_pred_software
trnas
tube_plate_label
type
type_strain
uncultured_type
uncurated_id Foreign key to assembly_method
url
url_other_resources
user_id
vector
vector_name
version_number
version_status
viral_group
viral_subgroup
virus_enrich_appr
water_package_id
wga_amp_appr
wga_amp_kit
wgs_master
xml_body

Enumerations

Enumeration Description

Types

Type Description
Boolean A binary (true or false) value
Curie a compact URI
Date a date (year, month and day) in an idealized calendar
DateOrDatetime Either a date or a datetime
Datetime The combination of a date and time
Decimal A real number with arbitrary precision that conforms to the xsd:decimal speci...
Double A real number that conforms to the xsd:double specification
Float A real number that conforms to the xsd:float specification
Integer An integer
Jsonpath A string encoding a JSON Path
Jsonpointer A string encoding a JSON Pointer
Ncname Prefix part of CURIE
Nodeidentifier A URI, CURIE or BNODE that represents a node in a model
Objectidentifier A URI or CURIE that represents an object in the model
Sparqlpath A string encoding a SPARQL Property Path
String A character string
Time A time object represents a (local) time of day, independent of any particular...
Uri a complete URI
Uriorcurie a URI or a CURIE

Subsets

Subset Description