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_all:
enabled: false
_size:
enabled: true
_source:
excludes:
- gene.*
properties:
available_variation_data:
type: keyword
case_autocomplete:
fields:
analyzed:
analyzer: autocomplete_analyzed
search_analyzer: lowercase_keyword
type: text
lowercase:
analyzer: lowercase_keyword
type: text
prefix:
analyzer: autocomplete_prefix
search_analyzer: lowercase_keyword
type: text
type: keyword
case_id:
copy_to:
- case_autocomplete
type: keyword
created_datetime:
type: date
days_to_index:
type: long
demographic:
properties:
cause_of_death:
type: keyword
created_datetime:
type: date
days_to_birth:
type: long
days_to_death:
type: long
demographic_id:
type: keyword
ethnicity:
type: keyword
gender:
type: keyword
race:
type: keyword
state:
type: keyword
submitter_id:
type: keyword
updated_datetime:
type: date
vital_status:
type: keyword
year_of_birth:
type: long
year_of_death:
type: long
diagnoses:
properties:
age_at_diagnosis:
type: long
ajcc_clinical_m:
type: keyword
ajcc_clinical_n:
type: keyword
ajcc_clinical_stage:
type: keyword
ajcc_clinical_t:
type: keyword
ajcc_pathologic_m:
type: keyword
ajcc_pathologic_n:
type: keyword
ajcc_pathologic_stage:
type: keyword
ajcc_pathologic_t:
type: keyword
ajcc_staging_system_edition:
type: keyword
ann_arbor_b_symptoms:
type: keyword
ann_arbor_clinical_stage:
type: keyword
ann_arbor_extranodal_involvement:
type: keyword
ann_arbor_pathologic_stage:
type: keyword
burkitt_lymphoma_clinical_variant:
type: keyword
cause_of_death:
type: keyword
circumferential_resection_margin:
type: long
classification_of_tumor:
type: keyword
colon_polyps_history:
type: keyword
created_datetime:
type: date
days_to_hiv_diagnosis:
type: long
days_to_last_follow_up:
type: long
days_to_last_known_disease_status:
type: long
days_to_new_event:
type: long
days_to_recurrence:
type: long
diagnosis_id:
type: keyword
figo_stage:
type: keyword
hiv_positive:
type: keyword
hpv_positive_type:
type: keyword
hpv_status:
type: keyword
last_known_disease_status:
type: keyword
laterality:
type: keyword
ldh_level_at_diagnosis:
type: long
ldh_normal_range_upper:
type: long
lymph_nodes_positive:
type: long
lymphatic_invasion_present:
type: keyword
method_of_diagnosis:
type: keyword
morphology:
type: keyword
new_event_anatomic_site:
type: keyword
new_event_type:
type: keyword
perineural_invasion_present:
type: keyword
primary_diagnosis:
type: keyword
prior_malignancy:
type: keyword
prior_treatment:
type: keyword
progression_or_recurrence:
type: keyword
residual_disease:
type: keyword
site_of_resection_or_biopsy:
type: keyword
state:
type: keyword
submitter_id:
type: keyword
tissue_or_organ_of_origin:
type: keyword
treatments:
properties:
created_datetime:
type: date
days_to_treatment_end:
type: long
days_to_treatment_start:
type: long
state:
type: keyword
submitter_id:
type: keyword
therapeutic_agents:
type: keyword
treatment_anatomic_site:
type: keyword
treatment_id:
type: keyword
treatment_intent_type:
type: keyword
treatment_or_therapy:
type: keyword
treatment_outcome:
type: keyword
treatment_type:
type: keyword
updated_datetime:
type: date
type: nested
tumor_grade:
type: keyword
tumor_largest_dimension_diameter:
type: long
tumor_stage:
type: keyword
updated_datetime:
type: date
vascular_invasion_present:
type: keyword
year_of_diagnosis:
type: long
type: nested
disease_type:
copy_to:
- case_autocomplete
type: keyword
exposures:
properties:
alcohol_history:
type: keyword
alcohol_intensity:
type: keyword
bmi:
type: float
cigarettes_per_day:
type: float
created_datetime:
type: date
exposure_id:
type: keyword
height:
type: float
pack_years_smoked:
type: long
state:
type: keyword
submitter_id:
type: keyword
tobacco_smoking_onset_year:
type: long
tobacco_smoking_quit_year:
type: long
tobacco_smoking_status:
type: keyword
updated_datetime:
type: date
weight:
type: float
years_smoked:
type: float
type: nested
family_histories:
properties:
created_datetime:
type: date
family_history_id:
type: keyword
relationship_age_at_diagnosis:
type: long
relationship_gender:
type: keyword
relationship_primary_diagnosis:
type: keyword
relationship_type:
type: keyword
relative_with_cancer_history:
type: keyword
state:
type: keyword
submitter_id:
type: keyword
updated_datetime:
type: date
type: nested
gene:
properties:
biotype:
type: keyword
cnv:
properties:
chromosome:
type: keyword
cnv_change:
type: keyword
cnv_id:
type: keyword
consequence:
properties:
consequence_id:
type: keyword
gene:
properties:
biotype:
type: keyword
gene_id:
type: keyword
is_cancer_gene_census:
type: boolean
symbol:
type: keyword
type: nested
end_position:
type: long
gene_level_cn:
type: boolean
ncbi_build:
type: keyword
observation:
properties:
observation_id:
type: keyword
sample:
properties:
tumor_sample_barcode:
type: keyword
tumor_sample_uuid:
type: keyword
src_file_id:
type: keyword
variant_calling:
properties:
variant_caller:
type: keyword
variant_status:
type: keyword
type: nested
start_position:
type: long
type: nested
gene_id:
type: keyword
is_cancer_gene_census:
type: boolean
ssm:
properties:
chromosome:
type: keyword
consequence:
properties:
consequence_id:
type: keyword
transcript:
properties:
aa_change:
type: keyword
annotation:
properties:
amino_acids:
type: keyword
ccds:
type: keyword
cdna_position:
type: keyword
cds_end:
type: long
cds_length:
type: long
cds_position:
type: keyword
cds_start:
type: long
clin_sig:
type: keyword
codons:
type: keyword
dbsnp_rs:
type: keyword
dbsnp_val_status:
type: keyword
domains:
type: keyword
ensp:
type: keyword
existing_variation:
type: keyword
hgvsc:
type: keyword
hgvsp:
type: keyword
hgvsp_short:
type: keyword
polyphen_impact:
type: keyword
polyphen_score:
type: float
protein_position:
type: keyword
pubmed:
type: keyword
sift_impact:
type: keyword
sift_score:
type: float
swissprot:
type: keyword
transcript_id:
type: keyword
trembl:
type: keyword
uniparc:
type: keyword
vep_impact:
type: keyword
consequence_type:
type: keyword
ref_seq_accession:
type: keyword
transcript_id:
type: keyword
type: nested
cosmic_id:
type: keyword
end_position:
type: long
genomic_dna_change:
type: keyword
mutation_subtype:
type: keyword
mutation_type:
type: keyword
ncbi_build:
type: keyword
observation:
properties:
acl:
type: keyword
center:
type: keyword
input_bam_file:
properties:
normal_bam_uuid:
type: keyword
tumor_bam_uuid:
type: keyword
mutation_status:
type: keyword
normal_genotype:
properties:
match_norm_seq_allele1:
type: keyword
match_norm_seq_allele2:
type: keyword
observation_id:
type: keyword
read_depth:
properties:
n_depth:
type: long
t_alt_count:
type: long
t_depth:
type: long
t_ref_count:
type: long
sample:
properties:
matched_norm_sample_barcode:
type: keyword
matched_norm_sample_uuid:
type: keyword
tumor_sample_barcode:
type: keyword
tumor_sample_uuid:
type: keyword
src_vcf_id:
type: keyword
tumor_genotype:
properties:
tumor_seq_allele1:
type: keyword
tumor_seq_allele2:
type: keyword
validation:
properties:
tumor_validation_allele1:
type: keyword
tumor_validation_allele2:
type: keyword
validation_method:
type: keyword
variant_calling:
properties:
variant_caller:
type: keyword
variant_process:
type: keyword
type: nested
reference_allele:
type: keyword
ssm_id:
type: keyword
start_position:
type: long
tumor_allele:
type: keyword
type: nested
symbol:
type: keyword
type: nested
primary_site:
copy_to:
- case_autocomplete
type: keyword
project:
properties:
dbgap_accession_number:
type: keyword
disease_type:
copy_to:
- case_autocomplete
type: keyword
intended_release_date:
type: keyword
name:
copy_to:
- case_autocomplete
type: keyword
primary_site:
copy_to:
- case_autocomplete
type: keyword
program:
properties:
dbgap_accession_number:
type: keyword
name:
type: keyword
program_id:
type: keyword
project_id:
copy_to:
- case_autocomplete
type: keyword
releasable:
type: keyword
released:
type: boolean
state:
type: keyword
samples:
properties:
sample_type:
type: keyword
ssm_acl:
type: keyword
state:
type: keyword
submitter_id:
copy_to:
- case_autocomplete
type: keyword
summary:
properties:
data_categories:
properties:
data_category:
type: keyword
file_count:
type: long
type: nested
experimental_strategies:
properties:
experimental_strategy:
type: keyword
file_count:
type: long
type: nested
file_count:
type: long
file_size:
type: long
tissue_source_site:
properties:
bcr_id:
type: keyword
code:
type: keyword
name:
type: keyword
project:
type: keyword
tissue_source_site_id:
type: keyword
updated_datetime:
type: date
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