Q (sonnet): In TCGA lower grade glioma, show me IDH1 mRNA expression by IDH1 mutation status.

▶ resolve_and_route
{
 "studyKeywords": [
  "TCGA",
  "lower grade glioma",
  "pan_can_atlas"
 ]
}

◀ result
{"success":true,"message":"Found 1 study. Use the metadata to call the appropriate navigation tool(s).","data":{"totalCount":1,"studiesWithMetadata":[{"studyId":"lgg_tcga_pan_can_atlas_2018","name":"Brain Lower Grade Glioma (TCGA, PanCancer Atlas)","sampleCount":514,"studyViewUrl":"https://www.cbioportal.org/study?id=lgg_tcga_pan_can_atlas_2018","metadata":{"clinicalAttributeIds":["AGE","AJCC_PATHOLOGIC_TUMOR_STAGE","AJCC_STAGING_EDITION","ANEUPLOIDY_SCORE","BUFFA_HYPOXIA_SCORE","CANCER_TYPE","CANCER_TYPE_ACRONYM","CANCER_TYPE_DETAILED","DAYS_LAST_FOLLOWUP","DAYS_TO_BIRTH","DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS","DFS_MONTHS","DFS_STATUS","DSS_MONTHS","DSS_STATUS","ETHNICITY","FORM_COMPLETION_DATE","FRACTION_GENOME_ALTERED","GENETIC_ANCESTRY_LABEL","GRADE","HISTORY_NEOADJUVANT_TRTYN","ICD_10","ICD_O_3_HISTOLOGY","ICD_O_3_SITE","INFORMED_CONSENT_VERIFIED","IN_PANCANPATHWAYS_FREEZE","MSI_SCORE_MANTIS","MSI_SENSOR_SCORE","MUTATION_COUNT","NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT","ONCOTREE_CODE","OS_MONTHS","OS_STATUS","OTHER_PATIENT_ID","PATH_M_STAGE","PATH_N_STAGE","PATH_T_STAGE","PERSON_NEOPLASM_CANCER_STATUS","PFS_MONTHS","PFS_STATUS","PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT","PRIOR_DX","RACE","RADIATION_THERAPY","RAGNUM_HYPOXIA_SCORE","SAMPLE_COUNT","SAMPLE_TYPE","SEX","SOMATIC_STATUS","SUBTYPE","TBL_SCORE","TISSUE_PROSPECTIVE_COLLECTION_INDICATOR","TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR","TISSUE_SOURCE_SITE","TISSUE_SOURCE_SITE_CODE","TMB_NONSYNONYMOUS","TUMOR_TISSUE_SITE","TUMOR_TYPE","WEIGHT","WINTER_HYPOXIA_SCORE"],"molecularProfileIds":["lgg_tcga_pan_can_atlas_2018_gistic","lgg_tcga_pan_can_atlas_2018_log2CNA","lgg_tcga_pan_can_atlas_2018_mutations","lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna","lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna_median_Zscores","lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna_median_all_sample_Zscores","lgg_tcga_pan_can_atlas_2018_rppa","lgg_tcga_pan_can_atlas_2018_rppa_Zscores","lgg_tcga_pan_can_atlas_2018_structural_variants"],"genericAssayProfiles":["lgg_tcga_pan_can_atlas_2018_armlevel_cna","lgg_tcga_pan_can_atlas_2018_genetic_ancestry","lgg_tcga_pan_can_atlas_2018_methylation_hm27_hm450_merge","lgg_tcga_pan_can_atlas_2018_methylation_hm450"],"heatmapProfileIds":["lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna_median_Zscores","lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna_median_all_sample_Zscores","lgg_tcga_pan_can_atlas_2018_rppa_Zscores"],"availableComparisonTabs":["overlap","clinical","survival","alterations","mutations","mrna","protein","generic_assay_armlevel_cna","generic_assay_genetic_ancestry","generic_assay_methylation"]}}]}}

▶ navigate_to_results_view
{
 "studyIds": [
  "lgg_tcga_pan_can_atlas_2018"
 ],
 "genes": [
  "IDH1: MUT",
  "IDH1"
 ],
 "tab": "plots",
 "plotsHorzSelection": {
  "dataType": "MUTATION_EXTENDED",
  "selectedGeneOption": "IDH1",
  "mutationCountBy": "MutationType"
 },
 "plotsVertSelection": {
  "dataType": "mrna",
  "selectedGeneOption": "IDH1",
  "selectedDataSourceOption": "lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna"
 }
}

◀ result
{"success":true,"message":"Navigating to https://www.cbioportal.org/results/plots?cancer_study_list=lgg_tcga_pan_can_atlas_2018&gene_list=IDH1%3A+MUT%0AIDH1&case_set_id=lgg_tcga_pan_can_atlas_2018_all&plots_horz_selection=%7B%22selectedGeneOption%22%3A%223417%22%2C%22dataType%22%3A%22MUTATION_EXTENDED%22%2C%22mutationCountBy%22%3A%22MutationType%22%7D&plots_vert_selection=%7B%22selectedGeneOption%22%3A%223417%22%2C%22dataType%22%3A%22mrna%22%2C%22selectedDataSourceOption%22%3A%22lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna%22%7D","url":"https://www.cbioportal.org/results/plots?cancer_study_list=lgg_tcga_pan_can_atlas_2018&gene_list=IDH1%3A+MUT%0AIDH1&case_set_id=lgg_tcga_pan_can_atlas_2018_all&plots_horz_selection=%7B%22selectedGeneOption%22%3A%223417%22%2C%22dataType%22%3A%22MUTATION_EXTENDED%22%2C%22mutationCountBy%22%3A%22MutationType%22%7D&plots_vert_selection=%7B%22selectedGeneOption%22%3A%223417%22%2C%22dataType%22%3A%22mrna%22%2C%22selectedDataSourceOption%22%3A%22lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna%22%7D","data":{"studyIds":["lgg_tcga_pan_can_atlas_2018"],"studies":[{"studyId":"lgg_tcga_pan_can_atlas_2018","name":"Brain Lower Grade Glioma (TCGA, PanCancer Atlas)","sampleCount":514}],"genes":["IDH1","IDH1"],"caseSetId":"lgg_tcga_pan_can_atlas_2018_all","pageDescription":"Scatter/box plots: IDH1 mrna (y-axis) by IDH1 mutation (x-axis)."}}

═ answer (success)
[View IDH1 mRNA Expression by IDH1 Mutation Status — TCGA LGG (PanCancer Atlas)](https://www.cbioportal.org/results/plots?cancer_study_list=lgg_tcga_pan_can_atlas_2018&gene_list=IDH1%3A+MUT%0AIDH1&case_set_id=lgg_tcga_pan_can_atlas_2018_all&plots_horz_selection=%7B%22selectedGeneOption%22%3A%223417%22%2C%22dataType%22%3A%22MUTATION_EXTENDED%22%2C%22mutationCountBy%22%3A%22MutationType%22%7D&plots_vert_selection=%7B%22selectedGeneOption%22%3A%223417%22%2C%22dataType%22%3A%22mrna%22%2C%22selectedDataSourceOption%22%3A%22lgg_tcga_pan_can_atlas_2018_rna_seq_v2_mrna%22%7D)

**Study:** Brain Lower Grade Glioma (TCGA, PanCancer Atlas) — 514 samples

Scatter/box plots: IDH1 mRNA (y-axis) by IDH1 mutation status (x-axis), broken down by mutation type.