Q (haiku): How many studies are in cBioPortal?

▶ list_studies
{
 "limit": "100"
}

✗ error
<tool_use_error>Error: No such tool available: mcp__navigator__list_studies</tool_use_error>

▶ list_studies
{
 "limit": 100
}

◀ result
{"result":[{"cancer_study_identifier":"msk_impact_50k_2026","name":"MSK-IMPACT 50K Clinical Sequencing Cohort (MSK, Cancer Cell 2026)","type_of_cancer_id":"mixed","sample_count":54331,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=msk_impact_50k_2026"},{"cancer_study_identifier":"msk_ch_2023","name":"Cancer Therapy and Clonal Hematopoiesis (MSK, Blood Adv 2023)","type_of_cancer_id":"mixed","sample_count":42714,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=msk_ch_2023"},{"cancer_study_identifier":"msk_met_2021","name":"MSK MetTropism (MSK, Cell 2021)","type_of_cancer_id":"mixed","sample_count":25775,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=msk_met_2021"},{"cancer_study_identifier":"msk_chord_2024","name":"MSK-CHORD (MSK, Nature 2024)","type_of_cancer_id":"mixed","sample_count":25040,"has_guide":true,"url":"https://www.cbioportal.org/study/summary?id=msk_chord_2024"},{"cancer_study_identifier":"msk_ch_2020","name":"Cancer Therapy and Clonal Hematopoiesis (MSK, Nat Genet 2020)","type_of_cancer_id":"mixed","sample_count":24146,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=msk_ch_2020"},{"cancer_study_identifier":"msk_impact_2017","name":"MSK-IMPACT Clinical Sequencing Cohort (MSK, Nat Med 2017)","type_of_cancer_id":"mixed","sample_count":10945,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=msk_impact_2017"},{"cancer_study_identifier":"pan_origimed_2020","name":"China Pan-cancer (OrigiMed, Nature 2022)","type_of_cancer_id":"mixed","sample_count":10194,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=pan_origimed_2020"},{"cancer_study_identifier":"sarcoma_msk_2022","name":"Soft Tissue and Bone Sarcoma (MSK, Nat Commun 2022)","type_of_cancer_id":"soft_tissue","sample_count":7494,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=sarcoma_msk_2022"},{"cancer_study_identifier":"crc_msk_2026","name":"Colorectal Adenocarcinoma (MSK, 2026)","type_of_cancer_id":"read","sample_count":7237,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=crc_msk_2026"},{"cancer_study_identifier":"breast_msk_2026","name":"CCNE1 Amplifications in Breast Cancer (MSK, 2026)","type_of_cancer_id":"breast","sample_count":6318,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=breast_msk_2026"},{"cancer_study_identifier":"pancan_pdmr_2025","name":"NCI Patient-Derived Models Repository (PDMR, 2025)","type_of_cancer_id":"mixed","sample_count":6272,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=pancan_pdmr_2025"},{"cancer_study_identifier":"msk_ctdna_vte_2024","name":"MSK ctDNA Sequencing Cohort (MSK, Nature Medicine 2024)","type_of_cancer_id":"mixed","sample_count":5567,"has_guide":false,"url":"https://www.cbioportal.org/study/summary?id=msk_ctdna_vte_2024"},{"cancer_study_identifier":"pancan_mimsi_msk_2024","name":"Mixed Tumors - MiMSI Cohort (MSK, Nat Commun 2024)","type_of_ … (21030 more chars)

▶ clickhouse_run_select_query
{
 "query": "SELECT COUNT(*) as total_studies FROM cancer_study"
}

◀ result
{"rows":[{"total_studies":548}]}

═ answer (success)
**cBioPortal contains 548 studies**, representing a comprehensive collection of cancer genomics datasets spanning:

- **Large consortium projects:** TCGA, ICGC/PCAWG, TARGET (pediatric)
- **Institution-specific cohorts:** MSK-IMPACT and its variants (MSK, 2017–2026), specialized MSK projects (Met Tropism, Clonal Hematopoiesis, CHORD, ctDNA)
- **Disease-specific studies:** single-disease deep dives and multi-patient series
- **Cell line repositories:** CCLE (Broad, multiple versions)
- **International collaborations:** METABRIC (breast), MDS IWG, China Pan-cancer (OrigiMed), GLASS (glioma)

The largest studies by sample count are MSK-IMPACT 50K (~54k samples), Cancer Therapy & Clonal Hematopoiesis 2023 (~43k), and MSK MetTropism (~26k). You can browse all studies at [cBioPortal Studies](https://www.cbioportal.org/study/summary).