2020
Inferring clonal composition from multiple tumor biopsies
Manica M, Kim H, Mathis R, Chouvarine P, Rutishauser D, De Vargas Roditi L, Szalai B, Wagner U, Oehl K, Saba K, Pati A, Saez-Rodriguez J, Roy A, Parsons D, Wild P, Martínez M, Sumazin P. Inferring clonal composition from multiple tumor biopsies. Npj Systems Biology And Applications 2020, 6: 27. PMID: 32843649, PMCID: PMC7447821, DOI: 10.1038/s41540-020-00147-5.Peer-Reviewed Original ResearchConceptsCopy number alterationsEffects of copy number alterationsGenetic instabilityClonal evolutionClonal compositionDrug-resistant prostate cancerAcquisition of mutationsDrug-resistant subclonesPhylogeny reconstructionTumor phylogeniesRelative abundanceTumor biopsiesWilms tumorProstate cancerGenetic alterationsGenetic profileMultiple biopsiesTumor profilingHepatocellular carcinomaPhylogenyTumorSubclonesAnalysis of simulated dataMutationsBiopsy
2019
A Single-Cell Atlas of the Tumor and Immune Ecosystem of Human Breast Cancer
Wagner J, Rapsomaniki M, Chevrier S, Anzeneder T, Langwieder C, Dykgers A, Rees M, Ramaswamy A, Muenst S, Soysal S, Jacobs A, Windhager J, Silina K, van den Broek M, Dedes K, Martínez M, Weber W, Bodenmiller B. A Single-Cell Atlas of the Tumor and Immune Ecosystem of Human Breast Cancer. Cell 2019, 177: 1330-1345.e18. PMID: 30982598, PMCID: PMC6526772, DOI: 10.1016/j.cell.2019.03.005.Peer-Reviewed Original ResearchConceptsBreast cancerBreast cancer ecosystemsTumor-associated macrophagesResponse to therapyHuman breast tumorsTumor cell compositionHuman breast cancerNon-tumor tissue samplesPrecision medicine approachT cellsBreast tumorsImmune cellsPoor prognosisAntibody panelTumor cellsTumor ecosystemHeterogeneous diseaseClinical dataDisease progressionTumorSingle-cell atlasMass cytometryPhenotypic abnormalitiesMedicine approachImmune ecosystem