Longitudinal single-cell RNA-seq data of metastatic ovarian cancer

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001006922	Longitudinal single-cell RNA-seq data of prospectively collected tumor tissue samples before and after chemotherapy from 11 HGSOC patients.	Illumina HiSeq 2500 Illumina HiSeq 4000 Illumina NovaSeq 6000	22
EGAD50000001855	The dataset contains single-cell RNA-seq data of 73 tumor samples high-grade serous carcinoma (HGSC) patients sequenced with Novaseq. The samples were collected at primary, interval, and relapse treatment phases from multiple tissue sites. The files provided are fastq files.	Illumina NovaSeq 6000	73

Publications	Citations
Longitudinal single-cell RNA-seq analysis reveals stress-promoted chemoresistance in metastatic ovarian cancer. Zhang K, Erkan EP, Jamalzadeh S, Dai J, Andersson N, Kaipio K, Lamminen T, Mansuri N, Huhtinen K, Carpén O, Hietanen S, Oikkonen J, Hynninen J, Virtanen A, Häkkinen A, Hautaniemi S, Vähärautio A. Sci Adv 8: 2022 eabm1831	120
A platform for efficient establishment and drug-response profiling of high-grade serous ovarian cancer organoids. Senkowski W, Gall-Mas L, Falco MM, Li Y, Lavikka K, Kriegbaum MC, Oikkonen J, Bulanova D, Pietras EJ, Voßgröne K, Chen YJ, Erkan EP, Dai J, Lundgren A, Grønning Høg MK, Larsen IM, Lamminen T, Kaipio K, Huvila J, Virtanen A, Engelholm L, Christiansen P, Santoni-Rugiu E, Huhtinen K, Carpén O, Hynninen J, Hautaniemi S, Vähärautio A, Wennerberg K. Dev Cell 58: 2023 1106-1121.e7	72
Advances in single-cell RNA sequencing and its applications in cancer research. Huang D, Ma N, Li X, Gou Y, Duan Y, Liu B, Xia J, Zhao X, Wang X, Li Q, Rao J, Zhang X. J Hematol Oncol 16: 2023 98	78
Locus-specific LINE-1 expression in clinical ovarian cancer specimens at the single-cell level. Perkiö A, Pradhan B, Genc F, Pirttikoski A, Pikkusaari S, Erkan EP, Falco MM, Huhtinen K, Narva S, Hynninen J, Kauppi L, Vähärautio A. Sci Rep 14: 2024 4322	1
Single-cell transcriptomes identify patient-tailored therapies for selective co-inhibition of cancer clones. Ianevski A, Nader K, Driva K, Senkowski W, Bulanova D, Moyano-Galceran L, Ruokoranta T, Kuusanmäki H, Ikonen N, Sergeev P, Vähä-Koskela M, Giri AK, Vähärautio A, Kontro M, Porkka K, Pitkänen E, Heckman CA, Wennerberg K, Aittokallio T. Nat Commun 15: 2024 8579	21
Decoding the Genomic and Functional Landscape of Emerging Subtypes in Ovarian Cancer. Micoli G, Lavikka K, Li Y, Pirttikoski A, Afenteva D, Senkowski W, Marchi G, Vähärautio A, Muranen TA, Joutsiniemi T, Hietanen S, Virtanen A, Wennerberg K, Hynninen J, Oikkonen J, Hautaniemi S. Cancer Discov 15: 2025 2262-2277	0
Multi-omics analysis reveals the attenuation of the interferon pathway as a driver of chemo-refractory ovarian cancer. Afenteva D, Yu R, Rajavuori A, Salvadores M, Launonen IM, Lavikka K, Zhang K, Pirttikoski A, Marchi G, Jamalzadeh S, Isoviita VM, Li Y, Micoli G, Erkan EP, Falco MM, Ungureanu D, Lahtinen A, Oikkonen J, Hietanen S, Vähärautio A, Sur I, Virtanen A, Färkkilä A, Hynninen J, Muranen TA, Taipale J, Hautaniemi S. Cell Rep Med 6: 2025 102316	0