GEO DataSets

(Submitter supplied) To understand the cellular diversity within malignant ascites, we profiled ~11,000 single cells from 22 samples by Smartseq2 and by 10x.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

10906 Samples

Download data: TSV

(Submitter supplied) Microarrays were used to examine gene expression changes in the surgical resections of high-grade serous ovarian cancer patients exhibiting clinically distinct levels of ascites volume. The present studies primary aim was to determine if there is a molecular gene expression difference between the patients presenting at time of surgery when high volumes ascites cases were compared to those with low volume ascites. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

19 Samples

Download data: TXT

(Submitter supplied) Gene expression-based molecular subtypes of high grade serous tubo-ovarian cancer (HGSOC) are distinguished by differential immune and stromal infiltration and may provide opportunities for the development of targeted therapies. Integration of molecular subtypes into clinical trials has been hindered by inconsistent subtyping methodology. Adopting two independent approaches, we derived and internally validated algorithms for molecular subtype prediction from gene-expression array data in 1650 tumors. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL27054

4077 Samples

Download data: CSV

(Submitter supplied) https://www.nanostring.com/support/product-support/support-documentation

Organism:

Homo sapiens

1 Series

4077 Samples

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(Submitter supplied) As the most fatal type of gynecological cancers, high-grade serous ovarian cancer (HGSOC) exhibits heterogeneity that obstacles therapeutics. Up to date, the pathogenesis of HGSOC remains poorly understood. Here, we performed the deep single-cell RNA sequencing (scRNA-seq) using 59,324 cells isolated from seven treatment-naïve HGSOC patients at early or late tumor stages and five age-matched non-malignant ovarian samples. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

12 Samples

Download data: MTX, TSV

(Submitter supplied) Profiling of active chromatin and gene expression in primary ovarian cancer specimens

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18573

59 Samples

Download data: NARROWPEAK, TXT

(Submitter supplied) Understanding the regulatory landscape of the human genome is a central question in complex trait genetics. Most single nucleotide polymorphisms (SNPs) associated with cancer risk lie in non protein-coding regions, implicating regulatory DNA elements as functional targets of susceptibility variants. Here, we describe genome-wide annotation of regions of open chromatin and histone modification in fallopian tube and ovarian surface epithelial cells (FTSECs, OSECs), the debated cellular origins of high-grade serous ovarian cancers (HGSOCs), and in endometriosis epithelial cells (EECs), the likely precursor of clear cell ovarian carcinomas (CCOCs). more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

43 Samples

Download data: NARROWPEAK

(Submitter supplied) Epithelial ovarian cancer (EOC) is the most lethal gynecological tumor in developed countries and is characterized by high biological and molecular heterogeneity. High-grade serous ovarian carcinoma (HGSOC) is the most frequent and intractable form of the disease, mainly due to its rapid dissemination into the abdominal cavity, a process that is tightly linked to peritoneal ascites. Despite several studies provided insights into the genetic and epigenetic alterations relevant in EOC, the precise molecular alterations involved in tumor onset and progression remain largely unknown. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

8 Samples

Download data: TXT

(Submitter supplied) Sequencing of olaparib-resistant PEO1 derivatives (C4, C5, C10 and C18) and parental PEO1 (P1 and P2) cells was performed in order to determine mechanisms of acquired resistance in the resistant cell lines. PEO1 parental cell lines were authenticated prior to sequencing. PEO1 parental were confirmed to be BRCA2-mutated (5139C>G). Olaparib PEO1 resistant cells were generated through a step-wise escalation of olaparib (10nM to 8uM olaparib). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

6 Samples

Download data: TXT

(Submitter supplied) Purpose: Investigate cellular heterogeneity in a fresh human ovarian cancer tissue sample Methods: Enzymatic digestion of fresh tissue sample collected from the operating room to produce single cell suspension. Cells were labelled with fluorescent antibodies to CD3, CD14, CD19, CD20, CD56 and FACS sorted to remove immune cells. The negative population was used for sequencing. Single cells were processed using the Fluidigm C1 Chip to generate barcoded cDNA for each cell. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

93 Samples

Download data: TXT

(Submitter supplied) To investigate whether the EVs from cancer cell lines could change gene expression in mesothelial cells, the EVs from five types of cells (ES-2 cells, A2780 cells, SKOV3 cells, HOSE1 cells and HOSE2 cells) were added to MeT-5A cells (Fig. 2a). All three selected cancer cell lines expressed metastatic phenotypes in mouse model (Fig. 1c), and EVs from HOSE2 cell line, established together with HOSE1 cell line, was also set as control. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17077

20 Samples

Download data: TXT

(Submitter supplied) Using single-cell RNA sequencing, we assessed the systemic impact of chemotherapy on tumor, stromal, and immune cells in the high-grade serous ovarian carcinoma. The results reveal remodeling of the T cell profiles towards a more naïve state and the upregulation of the epithelial-mesenchymal transition signatures in surviving tumor cells. These alterations suggest cellular and molecular targets for the therapeutic development in chemotherapy-resistant ovarian cancer.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Third-party reanalysis

Platform:

GPL16791

11 Samples

Download data: CSV, RDS

(Submitter supplied) To investigate the tumor-associated antigens and their functional relationships in ovarian cancer, we provide single-cell 5’ RNA sequencing data of 18,299 cells from 9 patients with ovarian high-grade serous ovarian carcinoma (HGSOC). In the heterogeneous complexity, we refined single-cell profiles by public methods for cell-type annotation and aneuploid prediction, resulting in the cellular composition of the epithelial tumor, tumor-infiltrating immune cells, and the other stromal cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24676 GPL20795 GPL16791

9 Samples

Download data: TSV

(Submitter supplied) 8 spatial RNA-seq experiments (10x Genomics Visium) and 5 single-cell RNA-seq experiments (10x Genomics Chromium) using high-grade serous ovarian carcinoma (HGSOC) samples obtained from the ovaries during the interval debulking surgery

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

13 Samples

Download data: MTX, TSV, TXT, ZIP

(Submitter supplied) We characterized high-grade ovarian serous carcinoma TIME based on integrative single-cell transcriptomics analysis of public and in-house datasets. We identified a distinct transcriptomic landscape of both immune and non-immune cells between the dense and more sparse stromal tumors. High stromal tumors contain a lower fraction of infiltrating activated CXCR3+ GRZB+ IFN+ IL2R+ CD8+ T and NCR3+ KLRD1+ natural killer (NK) cells and CXCL1+ macrophages. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

4 Samples

Download data: H5

(Submitter supplied) A 3D multicellular model (MCM) of high grade serous ovarian cancer (HGSOC) consisting of primary human adipocytes, fibroblasts, and mesothelial cells co-cultured with HGSOC cell lines was used to examine the effect of platelets on the ovarian metastasis microenvironment.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

10 Samples

Download data: TXT

(Submitter supplied) The effect of platelets on malignant cell growth was assessed on high-grade serous ovarian cancer cells grown in spheroids.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

6 Samples

Download data: TXT