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EGAD00000000046

ABSTRACT: RNA-SEQ data from 3 recurrent and 1 ovarian primary Granulosa Cell Tumour samples

PROVIDER: EGAD00000000046 | EGA |

REPOSITORIES: EGA

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Mutation of FOXL2 in granulosa-cell tumors of the ovary.

Shah Sohrab P SP Köbel Martin M Senz Janine J Morin Ryan D RD Clarke Blaise A BA Wiegand Kimberly C KC Leung Gillian G Zayed Abdalnasser A Mehl Erika E Kalloger Steve E SE Sun Mark M Giuliany Ryan R Yorida Erika E Jones Steven S Varhol Richard R Swenerton Kenneth D KD Miller Dianne D Clement Philip B PB Crane Colleen C Madore Jason J Provencher Diane D Leung Peter P DeFazio Anna A Khattra Jaswinder J Turashvili Gulisa G Zhao Yongjun Y Zeng Thomas T Glover J N Mark JN Vanderhyden Barbara B Zhao Chengquan C Parkinson Christine A CA Jimenez-Linan Mercedes M Bowtell David D L DD Mes-Masson Anne-Marie AM Brenton James D JD Aparicio Samuel A SA Boyd Niki N Hirst Martin M Gilks C Blake CB Marra Marco M Huntsman David G DG

The New England journal of medicine 20090610 26

<h4>Background</h4>Granulosa-cell tumors (GCTs) are the most common type of malignant ovarian sex cord-stromal tumor (SCST). The pathogenesis of these tumors is unknown. Moreover, their histopathological diagnosis can be challenging, and there is no curative treatment beyond surgery.<h4>Methods</h4>We analyzed four adult-type GCTs using whole-transcriptome paired-end RNA sequencing. We identified putative GCT-specific mutations that were present in at least three of these samples but were absent ...[more]

PMID: 19516027

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EGAD00000000047

Project description:Signal data for from 3 recurrent and 1 ovarian primary Granulosa Cell Tumour samples

| EGAD00000000047 | EGA

34592c2a-a2fc-477f-8c27-4224b084137c - samples

Project description:RNA sequencing dataset for primary and recurrent ovarian granulosa cell tumors consists of 24 .bam files with aligned reads, including 8 primary and 16 recurrent tumors. Total RNA was extracted from cryopreserved tissue of adult-type granulosa cell tumor samples. Libraries were prepared from cDNA using the NuGEN Ovation Ultralow Library System V2 (San Carlos, CA). Paired-end bulk RNA sequencing was performed on the Illumina HiSeq 2000 platform. RNA sequencing reads were aligned to the hg19/GRCh37 reference human genome using the STAR software (version 2.6.0b) with default parameters. Samples description: GCT001 Adult-type Granulosa Cell Tumor: recurrent tumor GCT002 Adult-type Granulosa Cell Tumor: primary tumor GCT003 Adult-type Granulosa Cell Tumor: recurrent tumor GCT004 Adult-type Granulosa Cell Tumor: primary tumor GCT005 Adult-type Granulosa Cell Tumor: recurrent tumor GCT006 Adult-type Granulosa Cell Tumor: recurrent tumor GCT007 Adult-type Granulosa Cell Tumor: primary tumor GCT008 Adult-type Granulosa Cell Tumor: recurrent tumor GCT009 Adult-type Granulosa Cell Tumor: recurrent tumor GCT010 Adult-type Granulosa Cell Tumor: recurrent tumor GCT011 Adult-type Granulosa Cell Tumor: primary tumor GCT012 Adult-type Granulosa Cell Tumor: recurrent tumor GCT013 Adult-type Granulosa Cell Tumor: recurrent tumor GCT014 Adult-type Granulosa Cell Tumor: recurrent tumor GCT015 Adult-type Granulosa Cell Tumor: recurrent tumor GCT016 Adult-type Granulosa Cell Tumor: recurrent tumor GCT017 Adult-type Granulosa Cell Tumor: recurrent tumor GCT018 Adult-type Granulosa Cell Tumor: primary tumor GCT019 Adult-type Granulosa Cell Tumor: recurrent tumor GCT020 Adult-type Granulosa Cell Tumor: primary tumor GCT021 Adult-type Granulosa Cell Tumor: primary tumor GCT022 Adult-type Granulosa Cell Tumor: recurrent tumor GCT023 Adult-type Granulosa Cell Tumor: recurrent tumor GCT024 Adult-type Granulosa Cell Tumor: primary tumor

| EGAD00001009108 | EGA

Ovarian granulosa cell tumor and normal granulosa cells transcriptomes

Project description:RNA was extracted from normal human granulosa cells from IVF patients (hGC1 and hGC2 samples) and from adult-type ovarian granulosa cell tumor samples (H1, H8, H20, H23, H24, H28, H30, H33, H4, H18) as described in Jamieson et al, 2010. RNA from all samples was linearly amplified using the Whole Transcriptome Amplification kit (Sigma), starting from 300ng of RNA, and with 12 amplifications cycles. cDNA was purified on columns and sent to the Nimblegen platform for hybridization and transcriptional profiling. The FOXL2 locus was gentoyped in tumor samples, and all samples were found positive for the recurrent somatic mutation p.Cys134Trp which is present in >95% of adult-type ovarian granulosa cell tumors (Shah et al, 2009).

2012-08-02 | E-MTAB-483 | biostudies-arrayexpress

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Human ovarian granulosa cell methylome

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Single-cell RNA-seq of the goat ovarian granulosa cells samples from high and low fertility groups

Project description:The goal of this study was designe to search for the granulosa cells contribution on fertility. Single-cell RNA-seq of the goat ovarian granulosa cells samples from high fertility group (>three babys per birth) and low fertility group (< two babys per birth). And each group was divided into three subgroup based in the size of follicles: large, medium, and small follicles.

2020-08-01 | GSE135897 | GEO

Proteomic profiling of glioblastoma tumour tissue

Project description:Using HiRIEF LC-MS/MS, we analysed 10 GBM tumour tissue samples ran in one TMT10 set. The set consisted of 7 primary tumours and 3 non-matched recurrent tumours. One primary tumour was highly necrotic.

2022-12-23 | PXD027341 | Pride

Gene expression profile in porcine ovarian granulosa cells during short-term in vitro culture

Project description:The porcine ovarian granulosa cells, when analysed during in vitro cultures, may provide new interesting data on the processes associated with in vitro culture of porcine oocytes, as well as assisted reproduction and in vitro fertilisation processes used in the livestock industry. Porcine ovarian granulosa cells were obtained from 43 crossbred Landrace gilts with a median age of 170 days and weight of 98 kg after slaugheter. The cells were harvested after 0h, 48h, 96h and 144h after begining of culture and submited to RNA isolation and microarray analisys. In this study, we demonstrated the gene expression profile of short term primary cultured porcine ovarian granulosa cells.

2019-07-17 | GSE134361 | GEO

Expression profiling of ovarian cancer cell lines

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Deep sequencing and methylation profiling of both treated and untreated primary and recurrent tumours confirms the heterogeneous and dynamic nature of glioblastoma

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