Ena-DATASET-MDACC-15-02-2018-19:25:06:945-290 - samples
Ontology highlight
ABSTRACT:
PROVIDER: EGAD00001003961 | EGA |
REPOSITORIES: EGA
Similar Datasets
Project description:Cancer gene panel (T200.1) sequencing data from tumor/normal pairs for adult type ovarian granulosa cell tumor sequencing project. This data set contains 55 tumor panel sequencing data and 44 matched normal panel sequencing data generated using the MD Anderson Cancer Center T200.1 cancer gene hybrid capture platform, with sequencing performed on an Illumina HiSeq 2000. This dataset contains BAM files generated by aligning paired-end reads to the hg19 reference genome.
| EGAD00001004091 | EGA
Project description:mRNA expression profiling in human granulosa cell tumor cell line and normal granulosa cells
2012-01-26 | E-MTAB-957 | biostudies-arrayexpress
Project description:Purpose: The goals of this study is to compare and profile the smallRNA transcriptome of the placenta in preeclamptic and normal patients using RNA sequencing. Methods: Placental and Placental vesicles (STB-EVs) smallRNA profiles of normal and preeclamptic patients were generated by deep sequencing using Illumina HISEQ. FASTq.gz files were compressed with OASIS compressor and alignment was done with OASIS 2.0 ( by trimmimng with trimmomatic, aligning using default OASIS 2.0 aligning papameters). Quantitative PCR validation was performed using TaqMan gene expression assays Results: This contains a set of three parallel smallRNA sequencing experiments involving placenta tissue, medium/large STB-EVs and small STB-EVs. Comparison between PE and normal pregnancy placental tissue revealed 134 (p-value of <0.05 ) while in medium/large STB-EVs, 101 and in small STB-EVs, 16 (adjusted P-value of <0.05) differentially expressed small RNA We identified a number of mechanistic and biomarker targets, which were validated with qRT–PCR and confirmed to be signifficantly DE. The differentially expressed analysis identified potential yet undescribed small RNAs that may contribute to the pathogenesis of preeclampsia or/and may act as biomarkers of the disease. Conclusions: Our study represents the first combined analysis of placenta, medium/large and small STB-EV transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results identified potential Placenta EV small RNA biomarkers that can help diagnose the preeclampsia
2021-12-17 | GSE190972 | GEO
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
Project description:Canine Tumor Sequencing - Pilot Project (Exomes)
| PRJNA247493 | ENA
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
Project description:The Weinreb amides 2a,b were prepared from the α,α-dimethoxyacetic acids 1c,d. A number of representative nucleophilic additions (RMgX and RLi) on 2 afforded α-ketoacetals 3a-j in 70-99% yield. These compounds represent a versatile arrangement of functional groups of significant synthetic value, as demonstrated in the synthesis of (±)-salbutamol.
| S-EPMC6268805 | biostudies-literature
Project description:Inhibin α knockout (Inha-/-) female mice develop sex cord-stromal ovarian cancer with complete penetrance and previous studies demonstrate that the pituitary gonadotropins [follicle stimulating hormone (FSH) and luteinizing hormone (LH)] are influential modifiers of granulosa cell tumor development and progression in inhibin-deficient females. Recent studies have demonstrated that Inha-/- ovarian follicles develop precociously to the early antral stage in prepubertal mice without any increase in serum FSH and these studies suggested that in the absence of inhibins, granulosa cells differentiate abnormally, and thus at sexual maturity may undergo an abnormal response to gonadotropin signaling. To test this hypothesis, we stimulated immature WT and Inha-/- female mice prior to gross tumor formation with gonadotropin analogs, and subsequently examined post-gonadotropin induced ovarian follicle development, as well as preovulatory and hCG-induced gene expression changes in granulosa cells. We find that at three weeks of age, inhibin-deficient ovaries do not show further antral development nor undergo cumulus expansion. Widespread alterations in the transcriptome of gonadotropin-treated Inha-/- granulosa cells suggest that gonadotropins initiate an improper program of cell differentiation in Inha-/- cells. Overall, our experiments reveal that inhibins are essential for the normal gonadotropin-dependent response of granulosa cells. (2) Genotypes (WT, Inh KO) collected from 2 preovulatory granulosa cells with and without hCG, in triplicate independent samples
2011-02-01 | E-GEOD-20466 | biostudies-arrayexpress
Project description:The Forkhead Box, FOXO1 and FOXO3, transcription factors regulate multiple functions in mammalian cells. Selective inactivation of the Foxo1 and Foxo3 genes in murine ovarian granulosa cells severely impairs follicular development and apoptosis causing infertility, and as shown herein, granulosa cell tumor (GCT) formation. Coordinate depletion of the tumor suppressor Pten gene in the Foxo1/3 strain enhanced the penetrance and onset of GCT formation A direct comparison of ovarian granulosa cells from wild type d25 and FOXO/PTEN knockout granulosa cell tumors.
2015-06-17 | E-GEOD-67662 | biostudies-arrayexpress
Project description:Contains a row for each intergenic cluster in each sample, indicating whether our analysis called the cluster "present" or "absent" in the sample. Intergenic clusters are novel (unannotated) genes detected by aligning Arabidopsis cDNAs/ESTs to the genome. Cluster coordinates refer to version 3 of the TIGR annotation as submitted to GenBank (GI numbers 22330780, 22326553, 22331929, 22329272, 22328163).
2010-06-05 | E-GEOD-638 | biostudies-arrayexpress