RNA-Seq data from Ovarian Tumours

The data presented in this item contain sensitive information that cannot be shared openly. Work on depositing the data in FEGA Sweden has been initiated. FEGA Sweden is a national node of the Federated European Genome-phenome Archive (FEGA), which allows data to be shared under controlled access. The datasets in FEGA Sweden are findable through the European Genome-phenome Archive web portal (https://ega-archive.org).This dataset refers to the raw data used in the preprint "Deep plasma proteomics identifies and validates an eight-protein biomarker panel that separate benign from malignant tumors in ovarian cancer" available on MedRxiv (DOI: 10.1101/2024.10.10.24315232v1)<b>Data Set Description</b>Samples: 81 fresh frozen tumor tissue samples, either benign or malignant, from women with suspected ovarian cancer were used for analysis of mRNA expression.Library Preparation and Sequencing: Sequencing libraries were prepared from 122-194 ng (three samples), 200 ng (seven samples) or 500 ng (71 samples) total RNA using the TruSeq stranded mRNA library preparation kit (cat# 20020595, Illumina Inc.) including polyA-selection. The libraries were then sequenced on a NovaSeq 6000 system (Illumina Inc.) on S4 flowcells with version 1.5 sequencing chemistry on three lanes. Paired-end sequencing of with read lengths of 150 bp was used.Library preparation and sequencing was performed by the SNP&amp;SEQ Technology platform, SciLifeLab, National Genomics Infrastructure Uppsala, Sweden.<br>本数据集包含敏感信息，无法公开共享。目前已启动将本数据集存入瑞典FEGA节点的相关工作。瑞典FEGA是欧洲基因组-表型组档案（Federated European Genome-phenome Archive, FEGA）的国家级节点，支持受控访问模式下的数据共享。瑞典FEGA的数据集可通过欧洲基因组-表型组档案官方门户网站（https://ega-archive.org）检索获取。 本数据集对应预印本论文《深度血浆蛋白质组学鉴定并验证可区分卵巢癌良恶性肿瘤的八蛋白生物标志物组合》，该预印本发布于MedRxiv，DOI: 10.1101/2024.10.10.24315232v1。 <b>数据集描述</b> 样本：本研究纳入81例疑似卵巢癌女性患者的新鲜冰冻肿瘤组织样本（分为良性与恶性两类），用于mRNA表达分析。 文库制备与测序：采用TruSeq链特异性mRNA文库制备试剂盒（货号：20020595，Illumina公司），结合polyA富集策略，以122~194 ng（3例样本）、200 ng（7例样本）或500 ng（71例样本）的总RNA为起始量构建测序文库。随后使用NovaSeq 6000测序系统（Illumina公司），在S4流动槽上采用v1.5测序化学试剂，通过3个测序通道完成测序。测序模式为双端测序，读长为150 bp。 本数据集的文库制备与测序工作由瑞典乌普萨拉国家基因组基础设施SciLifeLab下属的SNP&SEQ技术平台完成。