Data · dataset · 2025
RNA-Seq data from Ovarian Tumours
Listed in Researchdata.se
The data presented in this item contain sensitive information that cannot be shared openly.
Description
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 (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) Data Set Description Samples: 81 fresh frozen tumor tissue samples, either benign or malignant, from women with suspected ovarian cancer were used for analysis of mRNA expression.
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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&SEQ Technology platform, SciLifeLab, National Genomics Infrastructure Uppsala, Sweden.
Links
Where it is published
- DOI doi.org/10.17044/scilifelab.28342484 ↗
DOI / persistent id · from researchdata se
Catalogue records · 1
- OAI-PMH record api.researchdata.se/oai-pmh?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3A… ↗
metadata API · from researchdata se
Topics
- From keywords
- Earth & Environmental Science · Life Sciences · Medicine & Health
- Inferred from text
- Cancer 75% · Mass spectrometry 65% · Oncology and carcinogenesis 70% · RNA sequencing 65% · Sequencing 75%
Provenance · 1 source records, 13 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| Researchdata.se | oai:researchdata.se:doi-10-17044-scilifelab-28342484/0 | 12 d ago | JSON v1 |
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| concepts[modality].local:modality:mass-spectrometry | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:rna-seq | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:sequencing | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/description |
| license_text | source · researchdata se | connector:researchdata_se@1.0.0 | |
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| title | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/title |