数据表13：用于实体癌组织分子表征的综合下一代测序系统的验证和临床应用

数据集获取（Figshare）

• 源站标题：Data_Sheet_13_Validation and Clinical Applications of a Comprehensive Next Generation Sequencing System for Molecular Characterization of Solid Cancer Tissues.pdf
• DOI：10.3389/fmolb.2019.00082.s005
• 发布日期：2019-09-25
• 文件数：1 个
• 文件总体积：48.97 KB
• 源站页面：https://frontiersin.figshare.com/articles/dataset/Data_Sheet_13_Validation_and_Clinical_Applications_of_a_Comprehensive_Next_Generation_Sequencing_System_for_Molecular_Characterization_of_Solid_Cancer_Tissues_pdf/9901997

命令行下载

curl -L -o "Data_Sheet_13_Validation and Clinical Applications of a Comprehensive Next Generation Sequencing System for Molecular Characterization of Solid Cancer.pdf" "https://ndownloader.figshare.com/files/17798114"

文件清单

• Data_Sheet_13_Validation and Clinical Applications of a Comprehensive Next Generation Sequencing System for Molecular Characterization of Solid Cancer.pdf（48.97 KB）

文件总体积 48.97 KB（源站 API 实测）。

数据加载示例（图像类）

from PIL import Image
import glob, os

files = (glob.glob(os.path.join(path, "**", "*.png"), recursive=True)
       + glob.glob(os.path.join(path, "**", "*.jpg"), recursive=True)
       + glob.glob(os.path.join(path, "**", "*.tif"), recursive=True))
print("图像文件数:", len(files))
img = Image.open(files[0]); print("尺寸/模式:", img.size, img.mode)

# torchvision Dataset 方式:
# from torchvision import datasets
# ds = datasets.ImageFolder(path)  # 要求 子目录=类别

目录组织与标注格式以源站说明和下载后实际文件为准。

数据说明

Identification of somatic molecular alterations in primary and metastatic solid tumor specimens can provide critical information regarding tumor biology and its heterogeneity, and enables the detection of molecular markers for clinical personalized treatment assignment. However, the optimal methods and target genes for clinical use are still being in development. Toward this end, we validated a targeted amplification-based NGS panel (Oncomine comprehensive assay v1) on a personal genome machine sequencer for molecular profiling of solid tumors. This panel covers 143 genes, and requires low amounts of DNA (20 ng) and RNA (10 ng). We used 27 FFPE tissue specimens, 10 cell lines, and 24 commercial reference materials to evaluate the performance characteristics of this assay. We also evaluated the performance of the assay on 26 OCT-embedded fresh frozen specimens (OEFF). The assay was found to be highly specific (>99%) and sensitive (>99%), with low false-positive and false-negative rates for single-nucleotide variants, indels, copy number alterations, and gene fusions. Our results indicate that this is a reliable method to determine molecular alterations in both fixed and fresh frozen solid tumor samples, including core needle biopsies.

许可

CC BY 4.0

引用

学术使用请引用 DOI 10.3389/fmolb.2019.00082.s005（source: https://frontiersin.figshare.com/articles/dataset/Data_Sheet_13_Validation_and_Clinical_Applications_of_a_Comprehensive_Next_Generation_Sequencing_System_for_Molecular_Characterization_of_Solid_Cancer_Tissues_pdf/9901997）。