Assemblies-of-putative-SARS-CoV2-spike-encoding-mRNA-sequences-for-vaccines-BNT-162b2-and-mRNA-1273
包含Moderna和Pfizer/BioNTech COVID-19疫苗的RNA序列信息，用于区分疫苗RNA与病毒RNA。
基本信息
资源简介
该数据集包含Moderna和Pfizer/BioNTech COVID-19疫苗的RNA序列信息，这些信息是通过对疫苗剩余部分的RNA进行提取和分析得到的。数据集的目的是为了帮助研究人员区分疫苗RNA和病毒RNA，以及在设计核酸监测测试时避免混淆接种疫苗和感染病毒的测试对象。
下载信息
注册下载
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使用方式
数据集获取
git clone https://github.com/NAalytics/Assemblies-of-putative-SARS-CoV2-spike-encoding-mRNA-sequences-for-vaccines-BNT-162b2-and-mRNA-1273.git
curl -L -o repo.zip https://github.com/NAalytics/Assemblies-of-putative-SARS-CoV2-spike-encoding-mRNA-sequences-for-vaccines-BNT-162b2-and-mRNA-1273/archive/refs/heads/main.zip
unzip repo.zip
源站 README 摘录（使用方式）
Assemblies-of-putative-SARS-CoV2-spike-encoding-mRNA-sequences-for-vaccines-BNT-162b2-and-mRNA-1273
##version 0.21Beta 04/14/21: (updates intended to (i) clarify the clinical and research importance of sequence information and strand topology measurements, and (ii) clarify that the mRNA sequence is not a recipe to produce vaccine)##
Dae-Eun Jeong, Matthew McCoy, Karen Artiles, Orkan Ilbay, Andrew Fire*, Kari Nadeau, Helen Park, Brooke Betts, Scott Boyd, Ramona Hoh, and Massa Shoura*
Departments of Pathology, Genetics, Pediatrics, and Medicine, Stanford University School of Medicine and Veterans Affairs Palo Alto Medical Center
*Correspondence: afire@stanford.edu and/or massa86@stanford.edu
Abstract: RNA vaccines have become a key tool in moving forward through the challenges raised both in the current pandemic and in numerous other public health and medical challenges. With the rollout of vaccines for COVID-19, these synthetic mRNAs have become broadly distributed RNA species in numerous human populations. Despite their ubiquity, sequences are not always available for such RNAs. Standard methods facilitate such sequencing. In this note, we provide experimental sequence information for the RNA components of the initial Moderna (https://pubmed.ncbi.nlm.nih.gov/32756549/) and Pfizer/BioNTech (https://pubmed.ncbi.nlm.nih.gov/33301246/) COVID-19 vaccines, allowing a working assembly of the former and a confirmation of previously reported sequence information for the latter RNA.
Objective: Sharing of sequence information for broadly used therapeutics has substantial benefit in design of improved clinical tools and precise diagnostics. As examples of such applications, (i) Any medical or public health analysis relying on high throughput sequencing data to track SARS-COV2 and its variants would benefit from knowledge of vaccine sequences in order to distinguish RNA sequencing reads coming from the vaccine from those of viral origin, and (ii) Diagnostic labs designing nucleic acid surveillance tests (like PCR or LAMP assays) can benefit from vaccine sequence information to avoid confusion between vaccinated and infected test subjects when analyzing assay results.
Description: For this work, RNAs were obtained as discards from the small portions of vaccine doses that remained in vials after immunization; such portions would have been required to be ot
数据加载示例（表格/文本类）
import pandas as pd, glob, os
files = (glob.glob(os.path.join(path, "**", "*.csv"), recursive=True)
+ glob.glob(os.path.join(path, "**", "*.tsv"), recursive=True)
+ glob.glob(os.path.join(path, "**", "*.xlsx"), recursive=True))
print("数据文件:", files)
df = pd.read_csv(files[0])
print(df.shape); print(df.columns.tolist()); print(df.head(3))
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