COVID-19 RNA-Seq数据集
COVID-19 RNA-Seq转录组单细胞和批量数据的整理列表。
基本信息
资源简介
COVID-19 RNA-Seq数据集
【数据集背景】
本数据集源站标题为《urmi-21/COVID-19-RNA-Seq-datasets》。源站首次发布：2020-06-04。
【数据内容】
源站原始描述：A repository for sharing information on available COVID-19 RNA-Seq datasets **NOTE:** I am no longer actively adding new studies but new contributions are still welcome. # Introduction This is a repository for sharing information on available COVID-19 RNA-Seq datasets. Please feel free to contribute to this repository (see contribution guide). If you have suggestions, please notify me by opeining a new issue. **NOTE 1: If you are facing problems while downloading data with SRA Toolkit, please tr…
【主题与分类】
主题标签：coronavirus、covid-19、covid19-data、rna-seq、rna-seq-datasets、sars-cov-2、single-cell。
【适用方向】
组学数据适用于生物标志物发现与分子分型相关建模研究。
【获取与许可】
源站页面：https://github.com/urmi-21/COVID-19-RNA-Seq-datasets
使用许可：MIT。
【使用注意】
· 源站最后修改于 2022-03-14，引用时请注意版本时效。
下载信息
注册下载
需要注册 Kaggle 账号并登录后下载，适合需要跟踪下载记录和使用 API 的用户。
暂未开放公开下载
无需注册即可直接获取公开样本或文档，适合快速预览和评估数据集质量。
免登录有偿下载
公开数据集受托下载与技术交付服务。
提供高速下载与技术交付服务（收技术服务费，非数据销售）
暂未开放当前数据集主要来源为 Kaggle 公开托管，完整影像包建议通过原始链接或 Kaggle API 获取。
使用方式
数据集获取
git clone https://github.com/urmi-21/COVID-19-RNA-Seq-datasets.git
curl -L -o repo.zip https://github.com/urmi-21/COVID-19-RNA-Seq-datasets/archive/refs/heads/master.zip
unzip repo.zip
源站 README 摘录（使用方式）
<!
Title: COVID-19 RNA-Seq Datasets
Description: A curated list of COVID-19 RNA-Seq/transcriptomic single-cell and bulk data.
Author: urmi-21
NOTE: I am no longer actively adding new studies but new contributions are still welcome.
Introduction
This is a repository for sharing information on available COVID-19 RNA-Seq datasets.
Please feel free to contribute to this repository (see contribution guide). If you have suggestions, please notify me by opeining a new issue.
NOTE 1: If you are facing problems while downloading data with SRA Toolkit, please try using the latest version of SRA Toolkit. If you have aspera you can also use ena-fast-download to download fastq files from SRA.
NOTE 2: Please do NOT directly edit below this line. Please see contribution guide
<sep></sep>
COVID-19-RNA-Seq-datasets
| S.No. | Date | Title | Description | Download | #Samples | #COVID | Type |
|---|---|---|---|---|---|---|---|
| 1 | 2021-02-15 | COVID-19 immune features revealed by a large-scale single cell transcriptome atlas | scRNA-Seq of various tissue types obtained from COVID-19 patients | GSE158055 only processed data | 284 | 196 | single-cell |
| 2 | 2021-02-01 | SARS-CoV-2 infects and replicates in cells of the human endocrine and exocrine pancreas | RNA-Seq in uninfected, SARS-CoV-2-infected, and remdesivir treated ex vivo cultured human islets | GSE159717<br>SRP287872 | 6 | 4 | bulk |
| 3 | 2021-01-12 | Neurological Manifestations of COVID-19 Feature T Cell Exhaustion and Dedifferentiated Monocytes in Cerebrospinal Fluid | scRNA-Seq from the (CSF) of Neuro-COVID patients, patients neurological diseases with viral encephalitis | GSE163005<br>[SRP297575](https:// |
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))
数据缺失？
依托陕西、四川两大基地，我们与超过十家三甲医院建立直接合作关系，覆盖合规授权、采集治理、专业标注、数据交付的全流程，为AI医疗团队提供即拿即用的高质量临床数据。
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