使用克隆文库分析的医疗相关肺炎细菌学评估

数据集获取（Figshare）

• 源站标题：Bacteriological Assessment of Healthcare-Associated Pneumonia Using a Clone Library Analysis
• DOI：10.1371/journal.pone.0124697
• 发布日期：2015-04-15
• 文件数：4 个
• 文件总体积：1.21 MB
• 源站页面：https://plos.figshare.com/articles/dataset/_Bacteriological_Assessment_of_Healthcare_Associated_Pneumonia_Using_a_Clone_Library_Analysis_/1381055

命令行下载

curl -L -o "S1_Table.docx" "https://ndownloader.figshare.com/files/2022463"
curl -L -o "S2_Table.docx" "https://ndownloader.figshare.com/files/2022464"
curl -L -o "S3_Table.docx" "https://ndownloader.figshare.com/files/2022465"
curl -L -o "S1_Fig.docx" "https://ndownloader.figshare.com/files/2022466"

文件清单

• S1_Table.docx（64.35 KB）
• S2_Table.docx（20.25 KB）
• S3_Table.docx（18.22 KB）
• S1_Fig.docx（1.10 MB）

文件总体积 1.21 MB（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

Background
The causative pathogens of healthcare-associated pneumonia (HCAP) remain controversial, and the use of conventional cultivation of sputum samples is occasionally inappropriate due to the potential for oral bacterial contamination. It is also sometimes difficult to determine whether methicillin-resistant Staphylococcus aureus (MRSA) is a true causative pathogen of HCAP.
Methods
We evaluated the bacterial diversity in bronchoalveolar lavage fluid (BALF) using molecular and cultivation methods in 82 HCAP patients. BALF specimens were obtained from the lesions of pneumonia using bronchoscopy. The bacterial flora was analyzed according to the clone library method using amplified fragments of the 16S ribosomal RNA gene with universal primers. In addition, sputum cultures and the above specimens were assessed.
Results
Eighty (97.6%) of the 82 BALF samples obtained from the patients with HCAP showed positive polymerase chain reaction results. The predominant phylotypes detected in the BALF in this study included bacteria common in cases of community- and hospital-acquired pneumonia. In addition, the phylotypes of streptococci and anaerobes were detected in 19 (23.2%) and 8 (9.8%) cases, respectively. In particular, phylotypes of streptococci were highly detected among the patients 75 of age or older. Staphylococcus aureus was cultured in 23 (28.0%) cases using conventional cultivation methods and detected in only 6 (7.3%) cases as predominant phylotypes according to the clone library method.
Conclusions
The clone library analysis of BALF in the HCAP patients detected heterogeneous bacteria and a high incidence of streptococci compared with that observed using cultivation methods. In addition, the results of our study may indicate a lower incidence of MRSA than previously expected in HCAP patients.

许可

CC BY 4.0

引用

学术使用请引用 DOI 10.1371/journal.pone.0124697（source: https://plos.figshare.com/articles/dataset/_Bacteriological_Assessment_of_Healthcare_Associated_Pneumonia_Using_a_Clone_Library_Analysis_/1381055）。