乌干达农村结核病空间重叠数据集

数据集获取（Figshare）

• 源站标题：Spatial overlap links seemingly unconnected genotype-matched TB cases in rural Uganda
• DOI：10.1371/journal.pone.0192666
• 发布日期：2018-02-13
• 文件数：7 个
• 文件总体积：713.68 KB
• 源站页面：https://plos.figshare.com/articles/dataset/Spatial_overlap_links_seemingly_unconnected_genotype-matched_TB_cases_in_rural_Uganda/5884249

命令行下载

curl -L -o "S1 Questionnaire.pdf" "https://ndownloader.figshare.com/files/10475689"
curl -L -o "S2 Questionnaire.pdf" "https://ndownloader.figshare.com/files/10475701"
curl -L -o "S3 Questionnaire.pdf" "https://ndownloader.figshare.com/files/10475713"
curl -L -o "S1 Dataset.dta" "https://ndownloader.figshare.com/files/10475722"
curl -L -o "S2 Dataset.dta" "https://ndownloader.figshare.com/files/10475752"
curl -L -o "S1 Table.xlsx" "https://ndownloader.figshare.com/files/10475764"
curl -L -o "S2 Table.xlsx" "https://ndownloader.figshare.com/files/10475779"

文件清单

• S1 Questionnaire.pdf（70.71 KB）
• S2 Questionnaire.pdf（183.91 KB）
• S3 Questionnaire.pdf（47.64 KB）
• S1 Dataset.dta（205.03 KB）
• S2 Dataset.dta（22.55 KB）
• S1 Table.xlsx（90.31 KB）
• S2 Table.xlsx（93.53 KB）

文件总体积 713.68 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

Introduction
Incomplete understanding of TB transmission dynamics in high HIV prevalence settings remains an obstacle for prevention. Understanding where transmission occurs could provide a platform for case finding and interrupting transmission.
Methods
From 2012–2015, we sought to recruit all adults starting TB treatment in a Ugandan community. Participants underwent household (HH) contact investigation, and provided names of social contacts, sites of work, healthcare and socializing, and two sputum samples. Mycobacterium tuberculosis culture-positive specimens underwent 24-loci MIRU-VNTR and spoligotyping. We sought to identify epidemiologic links between genotype-matched cases by analyzing social networks and mapping locations where cases reported spending ≥12 hours over the one-month pre-treatment. Sites of spatial overlap (≤100m) between genotype-matched cases were considered potential transmission sites. We analyzed social networks stratified by genotype clustering status, with cases linked by shared locations, and compared network density by location type between clustered vs. non-clustered cases.
Results
Of 173 adults with TB, 131 (76%) were enrolled, 108 provided sputum, and 84/131 (78%) were MTB culture-positive: 52% (66/131) tested HIV-positive. Of 118 adult HH contacts, 105 (89%) were screened and 3 (2.5%) diagnosed with active TB. Overall, 33 TB cases (39%) belonged to 15 distinct MTB genotype-matched clusters. Within each cluster, no cases shared a HH or reported shared non-HH contacts. In 6/15 (40%) clusters, potential epidemiologic links were identified by spatial overlap at specific locations: 5/6 involved health care settings. Genotype-clustered TB social networks had significantly greater network density based on shared clinics (pConclusions
In this molecular epidemiologic study, links between MTB genotype-matched cases were only identifiable via shared locations, healthcare locations in particular, rather than named contacts. This suggests most transmission is occurring between casual contacts, and emphasizes the need for improved infection control in healthcare settings in rural Africa.

许可

CC BY 4.0

引用

学术使用请引用 DOI 10.1371/journal.pone.0192666（source: https://plos.figshare.com/articles/dataset/Spatial_overlap_links_seemingly_unconnected_genotype-matched_TB_cases_in_rural_Uganda/5884249）。