AutoMated tool for Antimicrobial resistance Surveillance System plus (AMASSplus)

AMASSplus<br>Release date: 25^th March 2021<br>The AMASSplus application is an extension of AMASS Version 1.1 that was released on 12 January 2021. AMASSplus has an additional report on selected notifiable bacterial diseases, and the organisms included are:<br><br>- Burkholderia pseudomallei<br>- Brucella spp.<br>- Corynebacterium diphtheriae<br>- Neisseria gonorrhoeae<br>- Neisseria meningitidis<br>- Salmonella enterica serotype paratyphi<br>- Salmonella enterica serotype typhi <br>- Non-typhoidal Salmonella spp.<br>- Shigella spp.<br>- Streptococcus suis<br>- Vibrio spp.<br> <br>AutoMated tool for Antimicrobial resistance Surveillance System (AMASS) was developed as an offline, open−access and easy−to−use application that allows a hospital to perform data analysis independently and generate isolate−based and sample−based surveillance reports stratified by infection origin from routinely collected electronic databases. The application was built in R, which is a free software environment. The application has been placed within a user−friendly interface that only requires the user to double−click on the application icon. <br>AMASS performs data analysis and generates reports automatically. The raw data files required are hospital admission and microbiology databases. Firstly, the application cleans the microbiology data file and produces isolate−based and sample−based surveillance reports without stratification by infection origin. Secondly, the application then merges the microbiology and hospital admission data files, analyzes the merged data, and produces an isolated−based and sample−based surveillance reports with stratification by infection origin. Finally, the application then perform a statistical analysis to estimate all−cause mortality of patients with AMR infection and mortality attributable to AMR, which are automatically added into the AMR surveillance report.<br>AMASS aims to support the local hospitals including those that have only microbiology results recorded in electronic formats. For example, only isolate−based surveillance report without stratification by infection origin will be generated, if only microbiology data file is available and hospital admission data file is not available in the computer.<br> This is the AMASSplus.zip containing the AMASSplus application. Further, details on how to use the application can be found in https://www.amass.website<br>If you have any questions about AMASS or AMASSplus, please contact:<br>For technical information:<br>Chalida Rangsiwutisak ([e-mail]),<br>Cherry Lim ([e-mail]), and<br>Direk Limmathurotsakul ([e-mail])<br> <br>For implementation of AMASSplus at your hospitals in Thailand:<br>Preeyarach Klaytong ([e-mail])<br>Viriya Hantrakun ([e-mail])<br>

AMASSplus
发布日期：2021年3月25日
本应用是2021年1月12日发布的AMASS 1.1版本的扩展程序。AMASSplus新增了针对特定法定细菌性疾病的报告模块，涵盖的病原体如下：
- 类鼻疽伯克霍尔德菌（Burkholderia pseudomallei）
- 布鲁氏菌属（Brucella spp.）
- 白喉棒状杆菌（Corynebacterium diphtheriae）
- 淋病奈瑟菌（Neisseria gonorrhoeae）
- 脑膜炎奈瑟菌（Neisseria meningitidis）
- 肠炎沙门菌副伤寒血清型（Salmonella enterica serotype paratyphi）
- 肠炎沙门菌伤寒血清型（Salmonella enterica serotype typhi）
- 非伤寒型沙门菌属（Non-typhoidal Salmonella spp.）
- 志贺氏菌属（Shigella spp.）
- 猪链球菌（Streptococcus suis）
- 弧菌属（Vibrio spp.）

自动抗菌耐药监测系统（AutoMated tool for Antimicrobial resistance Surveillance System, AMASS）是一款离线、开源且操作简便的应用程序，支持医疗机构独立开展数据分析，并可基于常规收集的电子数据库，生成按感染来源分层的菌株级（isolate-based）与样本级（sample-based）监测报告。该应用基于免费开源软件环境R语言开发，搭载了友好的用户界面，用户仅需双击应用图标即可启动使用。

AMASS可自动完成数据分析与报告生成，所需原始数据文件为医院入院数据库与微生物学数据库。具体流程如下：
1. 首先对微生物学数据文件进行清洗，生成未按感染来源分层的菌株级与样本级监测报告；
2. 随后将微生物学数据与医院入院数据进行合并，对合并后的数据开展分析，生成按感染来源分层的菌株级与样本级监测报告；
3. 最后执行统计分析，估算抗菌耐药（Antimicrobial resistance, AMR）感染患者的全因死亡率以及抗菌耐药相关归因死亡率，并将结果自动添加至抗菌耐药监测报告中。

AMASS旨在为各级医疗机构提供支持，包括仅以电子格式存储微生物学检测结果的机构。若仅提供微生物学数据文件而无医院入院数据文件，则仅生成未按感染来源分层的菌株级与样本级监测报告。

本文件为包含AMASSplus应用程序的AMASSplus.zip压缩包。更多关于该应用的使用详情可访问https://www.amass.website。

若您对AMASS或AMASSplus有任何疑问，请联系：
- 技术咨询：
Chalida Rangsiwutisak（[e-mail]）、
Cherry Lim（[e-mail]）、
Direk Limmathurotsakul（[e-mail]）
- 泰国境内医院AMASSplus部署咨询：
Preeyarach Klaytong（[e-mail]）、
Viriya Hantrakun（[e-mail]）