DOI: 10.6084/m9.figshare.28028285
title: Data set - Assessment of Utilization of Automated Systems and Laboratory Information Management Systems in Clinical Microbiology Laboratories in Thailand

description: From October 2023 to February 2024, we conducted a survey on the availability and utilization of automated systems and laboratory information management systems (LIMS) for blood culture specimens in 2022 across 127 clinical microbiology laboratories of each public referral hospital in Thailand. We categorized automated systems for blood culture processing into three steps: incubation, bacterial identification, and antimicrobial susceptibility testing (AST).Variables include: Anonymous_id: Anonymous ID of each clinical microbiology laboratories participating in the study. (n=81). Hospital_level: The Health Administration Division, MoPH supervised 127 public referral hospitals in health regions 1 to 12. These included 35 advanced-level referral hospitals (i.e., level A, with a bed size of about 500-1,200), 55 standard-level referral hospitals (i.e., level S, with a bed size of about 300-500) and 37 mid-level referral hospitals (i.e., level M1, with a bed size of about 180-300) Health_region: The health systems in each province were integrated into 12 groups of provinces, known as health regions, plus the capital Bangkok as health region 13, using the concept of decentralizationBed_count: Bed count of each hospital HIS: Hospital Information System (HIS) being utilized BC_request_method: Blood culture (BC) requesting methods BC_label: Labels on blood culture specimensMicro_staff: Number of laboratory staff during office hoursBC_total: Total number of blood culture bottles processedBC_capacity: Capacity of automated blood culture system.LIS: microbiology Laboratory Information System (LIS) being utilized LIS_commercial_yn: Is the LIS being used a commercial microbiology LIS? 1:yes, 0:no Micro_staff_24hr: Availability of laboratory staff outside office hours. 1:yes, 0:noReception_LIS: Recording specimen receipt in a LIMS/other software. 1:yes, 0:no Reception_HIS: Recording specimen receipt in a HIS. 1:yes, 0:no Reception_LabBook: Recording specimen receipt in a laboratory book. 1:yes, 0:no Reception_No: No data recording at this step (Specimen registration at specimen receptions). 1:yes, 0:no Incubate_automated_yn: Utilization of an automated blood culture incubation system Incubate_in_house: Utilizing in-house prepared blood culture bottles Incubate_automated_Bactec: Utilization of an automated blood culture incubation system - Bactec (Becton Dickinson, MD, USA) Incubate_automated_BacTAlert: Utilization of an automated blood culture incubation system - BacT/Alert (BioMérieux, Marcy-l'Étoile, France) Incubate_automated_Render: Utilization of an automated blood culture incubation system - RENDER (Render Biotech, Shenzhen, China) Incubate_automated_DL: Utilization of an automated blood culture incubation system - DL (Zhuhai DL Biotech, Zhuhai City, China) Incubate_automated_Versa: Utilization of an automated blood culture incubation system - VersaTREK (ThermoFisher Scientific, MA, USA) Incubate_automated_Mindray: Utilization of an automated blood culture incubation system - Mindray TDR (Mindray Global, Shenzhen, China) Incubate_automated_perc: % of blood culture bottles being incubated using an automated system Iden_automated_yn: Utilization of an automated bacterial identification system Iden_automated_Vitek: Utilization of an automated bacterial identification system - Vitek (BioMérieux, Marcy-l'Étoile, France) Iden_automated_Sensititre: Utilization of an automated bacterial identification system - Sensititre (ThermoFisher Scientific, MA, USA) Iden_automated_MicroScan: Utilization of an automated bacterial identification system - MicroScan WalkAway (Beckman Coulter, CA, USA) Iden_automated_Phoenix: Utilization of an automated bacterial identification system - Phoenix (Becton Dickinson, Sparks, MD, USA) Iden_automated_BrukerMS: Utilization of an automated bacterial identification system - Bruker Biotyper CA (Becton Dickinson, MD, USA) Iden_automated_VitekMS: Utilization of an automated bacterial identification system - Vitek MS (BioMérieux, Marcy-l'Étoile, France) Iden_automated_AutofMS: Utilization of an automated bacterial identification system - Autof MS 1000 (Chirus, Hertfordshire, UK) Iden_automated_perc: % of bacterial isolates from blood culture specimens being identified using an automated system Iden_conventional: Performing conventional bacterial identification methods AST_automated_yn: Utilization of an automated AST system AST_automated_Vitek: Utilization of an automated AST system - Vitek (BioMérieux, Marcy-l'Étoile, France) AST_automated_Sensititre: Utilization of an automated AST system - Sensititre (ThermoFisher Scientific, MA, USA) AST_automated_Microscan: Utilization of an automated AST system - MicroScan WalkAway (Beckman Coulter, CA, USA) AST_automated_Phoenix: Utilization of an automated AST system - Phoenix (Becton Dickinson, Sparks, MD, USA) AST_automated_perc: % of bacterial isolates from blood culture specimens being tested for antimicrobial susceptibility using an automated system AST_conventional: Performing conventional AST Data_HIS_auto_to_LIS: Data entry methods - Patient data from HIS to a commercial LIMS Data_Incu_auto_to_LIS: Data entry methods - Blood culture incubation results (i.e. growth and no-growth) from an automated machine Data_Iden_auto_to_LIS: Data entry methods - Bacterial identification results (i.e. bacteria species) from an automated machine Data_AST_auto_to_LIS: Data entry methods - AST results from an automated machine Data_LIS_auto_to_HIS: Data entry methods - Final blood culture results from a commercial LIMS to HIS b1_time: barrier to data analysis - lack of timeb2_skill: barrier to data analysis - lack of staff with statistical skills b3_analysis: barrier to data analysis - difficulty in using analytical software b4_import: barrier to data analysis - importing data into an analytical software b5_export: barrier to data analysis - exporting data from LIS/software for an analytical softwareb6_computer: barrier to data analysis - lack of computers b1_time_AMASS: barrier to data analysis - lack of time for AMASSb2_skill_AMASS: barrier to data analysis - lack of staff with skills to use AMASS b3_analysis_AMASS: barrier to data analysis - difficulty in using AMASS b4_import_AMASS: barrier to data analysis - importing data into AMASS b5_export_AMASS: barrier to data analysis - exporting data from LIS/software for AMASSb6_computer_AMASS: barrier to data analysis - lack of computers for AMASS <br>