1.Whole genome sequencing analysis of enteropathogenic Escherichia coli from human and companion animals in Korea
Jae Young OH ; Kyung-Hyo DO ; Jae Hong JEONG ; SuMin KWAK ; Sujin CHOE ; Dongheui AN ; Jong-Chan CHAE ; Kwangjun LEE ; Kwang-Won SEO
Journal of Veterinary Science 2025;26(1):e1-
Objective:
To improve our understanding of EPEC, this study focused on analyzing and comparing the genomic characteristics of EPEC isolates from humans and companion animals in Korea.
Methods:
The whole genome of 26 EPEC isolates from patients with diarrhea and 20 EPEC isolates from companion animals in Korea were sequenced using the Illumina HiSeq X (Illumina, USA) and Oxford Nanopore MinION (Oxford Nanopore Technologies, UK) platforms.
Results:
Most isolates were atypical EPEC, and did not harbor the bfpA gene. The most prevalent virulence genes were found to be ompT (humans: 61.5%; companion animals:60.0%) followed by lpfA (humans: 46.2%; companion animals: 60.0%). Although pangenome analyses showed no apparent correlation among the origin of the strains, virulence profiles, and antimicrobial resistance profiles, isolates included in clade A obtained from both humans and companion animals exhibited high similarity. Additionally, all the isolates included in clade A encoded the ompT gene and did not encode the hlyE gene. The two isolates from companion animals harbored an incomplete bundle-forming pilus region encoding bfpA and bfpB. Moreover, the type IV secretion system-associated genes tra and trb were found in the bfpA-encoding isolates from humans.
Conclusions
and Relevance: Whole-genome sequencing enabled a more accurate analysis of the phylogenetic structure of EPEC and provided better insights into the understanding of EPEC epidemiology and pathogenicity.
2.Whole genome sequencing analysis of enteropathogenic Escherichia coli from human and companion animals in Korea
Jae Young OH ; Kyung-Hyo DO ; Jae Hong JEONG ; SuMin KWAK ; Sujin CHOE ; Dongheui AN ; Jong-Chan CHAE ; Kwangjun LEE ; Kwang-Won SEO
Journal of Veterinary Science 2025;26(1):e1-
Objective:
To improve our understanding of EPEC, this study focused on analyzing and comparing the genomic characteristics of EPEC isolates from humans and companion animals in Korea.
Methods:
The whole genome of 26 EPEC isolates from patients with diarrhea and 20 EPEC isolates from companion animals in Korea were sequenced using the Illumina HiSeq X (Illumina, USA) and Oxford Nanopore MinION (Oxford Nanopore Technologies, UK) platforms.
Results:
Most isolates were atypical EPEC, and did not harbor the bfpA gene. The most prevalent virulence genes were found to be ompT (humans: 61.5%; companion animals:60.0%) followed by lpfA (humans: 46.2%; companion animals: 60.0%). Although pangenome analyses showed no apparent correlation among the origin of the strains, virulence profiles, and antimicrobial resistance profiles, isolates included in clade A obtained from both humans and companion animals exhibited high similarity. Additionally, all the isolates included in clade A encoded the ompT gene and did not encode the hlyE gene. The two isolates from companion animals harbored an incomplete bundle-forming pilus region encoding bfpA and bfpB. Moreover, the type IV secretion system-associated genes tra and trb were found in the bfpA-encoding isolates from humans.
Conclusions
and Relevance: Whole-genome sequencing enabled a more accurate analysis of the phylogenetic structure of EPEC and provided better insights into the understanding of EPEC epidemiology and pathogenicity.
3.Advancing Korean Medical Large Language Models: Automated Pipeline for Korean Medical Preference Dataset Construction
Jean SEO ; Sumin PARK ; Sungjoo BYUN ; Jinwook CHOI ; Jinho CHOI ; Hyopil SHIN
Healthcare Informatics Research 2025;31(2):166-174
Objectives:
Developing large language models (LLMs) in biomedicine requires access to high-quality training and alignment tuning datasets. However, publicly available Korean medical preference datasets are scarce, hindering the advancement of Korean medical LLMs. This study constructs and evaluates the efficacy of the Korean Medical Preference Dataset (KoMeP), an alignment tuning dataset constructed with an automated pipeline, minimizing the high costs of human annotation.
Methods:
KoMeP was generated using the DAHL score, an automated hallucination evaluation metric. Five LLMs (Dolly-v2-3B, MPT-7B, GPT-4o, Qwen-2-7B, Llama-3-8B) produced responses to 8,573 biomedical examination questions, from which 5,551 preference pairs were extracted. Each pair consisted of a “chosen” response and a “rejected” response, as determined by their DAHL scores. The dataset was evaluated when trained through two different alignment tuning methods, direct preference optimization (DPO) and odds ratio preference optimization (ORPO) respectively across five different models. The KorMedMCQA benchmark was employed to assess the effectiveness of alignment tuning.
Results:
Models trained with DPO consistently improved KorMedMCQA performance; notably, Llama-3.1-8B showed a 43.96% increase. In contrast, ORPO training produced inconsistent results. Additionally, English-to-Korean transfer learning proved effective, particularly for English-centric models like Gemma-2, whereas Korean-to-English transfer learning achieved limited success. Instruction tuning with KoMeP yielded mixed outcomes, which suggests challenges in dataset formatting.
Conclusions
KoMeP is the first publicly available Korean medical preference dataset and significantly improves alignment tuning performance in LLMs. The DPO method outperforms ORPO in alignment tuning. Future work should focus on expanding KoMeP, developing a Korean-native dataset, and refining alignment tuning methods to produce safer and more reliable Korean medical LLMs.
4.Advancing Korean Medical Large Language Models: Automated Pipeline for Korean Medical Preference Dataset Construction
Jean SEO ; Sumin PARK ; Sungjoo BYUN ; Jinwook CHOI ; Jinho CHOI ; Hyopil SHIN
Healthcare Informatics Research 2025;31(2):166-174
Objectives:
Developing large language models (LLMs) in biomedicine requires access to high-quality training and alignment tuning datasets. However, publicly available Korean medical preference datasets are scarce, hindering the advancement of Korean medical LLMs. This study constructs and evaluates the efficacy of the Korean Medical Preference Dataset (KoMeP), an alignment tuning dataset constructed with an automated pipeline, minimizing the high costs of human annotation.
Methods:
KoMeP was generated using the DAHL score, an automated hallucination evaluation metric. Five LLMs (Dolly-v2-3B, MPT-7B, GPT-4o, Qwen-2-7B, Llama-3-8B) produced responses to 8,573 biomedical examination questions, from which 5,551 preference pairs were extracted. Each pair consisted of a “chosen” response and a “rejected” response, as determined by their DAHL scores. The dataset was evaluated when trained through two different alignment tuning methods, direct preference optimization (DPO) and odds ratio preference optimization (ORPO) respectively across five different models. The KorMedMCQA benchmark was employed to assess the effectiveness of alignment tuning.
Results:
Models trained with DPO consistently improved KorMedMCQA performance; notably, Llama-3.1-8B showed a 43.96% increase. In contrast, ORPO training produced inconsistent results. Additionally, English-to-Korean transfer learning proved effective, particularly for English-centric models like Gemma-2, whereas Korean-to-English transfer learning achieved limited success. Instruction tuning with KoMeP yielded mixed outcomes, which suggests challenges in dataset formatting.
Conclusions
KoMeP is the first publicly available Korean medical preference dataset and significantly improves alignment tuning performance in LLMs. The DPO method outperforms ORPO in alignment tuning. Future work should focus on expanding KoMeP, developing a Korean-native dataset, and refining alignment tuning methods to produce safer and more reliable Korean medical LLMs.
6.Regulatory effect and mechanism of Yiqi Jiedu Decoction on ionizing radiation-induced macrophage polarization
Ruiyao HU ; Zhangdi ZHAO ; An WANG ; Wenyuan LI ; Jiajun LEI ; Jiahuan ZENG ; Zirui AN ; Sumin HU
Journal of Beijing University of Traditional Chinese Medicine 2025;48(7):933-942
Objective To investigate the regulatory effect and mechanism of Yiqi Jiedu Decoction(YQJD)on ionizing radiation-induced macrophage polarization and its correlation with the Toll-like receptor 4(TLR4)/myeloid differentiation primary response protein 88(MyD88)/nuclear factor kappa-B(NF-κB)signaling pathway.Methods Fifty-five specific-pathogen-free male Sprague-Dawley rats were randomly divided into blank(n=30),anduolin(n=10),and YQJD groups(n=15).They were respectively gavaged with deionized water,anduolin suspension(0.345 6 g/kg),and YQJD high-dose(20.88 g/kg)at a dose of 0.01 mL/g body weight once a day for seven consecutive days.2 hours after the last gavage,blood was collected from the abdominal aorta to prepare the control rat,andolin rat,and YQJD high-dose sera.Appropriate amounts of YQJD high-dose and control sera were mixed in a ratio of 1∶1 and 1∶3,respectively,to obtain YQJD medium-and low-dose rat serum.RAW264.7 cells were divided into blank(10%blank rat serum),model(10%blank rat serum),anduolin(10%anduolin rat serum),and YQJD-L,YQJD-M,YQJD-H groups(10%YQJD low-,medium-,and high-dose rat serum).Except for the blank group,the cells in other groups were irradiated with 12 Gy60 Co γ-rays once to establish the macrophage radiation injury model.At 24 h after irradiation,cell viability was detected using the CCK-8 method,and the cell migration rate was measured using the scratch test.Cell morphology was observed using phalloidin staining,tumor necrosis factor-alpha(TNF-α)and interleukin-10(IL-10)levels in the cell supernatant were quantified using enzyme-linked immunosorbent assay,and the proportion of M1 macrophages was detected using flow cytometry.TLR4,MyD88,and NF-κB protein expression were detected using Western blotting.Results Twenty-four hours after irradiation,compared with the blank group,the model group exhibited significantly reduced cell viability and migration rate(P<0.01),increased cell volume and pseudopodia formation,elevated TNF-α and IL-10 levels,an increased proportion of M1 macrophages,and upregulated TLR4,MyD88,and NF-κB protein expression(P<0.05,P<0.01).Compared with the model group,each drug-treated group showed improved cell viability and migration rate(P<0.05,P<0.01),decreased cell volume,more regular cell shape,reduced TNF-α levels,lower M1-type macrophage proportion,and downregulated TLR4,MyD88,and NF-κB protein expression(P<0.05,P<0.01).IL-10 level showed an upward trend.Conclusion YQJD can partially inhibit M1 macrophage polarization and suppress inflammatory responses,which may be related to the TLR4/MyD88/NF-κB signaling pathway.
7.Second-look arthroscopic findings after anterior cruciate ligament reconstruction using hamstring tendon autograft(514 cases)
Yanye LI ; Mingfeng LU ; Lilian ZHAO ; Ting XU ; Jisi XING ; Shilin LI ; Sumin YAN ; Lilei HE
China Journal of Endoscopy 2025;31(5):12-20
Objective To evaluate the clinical outcomes of 514 cases of anterior cruciate ligament(ACL)reconstruction using hamstring tendon autograft and to observe postoperative changes and recovery of the grafts through second-look arthroscopy.Methods This retrospective study collected data from 514 patients who underwent ACL reconstruction with hamstring tendon autograft between May 2015 and June 2018,with a follow-up of at least one year.Knee function recovery and stability were assessed using the Lysholm score,International Knee Documentation Committee(IKDC)score,and Tegner score,along with the pivot shift test and Lachman test.During the second-look arthroscopy,key observations included the synovial coverage,continuity of the reconstructed ligament,and any intra-articular abnormalities.Results The time interval between ACL reconstruction and second-look arthroscopy ranged from 12 to 28 months,with an average of 20 months.Postoperative infection occurred in 2 cases,both of which were successfully treated with arthroscopic debridement and drainage.No other patients experienced infections,graft resorption,or other complications.At the second-look arthroscopy,the Lysholm score significantly improved from(43.56±9.89)preoperative to(92.21±6.12)postoperatively,the difference was statistically significant(P<0.05);The IKDC score increased from(20.32±7.87)to(85.67±10.43),the difference was statistically significant(P<0.05);The Tegner score improved from(4.31±0.82)to(6.61±1.21),the difference was statistically significant(P<0.05).Second-look arthroscopy revealed that the ligament remained intact in 375 patients,with partial tears in 139 patients,ligament tension was maintained in 447 patients,while 67 patients had laxity,the reconstructed ACL graft was deemed to be in good condition in 435 patients and suboptimal in 79 patients,there were significant differences observed in pre-and post-pivot shift test and Lachman test(P<0.05);Among the 514 patients,188(36.58%)successfully returned to sport.Conclusion ACL reconstruction using hamstring tendon autograft effectively restores knee function and stability.In patients followed for more than one years,the grafts show good vascularization and synovial coverage.Emphasis should be placed on systematic postoperative rehabilitation to optimize recovery.
8.Research trends and hotspots of bupivacaine liposomes: bibliometric analysis from 1994 to 2023
Yuxiang MENG ; Sumin YUAN ; Zijie LING ; Li ZHANG ; Zhibiao XU ; Yuyun LIU ; Chenyang SHI ; Hengrui ZHANG ; Yang NIU ; Su LIU ; Linlin ZHAO
Chinese Journal of Anesthesiology 2025;45(6):736-744
Objective:To analyze the research trends and hotspots of bupivacaine liposomes from 1994 to 2023 using bibliometrics.Methods:A comprehensive search was conducted for the literature related to bupivacaine liposomes in the Web of Science Core Collection from 1994 to 2023. The CiteSpace software was used to conduct an in-depth analysis of the included literature data, including publication year, country, institution, author, journal, cited references, keywords, etc.Results:A total of 875 papers related to bupivacaine liposomes were included. The research and development of bupivacaine liposomes were divided into 3 stages: slow development (1994-2011), a sharp rise (2011-2021), and stabilization (2021-2023). The United States was in a leading position in terms of the number of publications, centrality, and author cooperation, and Harvard University had the largest number of publications. de Paula E had the most publications, Bramlett K had the highest number of citations, and Boogaerts J had the highest centrality of publications. Journals such as Anesthesia and Analgesia made significant contributions to this field. The most cited references focused on the infiltration of wounds and the periprosthetic injection of bupivacaine liposomes. The keyword analysis showed that local anesthetics, postoperative pain, etc. were commonly used keywords, and enhanced recovery after surgery was an emerging hotspot. Conclusions:Bupivacaine liposomes show good application prospects in the field of peripheral nerve block due to their unique pharmacological properties and safety characteristics and are expected to prolong the duration of postoperative analgesia. However, there is a difference between the actual effect and the expectation, and more clinical trials are needed to evaluate the curative effect, providing a more solid and reliable theoretical basis and practical guidance for clinical practice.
9.Investigation on the status and barriers of non-accompanied care services in medical institutions in Zhejiang Province
Qiaomin TANG ; Jianping SONG ; Xiuqin FENG ; Leiwen TANG ; Yuping ZHANG ; Xiangying BAO ; Haiyan ZHENG ; Sumin MA ; Meijuan LAN
Chinese Journal of Nursing 2025;60(20):2507-2513
Objective To investigate the current status and barriers to implementing non-accompanied care services in medical institutions in Zhejiang Province,and to provide a basis for the improvement of standardized management of such services.Methods A self-designed questionnaire was conducted from September to October 2024 among all secondary and tertiary medical institutions in Zhejiang Province to assess the implementation status and barriers to non-accompanied care services.Results A total of 397 questionnaires were distributed,with 389 valid responses,yielding a valid response rate of 97.98%.Non-accompanied care services were implemented in 118 institutions(30.33%).Among these,90 institutions(76.27%)had established management systems for non-accompanied wards;71 institutions(60.17%)had a medical nursing assistant-to-bed ratio lower than 1∶5;41 institu-tions(34.75%)provided tiered training for medical nursing assistants;93 institutions(78.81%)required patients to bear the full cost of the service.Compared with secondary medical institutions,tertiary medical institutions have more complete management system for non-accompanied care services.The main obstacles hindering the development of non-accompanied care services include an imperfect management system for non-accompanied wards,a shortage of medical nursing assistants,a lack of standardized training for such assistants,inconsistent charging standards,and low acceptance among patients and their families.Conclusion The promotion of non-accompanied care services in medical institutions in Zhejiang Province has achieved initial success.However,challenges persist,including incomplete management systems,uneven development across hospital tiers,and imperfect charging mechanisms.It is recommended that relevant authorities strengthen policy support,enhance standardized training for healthcare nursing assistants,refine cost-sharing mechanisms,and improve the quality and sustainability of non-accompanied care services through multi-party collaboration.
10.A case report of neonatal pseudoaldosteronism caused by NR3C2 gene mutation
Junhe LI ; Rui ZHANG ; Qingxu LIU ; Sumin SUI
Journal of Shanghai Jiaotong University(Medical Science) 2025;45(7):934-938
Pseudohypoaldosteronism type Ⅰ(PHA Ⅰ)is a rare inherited disease,mainly caused by the deficiency of the aldosterone receptor or by reduced or absent binding between aldosterone and its receptor.It typically manifests as neonatal hyponatremia,hyperkalaemia,metabolic acidosis,accompanied by dehydration,vomiting,weight loss,and even shock.PHA Ⅰ is classified into renal-type with mutations in the salt corticosteroid receptor and multi-organ with mutations in any of the three subunits of the epithelial sodium channel(α,β or γ).The renal-type,which is inherited in an autosomal dominant manner,is caused by mutations in the aldosterone receptor with an isolated nephrogenic salt-loss syndrome,and the clinical symptoms are milder compared with those of the multi-organ type,which may improve with age.However,severity varies among individuals depending on the degree of salt loss,and if not treated in time,it may lead to shock due to repeated dehydration or even cardiac arrest due to high potassium.Currently,domestic studies have found that the human salt corticosteroid receptor is encoded by the NR3C2 gene,which is located between the regions of 4q31.1 and 4q31.2.This case reports a child with nephrogenic PHA Ⅰ due to a new-onset variant of the NR3C2(4q31.22)gene,who had chromosomal anomalies in the fetus and demonstrated high blood pressure,high blood potassium and low sodium after birth.The diagnosis of renal neonatal PHA Ⅰ was confirmed by the presence of a microdeletion of NR3C2 gene(4q31.22 region)in the child,which was demonstrated by a genome-wide chromosomal assay and accompanied by a significant elevation of the plasma aldosterone level(>2 000 pg/mL),and by the presence of a microdeletion of NR3C2 gene(4q31.22 region)in the child.Electrolyte disorders were corrected after oral administration of concentrated sodium chloride,and the condition remained stable at the 1-month follow-up.

Result Analysis
Print
Save
E-mail