2.SSR-Primer Generator: A Tool for Finding Simple Sequence Repeats and Designing SSR-Primers.
Chang Pyo HONG ; Su Ryun CHOI ; Yong Pyo LIM
Genomics & Informatics 2011;9(4):189-193
Simple sequence repeats (SSRs) are ubiquitous short tandem duplications found within eukaryotic genomes. Their length variability and abundance throughout the genome has led them to be widely used as molecular markers for crop-breeding programs, facilitating the use of marker-assisted selection as well as estimation of genetic population structure. Here, we report a software application, "SSR-Primer Generator" for SSR discovery, SSR-primer design, and homology-based search of in silico amplicons from a DNA sequence dataset. On submission of multiple FASTA-format DNA sequences, those analyses are batch processed in a Java runtime environment (JRE) platform, in a pipeline, and the resulting data are visualized in HTML tabular format. This application will be a useful tool for reducing the time and costs associated with the development and application of SSR markers.
Base Sequence
;
Computer Simulation
;
Genome
;
Indonesia
;
Microsatellite Repeats
;
Polymerase Chain Reaction
3.Healing after horizontal root fractures: 3 cases with 2-year follow-up.
Yoorina CHOI ; Sung Ok HONG ; Seok Ryun LEE ; Kyung San MIN ; Su Jung PARK
Restorative Dentistry & Endodontics 2014;39(2):126-131
Among dental traumas, horizontal root fractures are relatively uncommon injuries. Proper initial management and periodical evaluation is essential for the successful treatment of a root-fractured tooth. If pulpal necrosis develops, endodontic treatment is indicated, exclusively for the coronal fragment. Fragment diastases exert a great influence on healing at the fracture line and on pulpal necrosis. An adequately treated root-fractured tooth has a good prognosis. This case report describes the treatment and 2-yr follow up of 3 maxillary central incisors, first with horizontal root fracture, second with horizontal root fracture and avulsion, and third with horizontal root fracture and lateral luxation. All three cases were treated with mineral trioxide aggregate (ProRoot, Dentsply). During 2 yr of follow-up evaluation, the root-fractured teeth of the present patients were well retained in the arch, showing periodontal healing, even after endodontic treatment.
Follow-Up Studies*
;
Humans
;
Incisor
;
Necrosis
;
Prognosis
;
Tooth
;
Tooth Fractures
4.Effects of Morus alba L. and Natural Products Including Morusin on In Vivo Secretion and In Vitro Production of Airway MUC5AC Mucin.
Hyun Jae LEE ; Jiho RYU ; Su Hyun PARK ; Eun Rhan WOO ; A Ryun KIM ; Sang Kook LEE ; Yeong Shik KIM ; Ju Ock KIM ; Jang Hee HONG ; Choong Jae LEE
Tuberculosis and Respiratory Diseases 2014;77(2):65-72
BACKGROUND: It is valuable to find the potential activity of regulating the excessive mucin secretion by the compounds derived from various medicinal plants. We investigated whether aqueous extract of the root bark of Morus alba L. (AMA), kuwanon E, kuwanon G, mulberrofuran G, and morusin significantly affect the secretion and production of airway mucin using in vivo and in vitro experimental models. METHODS: Effect of AMA was examined on hypersecretion of airway mucin in sulfur dioxide-induced acute bronchitis in rats. Confluent NCI-H292 cells were pretreated with ethanolic extract, kuwanon E, kuwanon G, mulberrofuran G, or morusin for 30 minutes and then stimulated with phorbol 12-myristate 13-acetate (PMA) for 24 hours. The MUC5AC mucin secretion and production were measured by enzyme-linked immunosorbent assay. RESULTS: AMA stimulated the secretion of airway mucin in sulfur dioxide-induced bronchitis rat model; aqueous extract, ethanolic extract, kuwanon E, kuwanon G, mulberrofuran G and morusin inhibited the production of MUC5AC mucin induced by PMA from NCI-H292 cells, respectively. CONCLUSION: These results suggest that extract of the root bark and the natural products derived from Morus alba L. can regulate the secretion and production of airway mucin and, at least in part, explains the folk use of extract of Morus alba L. as mucoregulators in diverse inflammatory pulmonary diseases.
Animals
;
Biological Products*
;
Bronchitis
;
Enzyme-Linked Immunosorbent Assay
;
Ethanol
;
Lung Diseases
;
Models, Animal
;
Models, Theoretical
;
Morus*
;
Mucins*
;
Plants, Medicinal
;
Rats
;
Sulfur
5.Pulmonary Inflammatory Pseudotumor Presenting as Fever of Unknown Origin.
Sun Young CHOI ; Yeung Kyun CHO ; In Kyu BAI ; Seng Su HONG ; Mi Suk LEE ; Du Ryun CHUNG ; Jun Hee WO ; Ji So RYU
Korean Journal of Infectious Diseases 1999;31(5):435-438
Inflammatory pseudotumor (IPT) is an uncommon benign neoplasm of unknown etiology presenting as an incidental mass, fever, malaise, anemia, and weight loss. Generally, IPT in the lung is asymptomatic. A case of pulmonary IPT presenting as prolonged fever in a 59 year old man is presented with clinicopathological findings. The patient had been febrile for three months before admission. Five months before admission, a chest X-ray showed a small left pulmonary mass which was regarded as old tuberculosis. An chest X-ray taken on admission revealed a left pulmonary mass two times the size of the one on the first x-ray. Percutaneous needle aspiration and biopsy were performed, and the microscopic examination revealed a plasma cell reaction with myofibroblastic proliferation, consistent with IPT. As prolonged unexplained fever is a frequent symptom in patients with IPTs, this disease entity should be included in the differential diagnosis of fever of unknown origin.
Anemia
;
Biopsy
;
Diagnosis, Differential
;
Fever of Unknown Origin*
;
Fever*
;
Granuloma, Plasma Cell
;
Humans
;
Lung
;
Middle Aged
;
Myofibroblasts
;
Needles
;
Plasma Cell Granuloma, Pulmonary*
;
Plasma Cells
;
Thorax
;
Tuberculosis
;
Weight Loss
6.Pulmonary Inflammatory Pseudotumor Presenting as Fever of Unknown Origin.
Sun Young CHOI ; Yeung Kyun CHO ; In Kyu BAI ; Seng Su HONG ; Mi Suk LEE ; Du Ryun CHUNG ; Jun Hee WO ; Ji So RYU
Korean Journal of Infectious Diseases 1999;31(5):435-438
Inflammatory pseudotumor (IPT) is an uncommon benign neoplasm of unknown etiology presenting as an incidental mass, fever, malaise, anemia, and weight loss. Generally, IPT in the lung is asymptomatic. A case of pulmonary IPT presenting as prolonged fever in a 59 year old man is presented with clinicopathological findings. The patient had been febrile for three months before admission. Five months before admission, a chest X-ray showed a small left pulmonary mass which was regarded as old tuberculosis. An chest X-ray taken on admission revealed a left pulmonary mass two times the size of the one on the first x-ray. Percutaneous needle aspiration and biopsy were performed, and the microscopic examination revealed a plasma cell reaction with myofibroblastic proliferation, consistent with IPT. As prolonged unexplained fever is a frequent symptom in patients with IPTs, this disease entity should be included in the differential diagnosis of fever of unknown origin.
Anemia
;
Biopsy
;
Diagnosis, Differential
;
Fever of Unknown Origin*
;
Fever*
;
Granuloma, Plasma Cell
;
Humans
;
Lung
;
Middle Aged
;
Myofibroblasts
;
Needles
;
Plasma Cell Granuloma, Pulmonary*
;
Plasma Cells
;
Thorax
;
Tuberculosis
;
Weight Loss
7.Real-World Analysis of the Efficacy of Rebiopsy and EGFR Mutation Test of Tissue and Plasma Samples in Drug-Resistant Non-Small Cell Lung Cancer
Min Hee HONG ; Hye Ryun KIM ; Beung Chul AHN ; Su Jin HEO ; Jee Hung KIM ; Byoung Chul CHO
Yonsei Medical Journal 2019;60(6):525-534
PURPOSE: Standard treatment for cases of non-small cell lung cancer (NSCLC) exhibiting acquired drug resistance includes tumor rebiopsy, epidermal growth factor receptor (EGFR) mutation testing (e.g., for T790M mutations), and the subsequent administration of third-generation EGFR-tyrosine kinase inhibitors (EGFR-TKIs). However, rebiopsies are typically invasive, costly, and occasionally not feasible. Therefore, the present study aimed to assess rebiopsy procedures by analyzing real-world data collected by the ASTRIS study of patients with resistant NSCLC. MATERIALS AND METHODS: The present study used statistical models to evaluate data collected by the ASTRIS trial (NCT02474355) conducted at Yonsei Cancer Center, including the rebiopsy success rate, incidence of T790M mutations in collected tissue and plasma samples, and association of administered osimertinib treatment efficacy. RESULTS: In a total of 188 screened patients, 112 underwent rebiopsy. An adequate tumor specimen was obtained in 95 of these patients, the greatest majority of whom (43.8%) were subjected to bronchoscopy. T790M mutations were detected in 53.3% of successfully EGFR-tested rebiopsy samples. A total of 88 patients received osimertinib treatment, and the objective response rate and median progression-free survival time was 44.3% and 32.7 weeks, respectively, among the treated patients overall, but 57.8% and 45.0 weeks, and 35.2% and 20.4 weeks among patients who exhibited T790M-positive tissue (n=45) and plasma (n=54) samples, respectively. CONCLUSION: Approximately 60% of patients in the analyzed real-world cohort were eligible for tissue rebiopsy upon NSCLC progression. Osimertinib activity was higher in patients in whom T790M mutations were detected in tissues rather than in plasma samples.
Bronchoscopy
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Carcinoma, Non-Small-Cell Lung
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Cohort Studies
;
Disease-Free Survival
;
Drug Resistance
;
Humans
;
Incidence
;
Models, Statistical
;
Phosphotransferases
;
Plasma
;
Receptor, Epidermal Growth Factor
;
Treatment Outcome
8.Efficacy and Safety of Endoscopic Clipping for Acute Anastomotic Bleeding After Colorectal Surgery
Ryun Kyong HA ; Kyung Su HAN ; Sung Sil PARK ; Dae Kyung SOHN ; Chang Won HONG ; Byung Chang KIM ; Bun KIM
Annals of Coloproctology 2022;38(3):262-265
Purpose:
Anastomotic bleeding after colorectal surgery is a rare, mostly self-limiting, postoperative complication that could lead to a life-threatening condition. Therefore, prompt management is required. This study aimed to evaluate the efficacy and safety of endoscopic clipping for acute anastomotic bleeding after colorectal surgery.
Methods:
We retrospectively reviewed the data of patients pathologically diagnosed with colorectal cancer at National Cancer Center, Korea from January 2018 to November 2020, which presented with anastomotic bleeding within the first postoperative week and were endoscopically managed with clips.
Results:
Nine patients had anastomotic bleeding, underwent endoscopic management, and, therefore, were included in this study. All patients underwent laparoscopic (low/ultralow) anterior resection with mechanical double-stapled anastomosis. Anastomotic bleeding was successfully managed through a colonoscopy with clips on the first trial in all patients. Hypovolemic shock occurred in one patient, following anastomotic breakdown.
Conclusion
Endoscopic clipping seems to be an effective and safe treatment for anastomotic bleeding with minimal physiologic stress, easy accessibility, and scarce postoperative complications. However, a surgical backup should always be considered for massive bleeding.
9.Antimicrobial Resistance of Bacteria Isolated from Bronchoalveolar lavage (BAL) in Patients with Lung Infiltrations in Burn and Non-Burn Intensive Care Unit.
Jong Yeop KIM ; Cheol Hong KIM ; Su Hee PARK ; You Sang KO ; Mi Jeong KIM ; Hye Ryun KANG ; Yong Il HWANG ; Yong Bum PARK ; Seung Hun JANG ; Heungjeong WOO ; Dong Gyu KIM ; Myung Goo LEE ; In Gyu HYUN ; Ki Suck JUNG
Tuberculosis and Respiratory Diseases 2007;62(6):506-515
Background: Nosocomial pneumonia in an intensive care unit (ICU) is associated with a high mortality rate. Diagnosing a respiratory tract infection in critically ill patients is still difficult but detailed information for the pathogens is needed to establish an adequate antimicrobial treatment. This study examined the causative organisms and their antimicrobial resistance using bronchoalveolar lavage (BAL) from patients suspected of having pneumonia in the ICU. Methods: From January 2004 to June 2006, ICU patients with diffuse lung infiltration were prospectively enrolled. The BAL was used to diagnose the respiratory infection, with 104 > or = organisms considered a positive result. The most common organisms and their antimicrobial resistances were analyzed from the quantitative BAL cultures in the burn ICU and non-burn ICU. Results: A total 72 patients were included, 35 (M 29, F 6) in the burn ICU and 37 (M 26, F 11) in the non-burn ICU. 27 patients (77.1%) in the burn ICU and 22 patients (59.5%) in the non-burn ICU met the criteria for a positive BAL culture. The major pathogens were Staphylococcus aureus, Acinetobacter species and Pseudomonas aeruginosa. All strains (100%) of Staphylococcus aureus isolated from BAL (9 cases) were methicillin-resistant (MRSA) in the burn ICU, but 5 strains (71.4%, 7 cases) were MRSA in the non-burn ICU. Regarding Pseudomonas aeruginosa, the rate of resistance to amikacin, ciprofloxacin, cefepime, imipenem, ceftazidime, piperacillin/tazobactam in the burn and non-burn ICU ranged from 45.5% to 90% and 25% to 50%, respectively. In addition, the rate of resistance of Acinetobacter species to the above drugs in the burn and non-burn ICU ranged from 81.8% to 100% and 62.5% to 100%, respectively. Conclusions: These results are expected to provide useful guidelines for choosing the effective empirical antimicrobial therapy in patients with lung infiltrations in the burn and non-burn ICU.
Acinetobacter
;
Amikacin
;
Bacteria*
;
Bronchoalveolar Lavage*
;
Burns*
;
Ceftazidime
;
Ciprofloxacin
;
Critical Illness
;
Humans
;
Imipenem
;
Intensive Care Units*
;
Critical Care*
;
Lung*
;
Methicillin Resistance
;
Methicillin-Resistant Staphylococcus aureus
;
Mortality
;
Pneumonia
;
Prospective Studies
;
Pseudomonas aeruginosa
;
Respiratory Tract Infections
;
Staphylococcus aureus
10.Adenocarcinoma of unknown primary site.
Seo Young SONG ; Won Seog KIM ; Hye Ran LEE ; Hyun Sik JEONG ; Nam Su LEE ; Sung Yong OH ; Ji Hyang KIM ; Kihyun KIM ; Eun Mi NAM ; Young Ryun OH ; Chul Won JUNG ; Sung Soo YOON ; Young Hyuck IM ; Hong Gui LEE ; Won Ki KANG ; Chan Hyung PARK ; Keunchil PARK
Korean Journal of Medicine 2001;61(3):234-239
BACKGROUND: To study clinical characteristics and treatment outcomes of adenocarcinoma of unknown primary site (ACUPS). METHODS: A retrospective analysis of 81 patients who were diagnosed as ACUPS, seen at Samsung Medical Center from May, 1995 to July, 1999, was performed. RESULTS: The median age of the patients was 58 years. The common sites of metastases were the lymph node, liver, lung, bone. In 49 of 81 patients (60.5%), the dominant tumor location was below the diaphragm. The majority of patiens (76 of 81) were initially treated with systemic chemotherapy including cisplatin. Responses were evaluable in 70 of 76. Eighteen of 70 patients (25.7%) responded to chemotherapy and complete remission was observed in 6 patients. The overall median survival of 81 patients was 5.6 months. The median survival of the responding patients was 18.3 months but the median survial of the nonresponding patients was 4.6 months (p<0.01). In univariate and multivariate analysis, age, performance status and response to initial chemotherapy were significant prognostic factors for overall survial. CONCLUSION: Poor survival rate and treatment response were observed in ACUPS but complete response and long-term survival were observed in several patients.
Adenocarcinoma*
;
Cisplatin
;
Diaphragm
;
Drug Therapy
;
Humans
;
Liver
;
Lung
;
Lymph Nodes
;
Multivariate Analysis
;
Neoplasm Metastasis
;
Retrospective Studies
;
Survival Rate