• 제목/요약/키워드: HPV DNA chip

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Detection of Human Papillomavirus in Male and Female Urine by Electrochemical DNA Chip and PCR Sequencing

  • Nilyanimit, Pornjarim;Wanlapakorn, Nasamon;Niruthisard, Somchai;Pohthipornthawat, Natkrita;Karalak, Anant;Laowahutanont, Piyawat;Phanuphak, Nittaya;Gemma, Nobuhiro;Poovorawan, Yong
    • Asian Pacific Journal of Cancer Prevention
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    • 제14권9호
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    • pp.5519-5525
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    • 2013
  • Background: Cervical cancer is the second most common cancer in Thai women after breast cancer. Currently, the Papanicolaou (Pap) smear is the recommended procedure for cervical cancer screening in Thailand, but only a relatively small percentage of women follow this screening program. An alternative method to detect HPV genotypes associated with cervical cancer is self-sampling of urine, which is a more widely accepted method. Our study aimed to evaluate the prevalence of HPV in Thai women using urine and cervical swabs and prevalence of HPV in Thai men using urine samples. Materials and Methods: Tumorigenic HPV detection was accomplished by electrochemical DNA chip and PCR/direct sequencing. In addition to HPV prevalence, we report the concordance between different methods and sample types. One-hundred and sixteen women and 100 men were recruited. Histological examination revealed normal cytology in 52 women, atypical squamous cells of undetermined significance (ASCUS) in 9, low-grade squamous intraepithelial lesions (LSIL) in 24, and high-grade squamous intraepithelial lesions (HSIL) in 31. One-hundred men were classified as heterosexuals (n=45) and homosexuals (n=55). Results: The most prevalent HPV genotype in our study was HPV16. The HPV detection rate was generally lower in urine samples compared with cervical samples. Overall, there was good agreement for the detection of carcinogenic HPV from female cervical samples between the DNA chip and PCR/sequencing, with 88.8% total agreement and a kappa value of 0.76. In male urine samples, the level of agreement was higher in heterosexuals compared with homosexuals. Conclusions: Further improvement is required to increase an overall yield of HPV DNA detection in urine samples before clinical application of a urine-based HPV screening program. The electrochemical DNA chip test is a promising technique for carcinogenic HPV detection.

최근 서울지역 종합병원에서 다양한 인유두종바이러스의 검출에 대한 실태조사 (Investigation of Detected by Recent Various Human Papillomavirus from General Hospital in Seoul Area)

  • 이준범;박창은
    • 대한임상검사과학회지
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    • 제48권3호
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    • pp.247-254
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    • 2016
  • 인간 유두종 바이러스(HPV)에 의한 감염은 자궁경부암의 원인이다. HPV DNA의 세포 검사에서의 변화는 향후 더 도전적으로 발전을 기대한다, HPV 유전자형의 감염에 대한 새로운 HPV의 DNA(22종) chip 검사는 최근 한국에서 많이 개발되었다. 이 연구의 목적은 서울 지역에서 HPV 감염의 빈도와 유전자형 분포를 알아보고자 하였다. 지난 2015년 한 해 동안 서울지역 종합병원 내원객을 대상으로 총 5,614 검체의 검사에서 HPV 유전자형은 1,596 (28.4%)에서 검출되었다, 이중 한 종류의 유전자형은 가진 검체(n=831) 중고위험 HPV는 679 (42.5%), 저위험 HPV는 152 (9.5%)로 나타났다. 이중 자주 발견 유전자형은 HPV-16 (16.5%), 58 (15.2%), 52(8.8%), 51 (7.1%), 56 (5.9%) 순이었다. 혼합 유전자형(n=219) 중 2종(n=176, 11.0%), 3종(n=37, 5.9%), 4종(n=2, 0.1%)이 나타났다 이에 본 연구는 종합 병원 방문자의 HPV 감염을 조사하였다. 이러한 연구 결과는 HPV 전국적으로 분포 및 백신의 도입을 안내하는 데 이용될 수 있을 것으로 사료되며 진료에 중요한 정보를 제공하며 역학적 추가 연구가 요구된다.

High-risk Human Papillomavirus Genotype Detection by Electrochemical DNA Chip Method

  • Chansaenroj, Jira;Theamboonlers, Apiradee;Chinchai, Teeraporn;Junyangdikul, Pairoj;Swangvaree, Sukumarn;Karalak, Anant;Takahashi, Masayoshi;Nikaido, Masaru;Gemma, Nobuhiro;Poovorawan, Yong
    • Asian Pacific Journal of Cancer Prevention
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    • 제13권4호
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    • pp.1151-1158
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    • 2012
  • High-risk human papillomavirus (HPV) genotypes are the major cause of cervical cancer. Hence, HPV genotype detection is a helpful preventive measure to combat cervical cancer. Recently, several HPV detection methods have been developed, each with different sensitivities and specificities. The objective of this study was to compare HPV high risk genotype detection by an electrochemical DNA chip system, a line probe assay (INNO-LiPA) and sequencing of the L1, E1 regions. A total of 361 cervical smears with different cytological findings were subjected to polymerase chain reaction-sequencing and electrochemical DNA chip assessment. Multiple infections were found in 21.9% (79/361) of the specimens, most prevalently in 20-29-year olds while the highest prevalence of HPV infection was found in the 30-39-year age group. The most prevalent genotype was HPV 16 at 28.2% (138/489) followed by HPV 52 at 9.6% (47/489), with the other types occurring at less than 9.0%. The electrochemical DNA chip results were compared with INNO-LiPA and sequencing (E1 and L1 regions) based on random selection of 273 specimens. The results obtained by the three methods were in agreement except for three cases. Direct sequencing detected only one predominant genotype including low risk HPV genotypes. INNO-LiPA identified multiple infections with various specific genotypes including some unclassified-risk genotypes. The electrochemical DNA chip was highly accurate, suitable for detection of single and multiple infections, allowed rapid detection, was less time-consuming and was easier to perform when compared with the other methods. It is concluded that for clinical and epidemiological studies, all genotyping methods are perfectly suitable and provide comparable results.

한국인 구강암 환자에서 인유두종 바이러스의 발현율 분석 (Prevalence of Human Papillomavirus Infection in the Korean Oral Cancer Patients)

  • 김현수;서미현;김성민;조영아;이석근;이종호;명훈
    • Maxillofacial Plastic and Reconstructive Surgery
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    • 제35권4호
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    • pp.227-235
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    • 2013
  • Purpose: High risk human papillomavirus (HPV) is the main source of cervical cancer, nearly up to 100%. Because there are no affordable data regarding the incidence of HPV in different sites of oral cavity, the purpose of this study is to review the previous article and to find out about the incidence and types of HPV in specific areas of oral cavity. Methods: We examined a total of 106 patients with oral cavity cancer for HPV detection. Available DNA chip (MY-HPV chip kit$^{(R)}$, Mygene Co., Korea) was used for the detection of low risk HPV types (6, 11, 34, 40, 42, 43, 44) and high risk HPV types (16, 18, 31, 33, 35, 39, 45, 51, 52, 54, 56, 58). Patients were previously diagnosed as invasive cancer of oral cavity. Specimen used for HPV detection was extracted from the main mass during resection and were tested for HPV type, performed by a DNA chip method. Results: Histologic results showed that there were squamous cell carcinomas, mucoepidermoid carcinomas, cystadenocarcinomas, leiomyosarcoma and etc. Among HPV positive cancer, 2 patients showed positive for high risk HPV type 16, 3 patients showed positive for low risk HPV type 6 and the other 2 patients were positive for other types of HPV. Of the 7 patients with HPV positive, 4 patients were on the tongue, 3 on the lower gingiva. Conclusion: Most of the HPV positive cancers were on the tongue in our study. Cervical cancer of HPV infection is reported to be increasing in our society and because HPV infection largely spreads by sexual contact, the incidence of oral cancer with HPV infection is greatly assumed to be on the increase, simultaneously. Because the incidence of HPV on specific areas of oral cavity among oral cancer patients is not identified, more studies are ongoing.

Focal epithelial hyperplasia arising after delivery of metal-ceramic fixed dental prosthesis

  • Park, Min-Woo;Cho, Young-Ah;Kim, Soung-Min;Myoung, Hoon;Lee, Jong-Ho;Lee, Suk-Keun
    • The Journal of Advanced Prosthodontics
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    • 제6권6호
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    • pp.555-558
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    • 2014
  • Focal epithelial hyperplasia (FEH) is a human papillomavirus (HPV)-induced alteration of the oral mucosa that presents with a clinically distinct appearance. While other HPV-infected lesions such as squamous papilloma, verruca vulgaris, and condyloma acuminatum involve the skin, oral mucosa, and genital mucosa, FEH occurs only in the oral mucosa. The affected oral mucosa exhibits multiple papules and nodules with each papule/nodule being flat-topped or sessile. The affected region resembles the normal color of oral mucosa rather than appearing as a white color since the epithelial surface is not hyperkeratinized. Almost all cases present with multiple sites of occurrence. This rare, benign epithelial proliferation is related to low-risk HPV, especially HPV-13 and -32, and is not transformed into carcinoma. We report a case of FEH that arose on the attached gingiva of an East Asian male adult related to prosthesis without detection of any HPV subtype in HPV DNA chip and sequencing.

온-오프 형태의 DNA 마이크로어레이 영상 분석을 위한 비선형 정합도 (Nonlinear matching measure for the analysis of on-off type microarray image)

  • 류문호;김종대
    • 한국통신학회논문지
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    • 제30권3C호
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    • pp.112-118
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    • 2005
  • 본 논문에서는 교잡반응된 스팟을 템플릿 정합법으로 감지하는 온-오프 형태의 DNA 마이크로어레이 영상의 자동분석을 위한 새로운 비선형 정합도를 제안한다. HPV DNA 칩의 목표 스팟은 인유두종 바이러스(HPV)의 종을 알아내기 위해서 설계된다. 제안하는 척도는 전체 템플릿 영역을 이진 문턱값으로 양극화하여 스팟 영역 내의 밝은 화소의 개수를 취해서 얻는다. 이 척도를 추정된 마커 위치의 정확도 관점에서 평가하여 정규화된 상관도보다 우수함을 보인다.

템플릿 정합법을 이용한 온-오프 형태 DNA 칩의 탐색자 구분 (Probe Classification of an On-Off Type DNA Chip Using Template Matching Method)

  • 유문호
    • 정보처리학회논문지B
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    • 제13B권6호
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    • pp.579-584
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    • 2006
  • 본 연구는 카운팅 정합도라 불리는, 비선형 정합도를 척도로 하는 템플릿 정합법을 이용하여 온-오프 형태 DNA칩의 탐색자를 구분하는 방법을 제안한다. 또한, 스팟 템플릿의 다양한 위치나 크기에 따른 응답의 최대값을 찾는 최대 응답 탐색법을 제안한다. 각 스팟의 교잡반응 여부만을 분류하는 온-오프 형태의 DNA 칩의 탐색자를 구분하는 용도에 제안된 방법을 적용하였다 2390명의 환자에 대한 인유두종 바이러스 DNA 칩 검사에 적용하여, 카운팅 정합도를 기존의 정규상관도나 메디안과 비교하였다. 카운팅 정합도가 최대 응답 탐색법에 관계없이 최고의 성능을 보였다. 실험결과 위치탐색을 결합한 카운팅 정합도가 가장 적절하였다.

편도암의 발암 원인으로 Human Papilloma Virus를 통한 발암 기전과의 상관 관계 (Correaltion of Human Papilloma Virus Infection Status with Tonsillar Squamous Cell Carcinoma)

  • 김세헌;변형권;천제영;박영민;정진세;이소윤
    • 대한두경부종양학회지
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    • 제23권1호
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    • pp.21-25
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    • 2007
  • Background:Squamous cell carcinoma(SCC)of the palatine tonsils represents approximately 15-23% of all intraoral SCC. The most frequently reported risk factors for oropharyngeal cancer are smoking and alcohol. In a recent overview of HPV and tonsillar squamous cell carcinoma(TC), 51% contained HPV DNA, and HPV-16 being the most frequent type. We aimed to clarify whether HPV directly effects on the oncogenesis and biologic behavior of TC by comparison with infection prevalence, and physical status of virus. Material and Method:We used HPV genotyping DNA chip(Biocore, Korea, Seoul) arrayed by multiple oligonucleotide probes of L1 sequence of 26 types of HPV and HPV genotypes are identified by fluorescence scanner. The copy numbers of HPV E2 and E6 open reading frames(ORF) were assessed using a TaqMan-based 5'-exonuclease quantitative real-time PCR assay. The ratio of E2 to E6 copy numbers was calculated to determine the physical status of HPV-16 viral gene. Results:We observed a significant difference in HPV prevalence between 52 TCs and 69 CFTs(73.1% vs. 11.6%), and most of the HPVs were type 16(87.2%)and non-episomal(94.1%) state. Conclusions:This study regarding HPV infection prevalence and mechanism in the largest population of palatine tonsillar squamous cell carcinoma with chronic follicular tonsillitis revealed significant difference pf HPV prevalence between TC and CFT. Most of HPV were 16 type and integrated or mixed, HPV-16 integration could be directly related to tonsillar carcinogenesis.

Automatic Reading System for On-off Type DNA Chip

  • Ryu, Mun-Ho;Kim, Jong-Dae;Kim, Jong-Won
    • Journal of Information Processing Systems
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    • 제2권3호
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    • pp.189-193
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    • 2006
  • In this study we propose an automatic reading system for diagnostic DNA chips. We define a general specification for an automatic reading system and propose a possible implementation method. The proposed system performs the whole reading process automatically without any user intervention, covering image acquisition, image analysis, and report generation. We applied the system for the automatic report generation of a commercialized DNA chip for cervical cancer detection. The fluorescence image of the hybridization result was acquired with a $GenePix^{TM}$ scanner using its library running in HTML pages. The processing of the acquired image and the report generation were executed by a component object module programmed with Microsoft Visual C++ 6.0. To generate the report document, we made an HWP 2002 document template with marker strings that were supposed to be searched and replaced with the corresponding information such as patient information and diagnosis results. The proposed system generates the report document by reading the template and changing the marker strings with the resultant contents. The system is expected to facilitate the usage of a diagnostic DNA chip for mass screening by the automation of a conventional manual reading process, shortening its processing time, and quantifying the reading criteria.

Clinical Significance of Recurrent Respiratory Papillomatosis

  • 남순열;박정제
    • 대한음성언어의학회:학술대회논문집
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    • 대한음성언어의학회 2003년도 제19회 학술대회
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    • pp.195-197
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    • 2003
  • 호흡기 유두종(recurrent respiratory papillomatosis, RRP)은 호흡기의 편평상피에 발생하는 바이러스성 질환으로 잦은 재발과 증식을 특징으로 한다. 다발성으로 발생하는 경우 소아에서는 생명을 위협하기도 하는 치명적인 질환이다. 호흡기 유두종의 발생에 가장 중요한 원인은 유두종 바이러스(human papilloma virus : HPV)의 감염으로 생각된다. HPV는 Papovaviridae군에 속하는 이중쇄 구조의 DNA virus로서 피부 사마귀, 항문성기기관 및 호흡소화기관의 양성 또는 악성 편평상피 유두종을 유발하는 원인 인자로 알려져 있다. 최근까지의 발표에 의하면 HPV 6, 11형이 호흡기 유두종증의 주원인이라고 알려져 있다. 원인 바이러스의 검출방법에 대하여 최근 DNA chip을 이용하는 방법이 개발되었고, 자궁경부암과 암 전구병변에서 인 유두종 바이러스의 아형에 대한 연구가 발표된 바 있다. (중략)

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