The process of manually searching for relevant instances in, and extracting information from, cli... more The process of manually searching for relevant instances in, and extracting information from, clinical databases underpin a multitude of clinical tasks. Such tasks include disease diagnosis, clinical trial recruitment, and continuing medical education. This manual search-and-extract process, however, has been hampered by the growth of large-scale clinical databases and the increased prevalence of unlabelled instances. To address this challenge, we propose a supervised contrastive learning framework, CROCS, where representations of cardiac signals associated with a set of patient-specific attributes (e.g., disease class, sex, age) are attracted to learnable embeddings entitled clinical prototypes. We exploit such prototypes for both the clustering and retrieval of unlabelled cardiac signals based on multiple patient attributes. We show that CROCS outperforms the state-of-the-art method, DTC, when clustering and also retrieves relevant cardiac signals from a large database. We also show that clinical prototypes adopt a semantically meaningful arrangement based on patient attributes and thus confer a high degree of interpretability.
The Southeast Asian journal of tropical medicine and public health, 2010
The objective of this study was to assess the sexually transmitted infection (STI) prevalence and... more The objective of this study was to assess the sexually transmitted infection (STI) prevalence and sexual risk behavior among female sex workers (FSWs) in Indonesia. This cross-sectional 2005 study involved 2500 FSWs in nine provinces in Indonesia. Informed consent was obtained; behavioral and clinical data were collected. Specimens were collected for STI testing, endocervical swabs were tested for Chlamydia trachomatis and Neisseria gonorrhoeae (PCR), vaginal smears were cultured to detect Trichomonas vaginalis and sera were tested for syphilis (RPR and TPHA). The prevalence of chlamydial infection was 43.5%, gonorrhea 28.6%, trichomoniasis 15.1%, and syphilis 8.7%; the prevalence of any STI was 64.0%. Inconsistent condom use, younger age, and higher number of clients were independent risk factors for the presence of gonorrhea/chlamydia. Inconsistent condom use was common (73.2%); starting sex work at younger age, and higher number of clients were independent risk factors. Vaginal d...
International Journal of Infectious Diseases, 2014
Background: C.striatum is frequently encountered in the routine clinical microbiology laboratory.... more Background: C.striatum is frequently encountered in the routine clinical microbiology laboratory. It is a potentially pathogenic microorganism in specific circumstances with the ability to produce outbreaks of nosocomial infections. Identification of this species by biochemical methods remains difficult and several misidentifications have been reported previously. The aim of this study was to investigate the application of rpoB-PCR-RFLP and MALDI-TOF for the speciation of C.striatum strains. Methods & Materials: The study was conducted on clinical C.striatum strains collected in a Tunisian hospital between 2007 and 2013 which were identified by MALDI-TOF-MS (Bruker Daltonic, Wissembourg). Biochemical profiles were determined by API Coryne strips. For PCR-RFLP analysis, a 446-pb internal fragment of rpoB was amplified using primers C2700F and C3130R and digested by MseI enzyme. Results: Among 70 C. striatum strains identified by MALDI-TOF-MS, 38 (54. 28%) were designed to other Corynebacterium species by Api Coryne Strips: C.macginleyi (n = 13), Corynebacterium CDC group G (n = 13) and other species (n = 12). The rpoB-PCR-RFLP patterns predicted by using MseI clearly differentiate C.striatum. All strains identified as C.striatum by MALDI-TOF-MS were also assigned to this species by PCR-RFLP; any misidentificationusing this method has been noted. Conclusion: Miniaturized phenotypical identification systems are not reliable enough in order to identify a majority of clinical isolates. MALDI-TOF-MS is a rapid, and reliable method. The rpoB-PCR-RFLP was successfully applied to identify C.striatum and it can be used for the reliable identification of this pathogen.
The control sexually transmitted diseases (STDs) of infection has become more urgent since it has... more The control sexually transmitted diseases (STDs) of infection has become more urgent since it has been documented that untreated STDs infection facilitates HIV transmission. One of the most frequent cause of STDs reported is Neisseria gonorrhoeae. ...
Media Dermato Venereologica Indonesiana, Mar 31, 2011
Page 1. 1 Artikel Asli SENSITIVITAS DAN SPESIFISITAS PENDEKATAN SINDROM DAN JUMLAH SEL POLIMORFON... more Page 1. 1 Artikel Asli SENSITIVITAS DAN SPESIFISITAS PENDEKATAN SINDROM DAN JUMLAH SEL POLIMORFONUKLEAR (PMN) PADA INFEKSI CHLAMYDIA TRACHOMATIS GENITAL WANITA DIBANDINGKAN DENGAN ...
The Southeast Asian journal of tropical medicine and public health, 2010
The objective of this study was to assess the sexually transmitted infection (STI) prevalence and... more The objective of this study was to assess the sexually transmitted infection (STI) prevalence and sexual risk behavior among female sex workers (FSWs) in Indonesia. This cross-sectional 2005 study involved 2500 FSWs in nine provinces in Indonesia. Informed consent was obtained; behavioral and clinical data were collected. Specimens were collected for STI testing, endocervical swabs were tested for Chlamydia trachomatis and Neisseria gonorrhoeae (PCR), vaginal smears were cultured to detect Trichomonas vaginalis and sera were tested for syphilis (RPR and TPHA). The prevalence of chlamydial infection was 43.5%, gonorrhea 28.6%, trichomoniasis 15.1%, and syphilis 8.7%; the prevalence of any STI was 64.0%. Inconsistent condom use, younger age, and higher number of clients were independent risk factors for the presence of gonorrhea/chlamydia. Inconsistent condom use was common (73.2%); starting sex work at younger age, and higher number of clients were independent risk factors. Vaginal d...
The process of manually searching for relevant instances in, and extracting information from, cli... more The process of manually searching for relevant instances in, and extracting information from, clinical databases underpin a multitude of clinical tasks. Such tasks include disease diagnosis, clinical trial recruitment, and continuing medical education. This manual search-and-extract process, however, has been hampered by the growth of large-scale clinical databases and the increased prevalence of unlabelled instances. To address this challenge, we propose a supervised contrastive learning framework, CROCS, where representations of cardiac signals associated with a set of patient-specific attributes (e.g., disease class, sex, age) are attracted to learnable embeddings entitled clinical prototypes. We exploit such prototypes for both the clustering and retrieval of unlabelled cardiac signals based on multiple patient attributes. We show that CROCS outperforms the state-of-the-art method, DTC, when clustering and also retrieves relevant cardiac signals from a large database. We also show that clinical prototypes adopt a semantically meaningful arrangement based on patient attributes and thus confer a high degree of interpretability.
The Southeast Asian journal of tropical medicine and public health, 2010
The objective of this study was to assess the sexually transmitted infection (STI) prevalence and... more The objective of this study was to assess the sexually transmitted infection (STI) prevalence and sexual risk behavior among female sex workers (FSWs) in Indonesia. This cross-sectional 2005 study involved 2500 FSWs in nine provinces in Indonesia. Informed consent was obtained; behavioral and clinical data were collected. Specimens were collected for STI testing, endocervical swabs were tested for Chlamydia trachomatis and Neisseria gonorrhoeae (PCR), vaginal smears were cultured to detect Trichomonas vaginalis and sera were tested for syphilis (RPR and TPHA). The prevalence of chlamydial infection was 43.5%, gonorrhea 28.6%, trichomoniasis 15.1%, and syphilis 8.7%; the prevalence of any STI was 64.0%. Inconsistent condom use, younger age, and higher number of clients were independent risk factors for the presence of gonorrhea/chlamydia. Inconsistent condom use was common (73.2%); starting sex work at younger age, and higher number of clients were independent risk factors. Vaginal d...
International Journal of Infectious Diseases, 2014
Background: C.striatum is frequently encountered in the routine clinical microbiology laboratory.... more Background: C.striatum is frequently encountered in the routine clinical microbiology laboratory. It is a potentially pathogenic microorganism in specific circumstances with the ability to produce outbreaks of nosocomial infections. Identification of this species by biochemical methods remains difficult and several misidentifications have been reported previously. The aim of this study was to investigate the application of rpoB-PCR-RFLP and MALDI-TOF for the speciation of C.striatum strains. Methods & Materials: The study was conducted on clinical C.striatum strains collected in a Tunisian hospital between 2007 and 2013 which were identified by MALDI-TOF-MS (Bruker Daltonic, Wissembourg). Biochemical profiles were determined by API Coryne strips. For PCR-RFLP analysis, a 446-pb internal fragment of rpoB was amplified using primers C2700F and C3130R and digested by MseI enzyme. Results: Among 70 C. striatum strains identified by MALDI-TOF-MS, 38 (54. 28%) were designed to other Corynebacterium species by Api Coryne Strips: C.macginleyi (n = 13), Corynebacterium CDC group G (n = 13) and other species (n = 12). The rpoB-PCR-RFLP patterns predicted by using MseI clearly differentiate C.striatum. All strains identified as C.striatum by MALDI-TOF-MS were also assigned to this species by PCR-RFLP; any misidentificationusing this method has been noted. Conclusion: Miniaturized phenotypical identification systems are not reliable enough in order to identify a majority of clinical isolates. MALDI-TOF-MS is a rapid, and reliable method. The rpoB-PCR-RFLP was successfully applied to identify C.striatum and it can be used for the reliable identification of this pathogen.
The control sexually transmitted diseases (STDs) of infection has become more urgent since it has... more The control sexually transmitted diseases (STDs) of infection has become more urgent since it has been documented that untreated STDs infection facilitates HIV transmission. One of the most frequent cause of STDs reported is Neisseria gonorrhoeae. ...
Media Dermato Venereologica Indonesiana, Mar 31, 2011
Page 1. 1 Artikel Asli SENSITIVITAS DAN SPESIFISITAS PENDEKATAN SINDROM DAN JUMLAH SEL POLIMORFON... more Page 1. 1 Artikel Asli SENSITIVITAS DAN SPESIFISITAS PENDEKATAN SINDROM DAN JUMLAH SEL POLIMORFONUKLEAR (PMN) PADA INFEKSI CHLAMYDIA TRACHOMATIS GENITAL WANITA DIBANDINGKAN DENGAN ...
The Southeast Asian journal of tropical medicine and public health, 2010
The objective of this study was to assess the sexually transmitted infection (STI) prevalence and... more The objective of this study was to assess the sexually transmitted infection (STI) prevalence and sexual risk behavior among female sex workers (FSWs) in Indonesia. This cross-sectional 2005 study involved 2500 FSWs in nine provinces in Indonesia. Informed consent was obtained; behavioral and clinical data were collected. Specimens were collected for STI testing, endocervical swabs were tested for Chlamydia trachomatis and Neisseria gonorrhoeae (PCR), vaginal smears were cultured to detect Trichomonas vaginalis and sera were tested for syphilis (RPR and TPHA). The prevalence of chlamydial infection was 43.5%, gonorrhea 28.6%, trichomoniasis 15.1%, and syphilis 8.7%; the prevalence of any STI was 64.0%. Inconsistent condom use, younger age, and higher number of clients were independent risk factors for the presence of gonorrhea/chlamydia. Inconsistent condom use was common (73.2%); starting sex work at younger age, and higher number of clients were independent risk factors. Vaginal d...
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