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Epidemiological methods

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https://www.readbyqxmd.com/read/28821546/a-supervised-statistical-learning-approach-for-accurate-legionella-pneumophila-source-attribution-during-outbreaks
#1
Andrew H Buultjens, Kyra Y L Chua, Sarah L Baines, Jason Kwong, Wei Gao, Zoe Cutcher, Stuart Adcock, Susan Ballard, Mark B Schultz, Takehiro Tomita, Nela Subasinghe, Glen P Carter, Sacha J Pidot, Lucinda Franklin, Torsten Seemann, Anders Gonçalves Da Silva, Benjamin P Howden, Timothy P Stinear
Public health agencies are increasingly relying on genomics during Legionnaires' disease investigations. However, the causative bacterium (Legionella pneumophila) has an unusual population structure with extreme temporal and spatial genome sequence conservation. Furthermore, Legionnaires' disease outbreaks can be caused by multiple L. pneumophila genotypes in a single source. These factors can confound cluster identification using standard phylogenomic methods. Here, we show that a statistical learning approach based onL...
August 18, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28820711/molecular-epidemiology-of-cholera-outbreaks-during-the-rainy-season-in-mandalay-myanmar
#2
Amonrattana Roobthaisong, Kazuhisa Okada, Nilar Htun, Wah Wah Aung, Warawan Wongboot, Watcharaporn Kamjumphol, Aye Aye Han, Yi Yi, Shigeyuki Hamada
Cholera, caused by Vibrio cholerae, remains a global threat to public health. In Myanmar, the availability of published information on the occurrence of the disease is scarce. We report here that cholera incidence in Mandalay generally exhibited a single annual peak, with an annual average of 312 patients with severe dehydration over the past 5 years (since 2011) and was closely associated with the rainy season. We analyzed cholera outbreaks, characterized 67 isolates of V. cholerae serogroup O1 in 2015 from patients from Mandalay, and compared them with 22 V...
August 14, 2017: American Journal of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/28819973/mobile-platform-for-multiplexed-detection-and-differentiation-of-disease-specific-nucleic-acid-sequences-using-microfluidic-loop-mediated-isothermal-amplification-and-smartphone-detection
#3
Weili Chen, Hojeong Yu, Fu Sun, Akid Ornob, Ryan Brisbin, Anurup Ganguli, Vinay Kumar Vemuri, Piotr Strzebonski, Guangzhe Cui, Karen J Allen, Smit A Desai, Weiran Lin, David M Nash, David Hirschberg, Ian Brooks, Rashid Bashir, Brian T Cunningham
New tools are needed to enable rapid detection, identification, and reporting of infectious viral and microbial pathogens in a wide variety of point-of-care applications that impact human and animal health. We report the design, construction, and characterization of a platform for multiplexed analysis of disease-specific DNA sequences that utilizes a smartphone camera as the sensor in conjunction with a handheld "cradle" that interfaces the phone with a silicon-based microfluidic chip embedded within a credit card-sized cartridge...
August 18, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28819520/the-ban-on-blood-donation-on-men-who-have-sex-with-men-time-to-rethink-and-reassess-an-outdated-policy
#4
Georgios Karamitros, Nikolaos Kitsos, Ioanna Karamitrou
During the 1980s the HIV/AIDS epidemic outbreak occurred. Due to the high prevalence of the disease on men who had sex with men (MSM) a lifetime ban on blood donations on men who had sex with men (MSM) was implemented. In the recent years, organizations like the European Union (EU) and the World Health Organization (WHO) have established new guidelines introducing the term of "risky sexual behavior" without any reference to the sex orientation of the potential donor, however many countries are hesitant to review the ban on men who had sex with men (MSM)...
2017: Pan African Medical Journal
https://www.readbyqxmd.com/read/28819435/pattern-of-distant-extrahepatic-metastases-in-primary-liver-cancer-a-seer-based-study
#5
Wenrui Wu, Xingkang He, Dewi Andayani, Liya Yang, Jianzhong Ye, Yating Li, Yanfei Chen, Lanjuan Li
Background and Aims: Primary liver cancer remains still the common cause of cancer-related deaths globally and the prognosis for patients with extrahepatic metastasis is poor. The aim of our study was to assess extrahepatic metastatic pattern of different histological subtypes and evaluate prognostic effects of extrahepatic metastasis in patients with advanced disease. Methods: Based on the Surveillance, Epidemiology and End Results (SEER) database, eligible patients diagnosed with primary liver cancer was identified between 2010 to 2012...
2017: Journal of Cancer
https://www.readbyqxmd.com/read/28819392/long-term-trends-in-primary-sites-of-gastric-adenocarcinoma-in-japan-and-the-united-states
#6
Michitaka Honda, Sandra L Wong, Mark A Healy, Toshifusa Nakajima, Masayuki Watanabe, Shingo Fukuma, Shunichi Fukuhara, John Z Ayanian
Background: The incidence and characteristics of gastric cancer have been shown to vary widely across Western and Eastern countries. Our study had two aims: to evaluate long-term trends in gastric adenocarcinoma in Japan over a period of 70 years, and to anticipate the future of gastric cancer in Japan, through comparison with data from the United States. Methods: Japanese patient data for 19,306 incident cases of gastric adenocarcinoma from 1946 - 2014 were collected from the Gastric Cancer Database at the Cancer Institute Hospital, Tokyo, Japan (CIH-GCDB)...
2017: Journal of Cancer
https://www.readbyqxmd.com/read/28819372/survival-changes-in-patients-with-synovial-sarcoma-1983-2012
#7
Shuncong Wang, Rongfeng Song, Tiantian Sun, Bingzong Hou, Guobin Hong, Saradhi Mallampati, Hongliu Sun, Xiuling Zhou, Cuiling Zhou, Hongyu Zhang, Zhibin Cheng, Jie Li, Haiqing Ma, Huanhuan Sun
Background: Synovial sarcoma (SyS) is a rare malignancy that typically invades the extremities and occurs predominantly in adolescents. Studies on incidence and survival in SyS that were based on a large population had not been reported yet. Methods: To evaluate changes in incidence and survival in SyS over three decades, we accessed data on SyS cases in each decade between 1983 and 2012 (1983-1992, 1993-2002, and 2003-2012) from the Surveillance, Epidemiology, and End Results (SEER) database. The survival difference between decades, age groups, sexes, race, pathologic types, sites, stages and socioeconomic status (SES) over three decades were accessed by comparing Kaplan-Meier curves...
2017: Journal of Cancer
https://www.readbyqxmd.com/read/28819339/depression-after-stroke-in-sub-saharan-africa-a-systematic-review-and-meta-analysis
#8
REVIEW
Akin Ojagbemi, Onoja Akpa, Fisayo Elugbadebo, Mayowa Owolabi, Bruce Ovbiagele
OBJECTIVE: We aimed to conduct a systematic review and meta-analysis of prevalence and characteristics of poststroke depression (PSD) in sub-Saharan Africa (SSA). METHODS: We searched Medline, PsycINFO, and African Journals OnLine using keywords for stroke and depression and the .mp. operator for all 54 SSA countries/regions. Further information was retrieved through a manual search of references from relevant published and unpublished articles. We included only peer-reviewed original studies with epidemiological or experimental designs, conducted random-effect meta-analysis, and identified the most commonly associated factors by weight (inverse of variance method)...
2017: Behavioural Neurology
https://www.readbyqxmd.com/read/28818750/whole-genome-sequence-phylogenetic-analysis-of-four-mexican-rabies-viruses-isolated-from-cattle
#9
I Bárcenas-Reyes, E Loza-Rubio, G J Cantó-Alarcón, J Luna-Cozar, A Enríquez-Vázquez, R J Barrón-Rodríguez, F Milián-Suazo
Phylogenetic analysis of the rabies virus in molecular epidemiology has been traditionally performed on partial sequences of the genome, such as the N, G, and P genes; however, that approach raises concerns about the discriminatory power compared to whole genome sequencing. In this study we characterized four strains of the rabies virus isolated from cattle in Querétaro, Mexico by comparing the whole genome sequence to that of strains from the American, European and Asian continents. Four cattle brain samples positive to rabies and characterized as AgV11, genotype 1, were used in the study...
August 4, 2017: Research in Veterinary Science
https://www.readbyqxmd.com/read/28818623/leptospira-species-molecular-epidemiology-in-the-genomic-era
#10
K Caimi, S Repetto, V Varni, P Ruybal
Leptospirosis is a zoonotic disease which global burden is increasing often related to climatic change. Hundreds of whole genome sequences from worldwide isolates of Leptospira spp. are available nowadays, together with online tools that permit to assign MLST sequence types (STs) directly from raw sequence data. In this work we have applied R7L-MLST to near 500 genomes and strains collection globally distributed. All 10 pathogenic species as well as intermediate were typed using this MLST scheme. The correlation observed between STs and serogroups in our previous work, is still satisfied with this higher dataset sustaining the implementation of MLST to assist serological classification as a complementary approach...
August 14, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28818575/beta-lactam-resistance-among-haemophilus-influenzae-isolates-in-poland
#11
Marlena Kiedrowska, Alicja Kuch, Dorota Żabicka, Izabela Waśko, Patrycja Ronkiewicz, Katarzyna Wasiak, Katarzyna Bojarska, Waleria Hryniewicz, Anna Skoczyńska
OBJECTIVES: Haemophilus influenzae is a human-specific Gram-negative coccobacillus responsible for a significant number of respiratory tract infections and severe invasive infections such as meningitis and sepsis. The purpose of the study was to characterize the mechanisms of β-lactam resistance among Polish H. influenzae isolates and to evaluate the methods applied. METHODS: The study was conducted on 117 Polish H. influenzae isolates collected in 2012. Minimal inhibitory concentrations (MICs) were assessed by the broth microdilution method...
August 14, 2017: Journal of Global Antimicrobial Resistance
https://www.readbyqxmd.com/read/28818505/schizophrenia-with-prominent-catatonic-features-a-selective-review
#12
Gabor S Ungvari, Jozsef Gerevich, Rozália Takács, Gábor Gazdag
A widely accepted consensus holds that a variety of motor symptoms subsumed under the term 'catatonia' have been an integral part of the symptomatology of schizophrenia since 1896, when Kraepelin proposed the concept of dementia praecox (schizophrenia). Until recently, psychiatric classifications included catatonic schizophrenia mainly through tradition, without compelling evidence of its validity as a schizophrenia subtype. This selective review briefly summarizes the history, psychopathology, demographic and epidemiological data, and treatment options for schizophrenia with prominent catatonic features...
August 14, 2017: Schizophrenia Research
https://www.readbyqxmd.com/read/28818474/estimating-influenza-disease-burden-among-pregnant-women-application-of-self-control-method
#13
Satoko Ohfuji, Masaaki Deguchi, Daisuke Tachibana, Masayasu Koyama, Tetsu Takagi, Takayuki Yoshioka, Akinori Urae, Wakaba Fukushima, Yoshio Hirota
To evaluate influenza disease burden among pregnant women, an epidemiological study using the self-control method was conducted. Study subjects were 12,838 pregnant women who visited collaborating maternity hospitals and clinics in Osaka Prefecture, Japan, before the 2013/14 influenza season. As a study outcome, hospitalization due to respiratory illnesses between the 2010/11 and 2013/14 seasons was collected from each study subject through a baseline survey at the time of recruitment and a second survey after the 2013/14 season...
August 24, 2017: Vaccine
https://www.readbyqxmd.com/read/28818085/a-rare-case-of-acute-toxoplasmosis-in-a-stray-dog-due-to-infection-of-t-gondii-clonal-type-i-public-health-concern-in-urban-settings-with-stray-animals
#14
Sergio Migliore, Salvatore La Marca, Cristian Stabile, Vincenzo Di Marco Lo Presti, Maria Vitale
BACKGROUND: Typing of Toxoplasma gondii strains is important in epidemiological surveys, to understand the distribution and virulence of different clones of the parasite among human and animal populations. Stray dogs can be consider sentinel animals for contaminated environments playing an important but probably under- evaluated role in the epidemiology of T. gondii. We reported a rare case of acute toxoplasmosis in a stray dog due to clonal type I infection. The clonal type I, sporadic in Europe, is frequently associated with severe toxoplasmosis in humans and the control of its circulation is particularly relevant for public health...
August 17, 2017: BMC Veterinary Research
https://www.readbyqxmd.com/read/28816977/helicobacter-pylori-infection-atrophic-gastritis-and-pancreatic-cancer-risk-a-meta-analysis-of-prospective-epidemiologic-studies
#15
Hong Liu, Yue-Tong Chen, Rui Wang, Xin-Zu Chen
BACKGROUND: To investigate the associations of Helicobacter pylori (Hp) infection and atrophic gastritis (AG) with pancreatic cancer risk. METHODS: A literature search in PubMed was performed up to July 2017. Only prospective cohort and nested case-control studies enrolling cancer-free participants were eligible. Incident pancreatic cancer cases were ascertained during the follow-up. The risks of pancreatic cancer were compared between persons infected and noninfected with Hp, or between those with and without AG status at baseline...
August 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28815681/meta-analytical-synthesis-of-regression-coefficients-under-different-categorization-scheme-of-continuous-covariates
#16
Daisuke Yoneoka, Masayuki Henmi
Recently, the number of clinical prediction models sharing the same regression task has increased in the medical literature. However, evidence synthesis methodologies that use the results of these regression models have not been sufficiently studied, particularly in meta-analysis settings where only regression coefficients are available. One of the difficulties lies in the differences between the categorization schemes of continuous covariates across different studies. In general, categorization methods using cutoff values are study specific across available models, even if they focus on the same covariates of interest...
August 16, 2017: Statistics in Medicine
https://www.readbyqxmd.com/read/28815634/effect-of-trapping-methods-on-the-estimation-of-alpha-diversity-of-a-phlebotomine-sandfly-assemblage-in-southern-mexico
#17
J J Rodríguez-Rojas, E A Rebollar-Téllez
The aims of the study were to (a) investigate the effect of trapping methods on alpha diversity; and (b) enhance the knowledge of the sandfly assemblage in the state of Quintana Roo. Field work was undertaken in a tropical forest of southern Mexico from August 2013 to July 2014. Sampling was conducted monthly during three consecutive nights. For each trapping night, 12 different types of trap were operated from 18.00 to 24.00 hours in four transects. Measures of alpha community diversity were based on the quantification of the number of species (Chao 2, Jackknife 2, Clench's equation, Margalef's index) and the community structure, as well as the dominance (Simpson and Berger-Parker indexes) and evenness (Shannon's entropy index, true diversity of the Jost and Pielou index)...
August 17, 2017: Medical and Veterinary Entomology
https://www.readbyqxmd.com/read/28815119/extracting-geographic-locations-from-the-literature-for-virus-phylogeography-using-supervised-and-distant-supervision-methods
#18
Davy Weissenbacher, Abeed Sarker, Tasnia Tahsin, Matthew Scotch, Graciela Gonzalez
The field of phylogeography allows researchers to model the spread and evolution of viral genetic sequences. Phylogeography plays a major role in infectious disease surveillance, viral epidemiology and vaccine design. When conducting viral phylogeographic studies, researchers require the location of the infected host of the virus, which is often present in public databases such as GenBank. However, the geographic metadata in most GenBank records is not precise enough for many phylogeographic studies; therefore, researchers often need to search the articles linked to the records for more information, which can be a tedious process...
2017: AMIA Summits on Translational Science Proceedings
https://www.readbyqxmd.com/read/28814958/does-survival-vary-for-breast-cancer-patients-in-the-united-states-a-study-from-six-randomly-selected-states
#19
Hafiz M R Khan, Lisaann S Gittner, Abhilash Perisetti, Anshul Saxena, Aamrin Rafiq, Kemesha Gabbidon, Sarah Mende, Maria Lyuksyutova
BACKGROUND: Breast cancer is the most common cancer in women. Disparities in some characteristics of breast cancer patients and their survival data for six randomly selected states in the US were examined. MATERIALS AND METHODS: A probability random sampling method was used to select the records of 2,000 patients from each of six randomly selected states. Demographic and disease characteristics were extracted from the Surveillance Epidemiology and End Results (SEER) database...
2017: Journal of Environmental and Public Health
https://www.readbyqxmd.com/read/28814947/preserving-the-anti-scientific-linear-no-threshold-myth-authority-agnosticism-transparency-and-the-standard-of-care
#20
Bill Sacks, Jeffry A Siegel
The linear no-threshold (LNT) assumption is over 70 years old and holds that all ionizing radiation exposure leaves cumulative effects, all of which are harmful regardless of how low the dose or dose rate is. The claimed harm centers on the risk of future radiogenic cancer. This has been shown countless times to be fallacious, and hundreds of scientific studies-both experimental and observational/epidemiological-demonstrate that at low enough doses and dose rates, ionizing radiation stimulates an evolved adaptive response and therefore is beneficial to health, lowering rather than raising the risk of cancer...
July 2017: Dose-response: a Publication of International Hormesis Society
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