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Infectious disease epidemiology

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https://www.readbyqxmd.com/read/28830113/big-data-for-infectious-disease-surveillance-and-modeling
#1
Shweta Bansal, Gerardo Chowell, Lone Simonsen, Alessandro Vespignani, Cécile Viboud
We devote a special issue of the Journal of Infectious Diseases to review the recent advances of big data in strengthening disease surveillance, monitoring medical adverse events, informing transmission models, and tracking patient sentiments and mobility. We consider a broad definition of big data for public health, one encompassing patient information gathered from high-volume electronic health records and participatory surveillance systems, as well as mining of digital traces such as social media, Internet searches, and cell-phone logs...
December 1, 2016: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28830109/mind-the-scales-harnessing-spatial-big-data-for-infectious-disease-surveillance-and-inference
#2
Elizabeth C Lee, Jason M Asher, Sandra Goldlust, John D Kraemer, Andrew B Lawson, Shweta Bansal
Spatial big data have the velocity, volume, and variety of big data sources and contain additional geographic information. Digital data sources, such as medical claims, mobile phone call data records, and geographically tagged tweets, have entered infectious diseases epidemiology as novel sources of data to complement traditional infectious disease surveillance. In this work, we provide examples of how spatial big data have been used thus far in epidemiological analyses and describe opportunities for these sources to improve disease-mitigation strategies and public health coordination...
December 1, 2016: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28830106/digital-pharmacovigilance-and-disease-surveillance-combining-traditional-and-big-data-systems-for-better-public-health
#3
Marcel Salathé
The digital revolution has contributed to very large data sets (ie, big data) relevant for public health. The two major data sources are electronic health records from traditional health systems and patient-generated data. As the two data sources have complementary strengths-high veracity in the data from traditional sources and high velocity and variety in patient-generated data-they can be combined to build more-robust public health systems. However, they also have unique challenges. Patient-generated data in particular are often completely unstructured and highly context dependent, posing essentially a machine-learning challenge...
December 1, 2016: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28829691/how-does-the-cellular-phone-help-in-epidemiological-surveillance-a-review-of-the-scientific-literature
#4
Boukary Ouedraogo, Jean Gaudart, Jean-Charles Dufour
BACKGROUND: In the field of epidemiological surveillance, no systematic literature review appears to exist of implemented projects using cellular phone technology. METHOD: We performed a systematic literature review using the Pubmed and Scopus databases to retrieve articles published up to December 2015. We analyzed information reported in these publications according to the mobile health (mHealth) evidence reporting and assessment (mERA) checklist, and complemented this work with specific items related to epidemiology, in order to clarify the types of results reported and summarized in this context...
August 22, 2017: Informatics for Health & Social Care
https://www.readbyqxmd.com/read/28826756/single-nucleotide-polymorphism-based-multiplex-pcr-for-identification-and-genotyping-of-the-oomycete-pythium-insidiosum-from-humans-animals-and-the-environment
#5
Thidarat Rujirawat, Thanawat Sridapan, Tassanee Lohnoo, Wanta Yingyong, Yothin Kumsang, Pattarana Sae-Chew, Walaiporn Tonpitak, Theerapong Krajaejun
Pythium insidiosum causes a life-threatening infectious disease, called pythiosis, in humans and animals worldwide. Diagnosis of pythiosis is difficult and often delayed. Surgical removal of infected tissue is the main treatment option. Disabilities and death are common outcomes for pythiosis patients. Reports of Py. insidiosum infections are rising. While it would be useful for clinical, epidemiological, and microbiological studies, information on genetic variation in Py. insidiosum strains is limited. This limitation is, at least in part, due to the cost and time-requirements of DNA sequencing procedures...
August 4, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28820685/immune-reconstitution-inflammatory-syndrome-in-hiv-infected-immigrants
#6
María Pérez-Rueda, Michele Hernández-Cabrera, Adela Francés-Urmeneta, Alfonso Angel-Moreno, Elena Pisos-Álamo, Nieves Jaén-Sánchez, Cristina Carranza-Rodríguez, Jose-Luis Pérez-Arellano
Immune reconstitution inflammatory syndrome (IRIS) includes a group of potentially serious inflammatory processes that may be present in HIV-infected patients after initiating highly active antiretroviral therapy (HAART). Paradoxical IRIS is a worsening of symptoms, after an overwhelming response to a previously diagnosed opportunistic infection (OI); unmasking IRIS reveals a previously occult OI. The main objective of the study was to describe the epidemiological, clinical, and outcome data of HIV-infected immigrants, stratified according to high- or low-income countries of origin, who developed IRIS and to compare them with native-born Spanish patients...
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
#7
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/28817647/caprine-brucellosis-a-historically-neglected-disease-with-significant-impact-on-public-health
#8
REVIEW
Carlos A Rossetti, Angela M Arenas-Gamboa, Estefanía Maurizio
Caprine brucellosis is a chronic infectious disease caused by the gram-negative cocci-bacillus Brucella melitensis. Middle- to late-term abortion, stillbirths, and the delivery of weak offspring are the characteristic clinical signs of the disease that is associated with an extensive negative impact in a flock's productivity. B. melitensis is also the most virulent Brucella species for humans, responsible for a severely debilitating and disabling illness that results in high morbidity with intermittent fever, chills, sweats, weakness, myalgia, abortion, osteoarticular complications, endocarditis, depression, anorexia, and low mortality...
August 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28815647/wildlife-disease-ecology-from-the-individual-to-the-population-insights-from-a-long-term-study-of-a-naturally-infected-european-badger-population
#9
Jenni L McDonald, Andrew Robertson, Matthew J Silk
1. Long-term individual-based datasets on host-pathogen systems are a rare and valuable resource for understanding the infectious disease dynamics in wildlife. A study of European badgers (Meles meles) naturally infected with bovine tuberculosis (bTB) at Woodchester Park in Gloucestershire (UK) has produced a unique dataset, facilitating investigation of a diverse range of epidemiological and ecological questions with implications for disease management. 2. Since the 1970s this badger population has been monitored with a systematic mark-recapture regime yielding a dataset of >15,000 captures of >3000 individuals, providing detailed individual life-history, morphometric, genetic, reproductive and disease data...
August 16, 2017: Journal of Animal Ecology
https://www.readbyqxmd.com/read/28815486/staphylococcus-aureus-carriage-in-french-athletes-at-risk-of-ca-mrsa-infection-a-prospective-cross-sectional-study
#10
E Couvé-Deacon, D Postil, O Barraud, C Duchiron, D Chainier, A Labrunie, N Pestourie, P M Preux, B François, M C Ploy
BACKGROUND: Staphylococcus aureus (SA) is a leading cause of infectious diseases in sports teams. In recent decades, community-associated SA (CA-SA) strains have emerged worldwide and have been responsible for outbreaks in sports teams. There are very few data on the prevalence of these strains in France, and none on the carriage among athletes. METHODS: We conducted a cross-sectional study to determine the SA carriage proportion among athletes practicing sports at risk for CA-SA infection in a French county, and determined the methicillin-resistant and/or CA-SA proportion...
August 16, 2017: Sports Medicine—Open
https://www.readbyqxmd.com/read/28815119/extracting-geographic-locations-from-the-literature-for-virus-phylogeography-using-supervised-and-distant-supervision-methods
#11
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/28813761/epidemiologic-study-of-bacteria-zoonotic-diseases-in-south-dakota-2010-2014
#12
Jessica L Ludvik, Susan M Anderson, Mark K Huntington
BACKGROUND: Although the burden of infectious diseases has decreased dramatically due to advances in health care, disease prevention and numerous public health efforts and innovations, zoonotic diseases continue to pose a problem in terms of both existing and emerging diseases. These risks are of particular concern in rural areas, in which there is more contact with animals for occupational and recreational purposes. As a rural and agricultural state, South Dakota has a large percentage of its population at risk of exposure to zoonotic diseases through their substantial contact time with animals...
June 2017: South Dakota Medicine: the Journal of the South Dakota State Medical Association
https://www.readbyqxmd.com/read/28812540/quantifying-transmission
#13
Mark Woolhouse
Transmissibility is the defining characteristic of infectious diseases. Quantifying transmission matters for understanding infectious disease epidemiology and designing evidence-based disease control programs. Tracing individual transmission events can be achieved by epidemiological investigation coupled with pathogen typing or genome sequencing. Individual infectiousness can be estimated by measuring pathogen loads, but few studies have directly estimated the ability of infected hosts to transmit to uninfected hosts...
July 2017: Microbiology Spectrum
https://www.readbyqxmd.com/read/28808771/multicentre-controlled-randomized-clinical-trial-to-compare-the-efficacy-and-safety-of-ambulatory-treatment-of-mild-acute-diverticulitis-without-antibiotics-with-the-standard-treatment-with-antibiotics
#14
Laura Mora Lopez, Neus Ruiz-Edo, Sheila Serra Pla, Anna Pallisera Llovera, Salvador Navarro Soto, Xavier Serra-Aracil
PURPOSE: Acute diverticulitis (AD) is a highly prevalent disease in Spain. Its chronic-recurrent appearance and high rate of relapse mean that it has a major epidemiological and economic impact on our health system. In spite of this, it has not been studied in any great depth. Reassessing its etiopathology, recent studies have observed that it is an inflammatory disease-not, as classic theories had postulated, an infectious one. In the light of these findings, the suitability of antibiotics for its treatment has been reconsidered...
August 14, 2017: International Journal of Colorectal Disease
https://www.readbyqxmd.com/read/28808479/a-multiscale-model-for-the-world-s-first-parasitic-disease-targeted-for-eradication-guinea-worm-disease
#15
Rendani Netshikweta, Winston Garira
Guinea worm disease (GWD) is both a neglected tropical disease and an environmentally driven infectious disease. Environmentally driven infectious diseases remain one of the biggest health threats for human welfare in developing countries and the threat is increased by the looming danger of climate change. In this paper we present a multiscale model of GWD that integrates the within-host scale and the between-host scale. The model is used to concurrently examine the interactions between the three organisms that are implicated in natural cases of GWD transmission, the copepod vector, the human host, and the protozoan worm parasite (Dracunculus medinensis), and identify their epidemiological roles...
2017: Computational and Mathematical Methods in Medicine
https://www.readbyqxmd.com/read/28805017/estimating-the-between-farm-transmission-rates-for-highly-pathogenic-avian-influenza-subtype-h5n1-epidemics-in-bangladesh-between-2007-and-2013
#16
A Ssematimba, I Okike, G M Ahmed, M Yamage, G J Boender, T J Hagenaars, B Bett
Highly Pathogenic Avian Influenza (HPAI) is classified by the World Organization for Animal Health as one of the notifiable diseases. Its occurrence is associated with severe socio-economic impacts and is also zoonotic. Bangladesh HPAI epidemic data for the period between 2007 and 2013 were obtained and split into epidemic waves based on the time lag between outbreaks. By assuming the number of newly infected farms to be binomially distributed, we fit a Generalized Linear Model to the data to estimate between-farm transmission rates (β)...
August 14, 2017: Transboundary and Emerging Diseases
https://www.readbyqxmd.com/read/28804982/epidemiological-investigation-of-outbreaks-of-fowl-adenovirus-infections-in-commercial-chickens-in-china
#17
Y Niu, Q Sun, G Zhang, W Sun, X Liu, Y Xiao, Y Shang, S Liu
One hundred and five fowl adenovirus (FAdV) strains were isolated in China from 2015 to 2016 from poultry with inclusion body hepatitis (IBH) and hydropericardium syndrome (HPS). Polymerase chain reactions determined that 68 were FAdV species C, five were FAdV species D, two were FAdV species E, and 30 contained two or more different FAdV strains. A phylogenetic analysis showed that the isolated FAdV strains clustered into three major groups: FAdV-C, FAdV-D and FAdV-E. Based on a hexon gene sequencing analysis, these viruses were genetically related to FAdV-4, FAdV-7, FAdV-8b and FAdV-11, of which FAdV-4 was dominant (93% of the strains)...
August 13, 2017: Transboundary and Emerging Diseases
https://www.readbyqxmd.com/read/28801740/a-statistical-classifier-to-support-diagnose-meningitis-in-less-developed-areas-of-brazil
#18
Viviane-Maria Lélis, Eduardo Guzmán, María-Victoria Belmonte
This paper describes the development of statistical classifiers to help diagnose meningococcal meningitis, i.e. the most sever, infectious and deadliest type of this disease. The goal is to find a mechanism able to determine whether a patient has this type of meningitis from a set of symptoms that can be directly observed in the earliest stages of this pathology. Currently, in Brazil, a country that is heavily affected by meningitis, all suspected cases require immediate hospitalization and the beginning of a treatment with invasive tests and medicines...
August 11, 2017: Journal of Medical Systems
https://www.readbyqxmd.com/read/28801246/time-optimal-control-strategies-in-sir-epidemic-models
#19
Luca Bolzoni, Elena Bonacini, Cinzia Soresina, Maria Groppi
We investigate the time-optimal control problem in SIR (Susceptible-Infected-Recovered) epidemic models, focusing on different control policies: vaccination, isolation, culling, and reduction of transmission. Applying the Pontryagins Minimum Principle (PMP) to the unconstrained control problems (i.e. without costs of control or resource limitations), we prove that, for all the policies investigated, only bang-bang controls with at most one switch are admitted. When a switch occurs, the optimal strategy is to delay the control action some amount of time and then apply the control at the maximum rate for the remainder of the outbreak...
August 8, 2017: Mathematical Biosciences
https://www.readbyqxmd.com/read/28797710/a-bayesian-system-to-detect-and-characterize-overlapping-outbreaks
#20
John M Aronis, Nicholas E Millett, Michael M Wagner, Fuchiang Tsui, Ye Ye, Jeffrey P Ferraro, Peter J Haug, Per H Gesteland, Gregory F Cooper
Outbreaks of infectious diseases such as influenza are a significant threat to human health. Because there are different strains of influenza which can cause independent outbreaks, and influenza can affect demographic groups at different rates and times, there is a need to recognize and characterize multiple outbreaks of influenza. This paper describes a Bayesian system that uses data from emergency department patient care reports to create epidemiological models of overlapping outbreaks of influenza. Clinical findings are extracted from patient care reports using natural language processing...
August 7, 2017: Journal of Biomedical Informatics
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