Ensemble Technique for Prediction of T-cell Mycobacterium tuberculosis Epitopes

AbstractDevelopment of an effective machine-learning model for T-cellMycobacterium tuberculosis (M. tuberculosis) epitopes is beneficial for saving biologist ’s time and effort for identifying epitope in a targeted antigen. Existing NetMHC 2.2, NetMHC 2.3, NetMHC 3.0 and NetMHC 4.0 estimate binding capacity of peptide. This is still a challenge for those servers to predict whether a given peptide isM. tuberculosis epitope or non-epitope. One of the servers, CTLpred, works in this category but it is limited to peptide length of 9-mers. Therefore, in this work direct method of predicting M. tuberculosis epitope or non-epitope has been proposed which also overcomes the limitations of above servers. The proposed method is able to work with variable length epitopes having size even greater than 9-mers. Identification of T-cell or B-cell epitopes in the targeted antigen is the main goal in designing epitope-based vaccine, immune-diagnostic tests and antibody production. Therefore, it is important to introduce a reliable system which may help in the diagnosis ofM. tuberculosis. In the present study, computational intelligence methods are used to classify T-cellM. tuberculosis epitopes. The caret feature selection approach is used to find out the set of relevant features. The ensemble model is designed by combining three models and is used to predictM. tuberculosis epitopes of variable length (7 –40-mers). The proposed ensemble model achieves 82.0% accuracy, 0.89 specific...
Source: Interdisciplinary Sciences, Computational Life Sciences - Category: Bioinformatics Source Type: research

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Abstract In this two-part series of reviews, we have invited experts in their fields to contribute articles on the status of vaccine research and development for emerging pathogens. This topic has been brought into sharp focus in recent years following significant outbreaks of viral diseases such as those causing severe acute respiratory syndrome and Middle East respiratory syndrome, as well as devastating outbreaks of diseases caused by the Ebola, Marburg, Zika and Lassa fever viruses, to name only a few examples. Additionally, bacterial infections leading to bubonic and pneumonic plague, most notably in Madagasc...
Source: Clinical and Developmental Immunology - Category: Allergy & Immunology Authors: Tags: Clin Exp Immunol Source Type: research
(CNN) — From climate change to superbugs, the World Health Organization has laid out 10 big threats to our global health in 2019. And unless these threats get addressed, millions of lives will be in jeopardy. Here’s a snapshot of 10 urgent health issues, according to the United Nations’ public health agency: Not vaccinating when you can One of the most controversial recent health topics in the US is now an international concern. “Vaccine hesitancy — the reluctance or refusal to vaccinate despite the availability of vaccines — threatens to reverse progress made in tackling vaccine-prevent...
Source: WBZ-TV - Breaking News, Weather and Sports for Boston, Worcester and New Hampshire - Category: Consumer Health News Authors: Tags: Health News CNN Local TV Source Type: news
by Magali Jaillard, Leandro Lima, Maud Tournoud, Pierre Mah é, Alex van Belkum, Vincent Lacroix, Laurent Jacob Genome-wide association study (GWAS) methods applied to bacterial genomes have shown promising results for genetic marker discovery or detailed assessment of marker effect. Recently, alignment-free methods based on k-mer composition have proven their ability to explore the accessory genome. Howeve r, they lead to redundant descriptions and results which are sometimes hard to interpret. Here we introduce DBGWAS, an extended k-mer-based GWAS method producing interpretable genetic variants associated with dis...
Source: PLoS Genetics - Category: Genetics & Stem Cells Authors: Source Type: research
Conclusions The role of HCWs in MERS-CoV transmission is complex. Although most MERS-CoV–infected HCWs are asymptomatic or have mild disease, fatal infections can occur and HCWs can play a major role in propagating health care facility outbreaks. This investigation highlights the need to continuously review infection control guidance relating to the role of HCWs in MERS-CoV transmission in health care outbreaks, especially as it relates to the complex questions on definition of risky exposures, who to test, and the frequency of MERS-CoV testing; criteria for who to quarantine and for how long; and clearance and retur...
Source: American Journal of Infection Control - Category: Infectious Diseases Source Type: research
Coinfection of Middle East respiratory syndrome coronavirus (MERS-CoV) with tuberculosis (TB) has not been previously reported. Here, we present 2 cases with both MERS-CoV and pulmonary TB. The first case was a 13-year-old patient who was admitted with a 2-month history of fever, weight loss, night sweats, and cough. The second patient was a 30-year-old female who had a 4-week history of cough associated with shortness of breath and weight loss of 2 kg. The 2 patients were diagnosed with pulmonary TB and had positive MERS-CoV. Both patients were discharged to complete their therapy for TB at home. It is likely that both pa...
Source: Intervirology - Category: Virology Source Type: research
Across China, the virus that could spark the next pandemic is already circulating. It’s a bird flu called H7N9, and true to its name, it mostly infects poultry. Lately, however, it’s started jumping from chickens to humans more readily–bad news, because the virus is a killer. During a recent spike, 88% of people infected got pneumonia, three-quarters ended up in intensive care with severe respiratory problems, and 41% died. What H7N9 can’t do–yet–is spread easily from person to person, but experts know that could change. The longer the virus spends in humans, the better the chance that i...
Source: TIME.com: Top Science and Health Stories - Category: Consumer Health News Authors: Tags: Uncategorized CDC Disease ebola Gates Foundation MERS outbreak pandemic Zika Source Type: news
Publication date: 2017 Source:Advances in Virus Research, Volume 97 Author(s): A. Volz, G. Sutter Safety tested Modified Vaccinia virus Ankara (MVA) is licensed as third-generation vaccine against smallpox and serves as a potent vector system for development of new candidate vaccines against infectious diseases and cancer. Historically, MVA was developed by serial tissue culture passage in primary chicken cells of vaccinia virus strain Ankara, and clinically used to avoid the undesirable side effects of conventional smallpox vaccination. Adapted to growth in avian cells MVA lost the ability to replicate in mammalian hosts...
Source: Advances in Virus Research - Category: Virology Source Type: research
Semin Respir Crit Care Med 2016; 37: 799-805 DOI: 10.1055/s-0036-1592313Community-acquired pneumonia (CAP) is a global disease responsible for a large proportion of deaths and having significant economic cost. As diagnostic tools have increased in sensitivity, our understanding of the etiology of CAP has begun to change with a significant increase in confirmed viral infections and the recognition that multiple pathogens are frequently present. Empiric therapy remains the standard of care and guidelines are mostly based on published data from the United States or Europe. Blindly applying guidelines without any consideration...
Source: Seminars in Respiratory and Critical Care Medicine - Category: Respiratory Medicine Authors: Tags: Review Article Source Type: research
Publication date: February 2017 Source:Current Opinion in Virology, Volume 22 Author(s): Sander Herfst, Michael Böhringer, Basel Karo, Philip Lawrence, Nicola S Lewis, Michael J Mina, Charles J Russell, John Steel, Rik L de Swart, Christian Menge Airborne pathogens — either transmitted via aerosol or droplets — include a wide variety of highly infectious and dangerous microbes such as variola virus, measles virus, influenza A viruses, Mycobacterium tuberculosis, Streptococcus pneumoniae, and Bordetella pertussis. Emerging zoonotic pathogens, for example, MERS coronavirus, avian influenza viruses, Coxiella...
Source: Current Opinion in Virology - Category: Virology Source Type: research
Funding Opportunity ID: 290231 Opportunity Number: CDC-RFA-CK17-1702 Opportunity Title: Addressing Emerging Zoonoses and Strengthening Animal and Human Health SystemsOpportunity Category: DiscretionaryOpportunity Category Explanation: Funding Instrument Type: Cooperative AgreementCategory of Funding Activity: HealthCategory Explanation: CFDA Number(s): 93.318Eligible Applicants: Others (see text field entitled "Additional Information on Eligibility" for clarification)Additional Information on Eligibility: Sole Source to Food and Agriculture Organization (FAO) of the United Nations.Agency Code: HHS-CDC-NCE...
Source: Grants.gov - Category: Research Tags: Health Source Type: funding
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