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Sharif Aly
Bronze Contributor
5,325 Points

Contributions by role

Author 1,305
Reviewer 15
Editor 4,005

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Veterinary Medicine
Epidemiology
Statistics
Microbiology
Infectious Diseases
Genetics
Molecular Biology
Agricultural Science
Pathology
Data Mining and Machine Learning
Zoology
Legal Issues
Environmental Contamination and Remediation
Histology
Animal Behavior
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Computational Biology
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Evidence Based Medicine
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Ethical Issues
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Nursing
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Science Policy
Coupled Natural and Human Systems
Food Science and Technology
Pharmacology
Biophysics
Respiratory Medicine
HIV
Spatial and Geographic Information Science
Virology
COVID-19
Diabetes and Endocrinology
Internal Medicine
Nephrology
Translational Medicine
Anesthesiology and Pain Management
Biogeography
Developmental Biology
Emergency and Critical Care
Cell Biology
Plant Science
Cardiology
Human-Computer Interaction
Genomics
Clinical Trials
Anatomy and Physiology
Surgery and Surgical Specialties
Bronze Contributor

Sharif S Aly

PeerJ Editor, Author & Reviewer

Summary

As a veterinary epidemiologist I specialize in dairy cattle infectious diseases and welfare. I received my veterinary medicine degree from Cairo University (1998), practiced for two years before completing the Food Animal Production Medicine Internship at the Caine Veterinary Teaching Center at the U of Idaho, followed by the Food Animal Reproduction and Herd Health Residency at U of California, Davis. I completed my masters and doctoral degrees at UC Davis in Preventive Veterinary Medicine and Epidemiology, respectively.

Animal Behavior Computational Biology Data Mining & Machine Learning Data Science Epidemiology Evidence Based Medicine Infectious Diseases Mathematical Biology Population Biology Statistics Veterinary Medicine

Editorial Board Member

PeerJ - the Journal of Life & Environmental Sciences

Past or current institution affiliations

UC Davis

Work details

Professor, Epidemiology and Biostatistics

University of California, Davis
May 2010
School of Veterinary Medicine, Department of Population Health and Reproduction
As a faculty member of the Dept. of Population Health and Reproduction, School of Veterinary Medicine, UC Davis, I develop quantitative and epidemiological methods to advance the health, welfare and productivity of food animals. I am enthusiastic about teaching epidemiology to veterinary and graduate students.

Professor, Epidemiology & Biostatistics

University of California, Davis
May 2010
Veterinary Medicine Teaching and Research Center, School of Veterinary Medicine
The Dairy Epi Lab (Aly Lab) current research focuses on effectively surveying large populations, novel scoring systems, diagnostic strategies, and risk assessment development. Using such tools I collaborate with teams dedicated to calf and adult cow health, foodborne pathogens, and antimicrobial resistance.

Websites

  • Google Scholar
  • PubMed Search
  • ResearchGate

PeerJ Contributions

  • Articles 12
  • Edited 24
  • Answers 1
December 23, 2021
Quantification of antibiotic resistance genes and mobile genetic in dairy manure
Yi Wang, Pramod Pandey, Colleen Chiu, Richard Jeannotte, Sundaram Kuppu, Ruihong Zhang, Richard Pereira, Bart C. Weimer, Nitin Nitin, Sharif S. Aly
https://doi.org/10.7717/peerj.12408 PubMed 35036113
August 12, 2021
Development of a multiplex qPCR assay for the simultaneous detection of Mycoplasma bovis, Mycoplasma species, and Acholeplasma laidlawii in milk
Kanika Chauhan, Sharif S. Aly, Terry W. Lehenbauer, Karen H. Tonooka, Kathy Glenn, Paul Rossitto, Maria L. Marco
https://doi.org/10.7717/peerj.11881 PubMed 34447623
July 16, 2021
Dairy management practices associated with multi-drug resistant fecal commensals and Salmonella in cull cows: a machine learning approach
Pranav S. Pandit, Deniece R. Williams, Paul Rossitto, John M. Adaska, Richard Pereira, Terry W. Lehenbauer, Barbara A. Byrne, Xunde Li, Edward R. Atwill, Sharif S. Aly
https://doi.org/10.7717/peerj.11732 PubMed 34316397
July 13, 2021
2018 Survey of antimicrobial drug use and stewardship practices in adult cows on California dairies: post-Senate Bill 27
Pius S. Ekong, Essam M. Abdelfattah, Emmanuel Okello, Deniece R. Williams, Terry W. Lehenbauer, Betsy M. Karle, Joan D. Rowe, Edith S. Marshall, Sharif S. Aly
https://doi.org/10.7717/peerj.11515 PubMed 34306824
July 13, 2021
2018 Survey of factors associated with antimicrobial drug use and stewardship practices in adult cows on conventional California dairies: immediate post-Senate Bill 27 impact
Pius S. Ekong, Essam M. Abdelfattah, Emmanuel Okello, Deniece R. Williams, Terry W. Lehenbauer, Betsy M. Karle, Joan D. Rowe, Sharif S. Aly
https://doi.org/10.7717/peerj.11596 PubMed 34306825
April 20, 2021
Epidemiology of antimicrobial resistance (AMR) on California dairies: descriptive and cluster analyses of AMR phenotype of fecal commensal bacteria isolated from adult cows
Essam M. Abdelfattah, Pius S. Ekong, Emmanuel Okello, Tapakorn Chamchoy, Betsy M. Karle, Randi A. Black, David Sheedy, Wagdy R. ElAshmawy, Deniece R. Williams, Daniela Califano, Luis Fernando Durán Tovar, Jonathan Ongom, Terry W. Lehenbauer, Barbara A. Byrne, Sharif S. Aly
https://doi.org/10.7717/peerj.11108 PubMed 33976962
January 15, 2020
Bayesian estimation of diagnostic accuracy of fecal culture and PCR-based tests for the detection of Salmonella enterica in California cull dairy cattle
John M. Adaska, Pius S. Ekong, Kristin A. Clothier, Deniece R. Williams, Paul V. Rossitto, Terry W. Lehenbauer, Edward R. Atwill, Xunde Li, Sharif S. Aly
https://doi.org/10.7717/peerj.8310 PubMed 31988800
November 19, 2019
Environmental sampling to assess the bioburden of Mycobacterium avium subspecies paratuberculosis in drylot pens on California dairies
Tapakorn Chamchoy, Deneice R. Williams, John M. Adaska, Randall J. Anderson, Sharif S. Aly
https://doi.org/10.7717/peerj.8081 PubMed 31763073
May 6, 2019
Molecular epidemiology of coagulase-negative Staphylococcus species isolated at different lactation stages from dairy cattle in the United States
Stephen N. Jenkins, Emmanuel Okello, Paul V. Rossitto, Terry W. Lehenbauer, John Champagne, Maria C.T. Penedo, Andréia G. Arruda, Sandra Godden, Paul Rapnicki, Patrick J. Gorden, Leo L. Timms, Sharif S. Aly
https://doi.org/10.7717/peerj.6749 PubMed 31119068
March 21, 2019
Association between herd management practices and antimicrobial resistance in Salmonella spp. from cull dairy cattle in Central California
Richard Pereira, Deniece R. Williams, Paul Rossitto, John Adaska, Emmanuel Okello, John Champagne, Terry W. Lehenbauer, Xunde Li, Jennifer Chase, Tran Nguyen, Alda F. A. Pires, Edward R. Atwill, Sharif S. Aly
https://doi.org/10.7717/peerj.6546 PubMed 30923650
August 30, 2016
Epidemiology of Salmonella sp. in California cull dairy cattle: prevalence of fecal shedding and diagnostic accuracy of pooled enriched broth culture of fecal samples
Omran A. Abu Aboud, John M. Adaska, Deniece R. Williams, Paul V. Rossitto, John D. Champagne, Terry W. Lehenbauer, Robert Atwill, Xunde Li, Sharif S. Aly
https://doi.org/10.7717/peerj.2386 PubMed 27635350
January 2, 2014
Development of a novel clinical scoring system for on-farm diagnosis of bovine respiratory disease in pre-weaned dairy calves
William J. Love, Terry W. Lehenbauer, Philip H. Kass, Alison L. Van Eenennaam, Sharif S. Aly
https://doi.org/10.7717/peerj.238 PubMed 24482759

Academic Editor on

December 24, 2021
Spatiotemporal patterns of the COVID-19 epidemic in Mexico at the municipality level
Jean-François Mas, Azucena Pérez-Vega
https://doi.org/10.7717/peerj.12685 PubMed 35036159
December 20, 2021
Sequence characteristics and phylogenetic analysis of H9N2 subtype avian influenza A viruses detected from poultry and the environment in China, 2018
Xiaoyi Gao, Naidi Wang, Yuhong Chen, Xiaoxue Gu, Yuanhui Huang, Yang Liu, Fei Jiang, Jie Bai, Lu Qi, Shengpeng Xin, Yuxiang Shi, Chuanbin Wang, Yuliang Liu
https://doi.org/10.7717/peerj.12512 PubMed 35036116
November 24, 2021
The reporting of p values, confidence intervals and statistical significance in Preventive Veterinary Medicine (1997–2017)
Locksley L. McV. Messam, Hsin-Yi Weng, Nicole W. Y. Rosenberger, Zhi Hao Tan, Stephanie D. M. Payet, Mahishi Santbakshsing
https://doi.org/10.7717/peerj.12453 PubMed 34900418
August 19, 2021
Exploration of Zoo felids in North-East China for the prevalence and molecular identification of Cryptosporidium spp.
Shakeel Hussain, Syed Mohsin Bukhari, Lixin Wang, Nimra Khalid, Zhijun Hou
https://doi.org/10.7717/peerj.11819 PubMed 34466282
August 4, 2021
Effects of delivery via pressure-adjustable pneumatic gas-powered dart gun of three antimicrobial drugs (ceftiofur crystalline free acid, tildopirosin, and tulathromycin) on drug disposition and meat quality in cattle
Thomas B. Hairgrove, Virginia Fajt, Ronald Gill, Rhonda Miller, Michael Miller, Travis Mays
https://doi.org/10.7717/peerj.11822 PubMed 34430074
July 2, 2021
Cytological analysis of tracheal wash and bronchoalveolar lavage fluid in health and respiratory disease in dromedary camels
Turke Shawaf, Abdullah Almubarak, Naser Alhumam, Faisal Almathen, Jamal Hussen
https://doi.org/10.7717/peerj.11723 PubMed 34249521
June 17, 2021
Application of a multilayer perceptron artificial neural network for identification of peach cultivars based on physical characteristics
Adel M. Al-Saif, Mahmoud Abdel-Sattar, Abdulwahed M. Aboukarima, Dalia H. Eshra
https://doi.org/10.7717/peerj.11529
May 14, 2021
Consequences of herbal mixture supplementation on milk performance, ruminal fermentation, and bacterial diversity in water buffaloes
Faizul Hassan, Zhenhua Tang, Hossam M. Ebeid, Mengwei Li, Kaiping Peng, Xin Liang, Chengjian Yang
https://doi.org/10.7717/peerj.11241 PubMed 34040891
April 12, 2021
Clinical validation of the short and long UNESP-Botucatu scales for feline pain assessment
Maíra Belli, Alice R. de Oliveira, Mayara T. de Lima, Pedro H.E. Trindade, Paulo V. Steagall, Stelio P.L. Luna
https://doi.org/10.7717/peerj.11225 PubMed 33954046
April 8, 2021
spa diversity of methicillin-resistant and -susceptible Staphylococcus aureus in clinical strains from Malaysia: a high prevalence of invasive European spa-type t032
Sherry Usun Jones, Kek Heng Chua, Ching Hoong Chew, Chew Chieng Yeo, Fatimah Haslina Abdullah, Norlela Othman, Boon Pin Kee, Suat Moi Puah
https://doi.org/10.7717/peerj.11195 PubMed 33889447
March 26, 2021
The prospective COVID-19 vaccine: willingness to pay and perception of community members in Ibadan, Nigeria
Olayinka Ilesanmi, Aanuoluwapo Afolabi, Obioma Uchendu
https://doi.org/10.7717/peerj.11153 PubMed 33828927
March 24, 2021
Using demographic data to understand the distribution of H1N1 and COVID-19 pandemics cases among federal entities and municipalities of Mexico
Yohanna Sarria-Guzmán, Jaime Bernal, Michele De Biase, Ligia C. Muñoz-Arenas, Francisco Erik González-Jiménez, Clemente Mosso, Arit De León-Lorenzana, Carmine Fusaro
https://doi.org/10.7717/peerj.11144 PubMed 33828926
March 4, 2021
CoViD-19: an automatic, semiparametric estimation method for the population infected in Italy
Livio Fenga
https://doi.org/10.7717/peerj.10819 PubMed 33717677
February 19, 2021
Regucalcin expression profiles in veal calf testis: validation of histological and molecular tests to detect sex steroids illicit administration
Alessandro Benedetto, Elena Biasibetti, Chiara Beltramo, Valentina Audino, Simone Peletto, Elena Maria Bozzetta, Marzia Pezzolato
https://doi.org/10.7717/peerj.10894 PubMed 33643712
February 9, 2021
Validity of the Polar Vantage M watch when measuring heart rate at different exercise intensities
Tricia Shumate, Magdalen Link, James Furness, Kevin Kemp-Smith, Vini Simas, Mike Climstein
https://doi.org/10.7717/peerj.10893 PubMed 33614295
February 5, 2021
Stage 1 registered report: spatiotemporal patterns of the COVID-19 epidemic in Mexico at the municipality level
Jean-François Mas
https://doi.org/10.7717/peerj.10622 PubMed 33604169
January 11, 2021
SMARTAR: an R package for designing and analyzing Sequential Multiple Assignment Randomized Trials
Xiaobo Zhong, Bin Cheng, Xinru Wang, Ying Kuen Cheung
https://doi.org/10.7717/peerj.10559 PubMed 33510969
January 7, 2021
Reproducing country-wide COVID-19 dynamics can require the usage of a set of SIR systems
Eugene B. Postnikov
https://doi.org/10.7717/peerj.10679 PubMed 33505808
October 26, 2020
Towards a unified generic framework to define and observe contacts between livestock and wildlife: a systematic review
Sonny A. Bacigalupo, Linda K. Dixon, Simon Gubbins, Adam J. Kucharski, Julian A. Drewe
https://doi.org/10.7717/peerj.10221 PubMed 33173619
October 6, 2020
Attention behaviours but not pain-related behaviours are modified by the presence of a twin in lambs undergoing castration by rubber ring
Andrew Inhyuk Cho, Caroline Lee, Alison Small
https://doi.org/10.7717/peerj.10081 PubMed 33083137
September 30, 2020
MULTI-DEEP: A novel CAD system for coronavirus (COVID-19) diagnosis from CT images using multiple convolution neural networks
Omneya Attallah, Dina A. Ragab, Maha Sharkas
https://doi.org/10.7717/peerj.10086 PubMed 33062453
September 28, 2020
Predicting CoVID-19 community mortality risk using machine learning and development of an online prognostic tool
Ashis Kumar Das, Shiba Mishra, Saji Saraswathy Gopalan
https://doi.org/10.7717/peerj.10083 PubMed 33062451
September 4, 2020
Risk factors for disease-related deterioration following diagnostic bronchoalveolar lavage procedures in diffuse lung disease: a case-control study
Yuko Usagawa, Kosaku Komiya, Mari Yamasue, Kazuhiko Hashinaga, Eri Mizukami, Kenji Umeki, Shin-ichi Nureki, Masaru Ando, Kazufumi Hiramatsu, Jun-ichi Kadota
https://doi.org/10.7717/peerj.9864 PubMed 32953276
August 7, 2020
A note on the effects of epidemic forecasts on epidemic dynamics
Nicholas R. Record, Andrew Pershing
https://doi.org/10.7717/peerj.9649 PubMed 32844061

1 Answer

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Have you looked into magnesium oxide as a risk factor for salmonellosis?