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1

A statistical analysis of vaccine-adverse event data

Ren, Jian-Jian, Sun, Tingni, He, Yongqun, Zhang, Yuji

Journal:

BMC Medical Informatics and Decision Making

Year:

2019

Language:

english

File:

PDF, 14.27 MB

english, 2019

2

Antibiotic Resistance Determinant-Focused Acinetobacter baumannii Vaccine Designed Using Reverse Vaccinology

Ni, Zhaohui, Chen, Yan, Ong, Edison, He, Yongqun

Journal:

International Journal of Molecular Sciences

Year:

2017

Language:

english

File:

PDF, 1.94 MB

english, 2017

3

Brucellosis Ontology (IDOBRU) as an extension of the Infectious Disease Ontology

Yu Lin, Zuoshuang Xiang, Yongqun He

Journal:

Journal of Biomedical Semantics

Year:

2011

Language:

english

File:

PDF, 761 KB

english, 2011

4

VRprofile: gene-cluster-detection-based profiling of virulence and antibiotic resistance traits encoded within genome sequences of pathogenic bacteria

Li, Jun, Tai, Cui, Deng, Zixin, Zhong, Weihong, He, Yongqun, Ou, Hong-Yu

Journal:

Briefings in Bioinformatics

Year:

2017

Language:

english

File:

PDF, 661 KB

english, 2017

5

Machine learning-based identification and rule-based normalization of adverse drug reactions in drug labels

Tiftikci, Mert, Özgür, Arzucan, He, Yongqun, Hur, Junguk

Journal:

BMC Bioinformatics

Year:

2019

File:

PDF, 1022 KB

2019

6

Epitope promiscuity and population coverage of Mycobacterium tuberculosis protein antigens in current subunit vaccines under development

Ong, Edison, He, Yongqun, Yang, Zhenhua

Journal:

Infection, Genetics and Evolution

Year:

2020

Language:

english

File:

PDF, 675 KB

english, 2020

7

Time event ontology (TEO): to support semantic representation and reasoning of complex temporal relations of clinical events

Li, Fang, Du, Jingcheng, He, Yongqun, Song, Hsing-Yi, Madkour, Mohcine, Rao, Guozheng, Xiang, Yang, Luo, Yi, Chen, Henry W, Liu, Sijia, Wang, Liwei, Liu, Hongfang, Xu, Hua, Tao, Cui

Journal:

Journal of the American Medical Informatics Association

Year:

2020

File:

PDF, 884 KB

2020

8

Ontology-basedBrucellavaccine literature indexing and systematic analysis of gene-vaccine association network

Junguk Hur, Zuoshuang Xiang, Eva L Feldman, Yongqun He

Journal:

Year:

2011

Language:

english

File:

PDF, 9.99 MB

english, 2011

9

Bioinformatics analysis ofBrucellavaccines and vaccine targets using VIOLIN

Yongqun He, Zuoshuang Xiang

Journal:

Immunome Research

Year:

2010

Language:

english

File:

PDF, 2.50 MB

english, 2010

10

VO: Vaccine Ontology

He, Yongqun, Chen, Fang, Scheuermann, Richard, Todd, Thomas, Brinkman, Ryan, Colby, Lesley, Courtot, Melanie, Rush, Howard, Mungall, Chris, Whetzel, Trish, Musen, Mark, Athey, Brian, Cowell, Lindsay,

Journal:

Bioentrepreneur

Year:

2009

File:

PDF, 273 KB

2009

11

Strong antibody responses induced by protein antigens conjugated onto the surface of lecithin-based nanoparticles

Brian R. Sloat, Michael A. Sandoval, Andrew M. Hau, Yongqun He, Zhengrong Cui

Journal:

Journal of Controlled Release

Year:

2010

Language:

english

File:

PDF, 977 KB

english, 2010

12

Brucella abortus RB51: enhancing vaccine efficacy and developing multivalent vaccines

Ramesh Vemulapalli, Yongqun He, Nammalwar Sriranganathan, Stephen M. Boyle, Gerhardt G. Schurig

Journal:

Veterinary Microbiology

Year:

2002

Language:

english

File:

PDF, 177 KB

english, 2002

13

BBP:Brucellagenome annotation with literature mining and curation

Zuoshuang Xiang, Wenjie Zheng, Yongqun He

Journal:

BMC Bioinformatics

Year:

2006

Language:

english

File:

PDF, 1.60 MB

english, 2006

14

Using epitope predictions to evaluate efficacy and population coverage of the Mtb72f vaccine for tuberculosis

Lucy A McNamara, Yongqun He, Zhenhua Yang

Journal:

Year:

2010

Language:

english

File:

PDF, 792 KB

english, 2010

15

Molecular targets for rapid identification ofBrucellaspp

Vladyslava G Ratushna, David M Sturgill, Sheela Ramamoorthy, Sherry A Reichow, Yongqun He, Raju Lathigra, Nammalwar Sriranganathan, Shirley M Halling, Stephen M Boyle, Cynthia J Gibas

Journal:

BMC Microbiology

Year:

2006

Language:

english

File:

PDF, 526 KB

english, 2006

16

OntoFox: web-based support for ontology reuse

Zuoshuang Xiang, Mélanie Courtot, Ryan R Brinkman, Alan Ruttenberg, Yongqun He

Journal:

BMC Research Notes

Year:

2010

Language:

english

File:

PDF, 995 KB

english, 2010

17

Modeling biomedical experimental processes with OBI

Ryan R Brinkman, Mélanie Courtot, Dirk Derom, Jennifer M Fostel, Yongqun He, Phillip Lord, James Malone, Helen Parkinson, Bjoern Peters, Philippe Rocca-Serra, Alan Ruttenberg, Susanna-Assunta Sansone,

Journal:

Journal of Biomedical Semantics

Year:

2010

Language:

english

File:

PDF, 1.02 MB

english, 2010

18

Mining of vaccine-associated IFN-γ gene interaction networks using the Vaccine Ontology

Arzucan Özgür, Zuoshuang Xiang, Dragomir R Radev, Yongqun He

Journal:

Journal of Biomedical Semantics

Year:

2011

Language:

english

File:

PDF, 2.14 MB

english, 2011

19

How and why did the Lingulidae (Brachiopoda) not only survive the end-Permian mass extinction but also thrive in its aftermath?

Yuanqiao Peng, G.R. Shi, Yongqun Gao, Weihong He, Shuzhong Shen

Journal:

Palaeogeography, Palaeoclimatology, Palaeoecology

Year:

2007

Language:

english

File:

PDF, 934 KB

english, 2007

20

Group XV phospholipase A2, a lysosomal phospholipase A2

James A. Shayman, Robert Kelly, Jessica Kollmeyer, Yongqun He, Akira Abe

Journal:

Progress in Lipid Research

Year:

2011

Language:

english

File:

PDF, 882 KB

english, 2011

21

Vaxign: a web-based vaccine target design program for reverse vaccinology

Zuoshuang Xiang, Yongqun He

Journal:

Procedia in Vaccinology

Year:

2009

Language:

english

File:

PDF, 456 KB

english, 2009

22

Systematic annotation and analysis of “virmugens”—Virulence factors whose mutants can be used as live attenuated vaccines

Racz, Rebecca, Chung, Monica, Xiang, Zuoshuang, He, Yongqun

Journal:

Year:

2013

Language:

english

File:

PDF, 1.43 MB

english, 2013

23

Bioinformatics analysis of bacterial protective antigens in manually curated Protegen database

He, Yongqun, Xiang, Zuoshuang

Journal:

Procedia in Vaccinology

Year:

2012

File:

PDF, 163 KB

2012

24

Omics-Based Systems Vaccinology for Vaccine Target Identification

Journal:

Drug Development Research

Year:

2012

Language:

english

File:

PDF, 102 KB

english, 2012

25

Genome-wide prediction of vaccine targets for human herpes simplex viruses using Vaxign reverse vaccinology

Xiang, Zuoshuang, He, Yongqun

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 1.07 MB

english, 2013

26

Computational vaccinology and the ICoVax 2012 workshop

Yongqun He, Zhiwei Cao, Anne S De Groot, Vladimir Brusic…

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 163 KB

english, 2013

27

PHIDIAS: a pathogen-host interaction data integration and analysis system

Zuoshuang Xiang, Yuying Tian, Yongqun He

Journal:

Year:

2007

Language:

english

File:

PDF, 3.24 MB

english, 2007

28

Ontology representation and analysis of vaccine formulation and administration and their effects on vaccine immune responses

Yu Lin, Yongqun He

Journal:

Journal of Biomedical Semantics

Year:

2012

Language:

english

File:

PDF, 534 KB

english, 2012

29

Identification of fever and vaccine-associated gene interaction networks using ontology-based literature mining

Junguk Hur, Arzucan Özgür, Zuoshuang Xiang, Yongqun He

Journal:

Journal of Biomedical Semantics

Year:

2012

Language:

english

File:

PDF, 692 KB

english, 2012

30

Ontology-based time information representation of vaccine adverse events in VAERS for temporal analysis

Cui Tao, Yongqun He, Hannah Yang, Gregory A Poland…

Journal:

Journal of Biomedical Semantics

Year:

2012

Language:

english

File:

PDF, 447 KB

english, 2012

31

A 2012 Workshop: Vaccine and Drug Ontology in the Study of Mechanism and Effect (VDOSME 2012)

Yongqun He, Luca Toldo, Gully Burns, Cui Tao…

Journal:

Journal of Biomedical Semantics

Year:

2012

Language:

english

File:

PDF, 127 KB

english, 2012

32

The Ontology of Vaccine Adverse Events (OVAE) and its usage in representing and analyzing adverse events associated with US-licensed human vaccines

Marcos, Erica, Zhao, Bin, He, Yongqun

Journal:

Journal of Biomedical Semantics

Year:

2013

Language:

english

File:

PDF, 807 KB

english, 2013

33

Network-based analysis of vaccine-related associations reveals consistent knowledge with the vaccine ontology

Zhang, Yuji, Tao, Cui, He, Yongqun, Kanjamala, Pradip, Liu, Hongfang

Journal:

Journal of Biomedical Semantics

Year:

2013

Language:

english

File:

PDF, 444 KB

english, 2013

34

A genome-wide MeSH-based literature mining system predicts implicit gene-to-gene relationships and networks

Zuoshuang Xiang,Tingting Qin,Zhaohui S Qin,Yongqun He

Journal:

BMC Systems Biology

Year:

2013

Language:

english

File:

PDF, 1.25 MB

english, 2013

35

DNAVaxDB: the first web-based DNA vaccine database and its data analysis

Racz, Rebecca, Li, Xinna, Patel, Mukti, Xiang, Zuoshuang, He, Yongqun

Journal:

BMC Bioinformatics

Year:

2014

Language:

english

File:

PDF, 1.03 MB

english, 2014

36

ICoVax 2013: The 3rdISV Pre-conference Computational Vaccinology Workshop

De Groot, Anne S, De Groot, Phoebe, He, Yongqun

Journal:

BMC Bioinformatics

Year:

2014

Language:

english

File:

PDF, 97 KB

english, 2014

37

A 2013 workshop: vaccine and drug ontology studies (VDOS 2013)

Tao, Cui, He, Yongqun, Arabandi, Sivaram

Journal:

Journal of Biomedical Semantics

Year:

2014

Language:

english

File:

PDF, 123 KB

english, 2014

38

OAE: The Ontology of Adverse Events

Yongqun He,Sirarat Sarntivijai,Yu Lin,Zuoshuang Xiang…

Journal:

Journal of Biomedical Semantics

Year:

2014

Language:

english

File:

PDF, 1.48 MB

english, 2014

39

Molecular Medical Microbiology || Bacterial Whole-Genome Determination and Applications

Year:

2015

Language:

english

File:

PDF, 399 KB

english, 2015

40

Ontology-supported research on vaccine efficacy, safety and integrative biological networks

Journal:

Expert Review of Vaccines

Year:

2014

Language:

english

File:

PDF, 1022 KB

english, 2014

41

Development and application of an interaction network ontology for literature mining of vaccine-associated gene-gene interactions

Hur, Junguk, Özgür, Arzucan, Xiang, Zuoshuang, He, Yongqun

Journal:

Journal of Biomedical Semantics

Year:

2015

Language:

english

File:

PDF, 1015 KB

english, 2015

42

Ontorat: automatic generation of new ontology terms, annotations, and axioms based on ontology design patterns

Xiang, Zuoshuang, Zheng, Jie, Lin, Yu, He, Yongqun

Journal:

Journal of Biomedical Semantics

Year:

2015

Language:

english

File:

PDF, 1.48 MB

english, 2015

43

Analyses of Brucella Pathogenesis, Host Immunity, and Vaccine Targets using Systems Biology and Bioinformatics

Journal:

Frontiers in Cellular and Infection Microbiology

Year:

2012

Language:

english

File:

PDF, 440 KB

english, 2012

44

The ontology of genetic susceptibility factors (OGSF) and its application in modeling genetic susceptibility to vaccine adverse events

Lin, Yu, He, Yongqun

Journal:

Journal of Biomedical Semantics

Year:

2014

Language:

english

File:

PDF, 1.66 MB

english, 2014

45

Environmental Temperature Differentially Modulates C. elegans Longevity through a Thermosensitive TRP Channel

Zhang, Bi, Xiao, Rui, Ronan, Elizabeth A., He, Yongqun, Hsu, Ao-Lin, Liu, Jianfeng, Xu, X.Z. Shawn

Journal:

Year:

2015

Language:

english

File:

PDF, 3.48 MB

english, 2015

46

Vaxign: The First Web-Based Vaccine Design Program for Reverse Vaccinology and Applications for Vaccine Development

He, Yongqun, Xiang, Zuoshuang, Mobley, Harry L. T.

Journal:

Journal of Biomedicine and Biotechnology

Year:

2010

Language:

english

File:

PDF, 1.78 MB

english, 2010

47

Vaccine Informatics

He, Yongqun, Rappuoli, Rino, De Groot, Anne S., Chen, Robert T.

Journal:

Journal of Biomedicine and Biotechnology

Year:

2010

Language:

english

File:

PDF, 42 KB

english, 2010

48

Emerging Vaccine Informatics

He, Yongqun, Rappuoli, Rino, De Groot, Anne S., Chen, Robert T.

Journal:

Journal of Biomedicine and Biotechnology

Year:

2010

Language:

english

File:

PDF, 435 KB

english, 2010

49

Vaxjo: A Web-Based Vaccine Adjuvant Database and Its Application for Analysis of Vaccine Adjuvants and Their Uses in Vaccine Development

Sayers, Samantha, Ulysse, Guerlain, Xiang, Zuoshuang, He, Yongqun

Journal:

Journal of Biomedicine and Biotechnology

Year:

2012

Language:

english

File:

PDF, 5.47 MB

english, 2012

50

and Vaccine-Mediated Gene Interaction Networks

Özgür, Arzucan, Xiang, Zuoshuang, Radev, Dragomir R., He, Yongqun

Journal:

Journal of Biomedicine and Biotechnology

Year:

2010

Language:

english

File:

PDF, 348 KB

english, 2010