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  4. Quangqiu Wang

Quangqiu Wang

AI specialist
School of Medicine

Publications

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  1. Shang YT, Sun XY, Chen XQ, Wang Q, Wang EJ, Miller E,Xu R, Pieper A, Qi X,  CHCHD6-APP axis connects amyloid and mitochondrial pathology in Alzheimer’s disease. Acta Neuropathologica (accepted).

  2. Ding P, Pan Y, Wang Q, Xu R*. Prediction and evaluation of combination pharmacotherapy using natural language processing, machine learning and patient electronic health records. J Biomed Inform. 2022 Aug 17;133:104164. doi: 10.1016/j.jbi.2022.104164. Epub ahead of print. PMID: 35985621.

  3. Zhao Y, Hu D, Wang R, Sun X, Ropelewski P, Hubler Z, Lundberg K, Wang Q, Adams DJ, Xu R, Qi X. ATAD3A oligomerization promotes neuropathology and cognitive deficits in Alzheimer's disease models. Nat Commun. 2022 Mar 2;13(1):1121. doi: 10.1038/s41467-022-28769-9. PMID: 35236834; PMCID: PMC8891325.

  4. Wang Q, Davis PB, Qi X, Chen SG, Gurney ME, Perry G, Doraiswamy MP, Xu R* (2021) Gut-microbiota-microglia-brain interactions in Alzheimer’s disease: knowledge-based, multi-dimensional characterization. Alzheimers Res Ther. 2021 Oct 20;13(1):177. doi: 10.1186/s13195-021-00917-1. PMID: 34670619; PMCID: PMC8529734.

  5. Wang L, Wang Q, Davis PB, Volkow ND, Xu R* (2021)  Increased risk for COVID-19 breakthrough infection in fully vaccinated patients with substance use disorders in the United States between December 2020 and August 2021. World Psychiatry. 2021 Oct 5. doi: 10.1002/wps.20921. Epub ahead of print. PMID: 34612005. (Impact factor: 49.55).

  6. Davis PB, Wang Q, Xu R (2021) Reply to “Post-COVID 19 neurological syndrome: a new risk factor that modifies the prognosis of patients with dementia”. Alzheimers Dement. In press.

  7. Wang Q, Davis PB, Gurney ME, Xu R* (2020). COVID-19 and dementia: analyses of risk, disparity and outcomes from electronic health records in the US. Alzheimers Dement. 2021 Feb 9. doi: 10.1002/alz.12296. Epub ahead of print. PMID: 33559975

  8. Zhou MS† (co-first author), Wang Q† (co-first author), Zheng CL, A. John Rush, Nora D Volkow,  Xu R* (2020). Drug repurposing for opioid use disorders: integration of computational prediction, clinical corroboration, and mechanism of action analyses. Mol Psychiatry (2021). https://doi.org/10.1038/s41380-020-01011-y

  9. Wang Q, Pamela B Davis, Xu R* (2020).COVID-19 risk, disparity and outcomes in patients with chronic liver disease in the United States. The Lancet EClinicalMedicine. DOI:https://doi.org/10.1016/j.eclinm.2020.100688

  10. Wang Q, Nathan A Berger*, Xu R* (2020). Analyses of Risk, Racial Disparity, and Outcomes of Cancers and Coronavirus Disease 2019 From Electronic Health Records in the US . JAMA Oncology, Published online December 10, 2020. DOI:10.1001/jamaonco.2020.6178.

  11. Xu R, Berger NA, Wang Q (2021). Risk, Racial Disparity, and Outcomes Among Patients With Cancer and COVID-19 Infection-Reply. JAMA Oncol. 2021 May 6. doi: 10.1001/jamaoncol.2021.0771. Epub ahead of print. PMID: 33956054

  12. Wang Q, Nathan A Berger*, Xu R* (2020). When Hematologic Malignancies Meet COVID-19 in the United States:  Infections, Death and Disparities. Blood Review. https://doi.org/10.1016/j.blre.2020.100775

  13. Zhang XW, Wang RH, Hu D, Sun XY, Fujioka H, Lundberg K, Chang E, Wang Q, Xu R, Fianagan ME, Pieper A, Qi X (2020). Oligodendroglial glycolytic stress triggers inflammasome activation and neuropathologyin Alzheimer’s disease. Sci Adv. 2020 Dec 4;6(49):eabb8680. doi: 10.1126/sciadv.abb8680. PMID: 33277246; PMCID: PMC7717916.

  14. Wang Q,  Xu R*, Volkow ND* (2020). Increased risk of COVID-19 infection and mortality in people with mental disorders: analysis from electronic health records in the United States. World Psychiatry (Impact factor: 40.59).  First published: 07 October 2020. https://doi.org/10.1002/wps.2080.

  15. Wang Q, Kaelber D, Xu R*, Volkow ND* (2020). COVID-19 Risk and Outcomes in patients with substance use disorders: Analyses from electronic health records in the United States. Molecular Psychiatry (2020) DOI https://doi.org/10.1038/s41380-020-00880-7.

  16. Wang Q, Xu R* (2020). CoMNRank: an integrated approach to extract and prioritize human microbial metabolites from MEDLINE records. J Biomed Inform. 2020;109:103524. doi:10.1016/j.jbi.2020.103524

  17. Wang Q, Xu R* (2020). Automatic extraction, prioritization and analysis of gut microbial metabolites from biomedical literature. Sci Rep. 2020;10(1):9996. Published 2020 Jun 19. doi:10.1038/s41598-020-67075-6

  18. Wang Q, Xu R* (2019) Data-driven multiple-level analysis of gut-microbiome-immune-joint interactions in rheumatoid arthritis, BMC Genomics (2019) 20:124. https://doi.org/10.1186/s12864-019-5510-y

  19. Wang Q, Xu R* (2018) Disease comorbidity-guided drug repositioning: a case study in schizophrenia. The 2018 Annual American Medical Informatics Association Symposium, Nov 3-7, San Francisco CA.

  20. Wang Q, Xu R* (2018) Immunotherapy-related adverse events (irAEs): extraction from FDA drug labels and comparative analysis. Journal of the American Medical Informatics Association Open (JAMIA Open). JAMIA Open, ooy045, https://doi.org/10.1093/jamiaopen/ooy045

  21. Wang Q, Li L, Xu R* (2018) A systems biology approach to predict and characterize human gut microbial metabolites in colorectal cancer, Scientific reports, 8(1), 6225. https://www.nature.com/articles/s41598-018-24315-0.

  22. Anil Belur Nagaraj, Ph.D; Peronne Joseph; Olga Kovalenko; QuanQiu Wang; Rong Xu, Analisa Defeo (2018) Evaluating class III antiarrhythmic agents as novel MYC targeting drugs in ovarian cancer. Gynecologic Oncology 2018 Dec;151(3):525-532. doi: 10.1016/j.ygyno.2018.09.019. Epub 2018 Oct 6.

  23. Nagaraj AB (co-first author), Wang Q (co-first author), Joseph P, Zheng CL, Chen Y, Kovalenko O, Singh S, Armstrong A, Resnick K, Zanotti K, Waggoner S, Xu R* (co-corresponding author), Difeo A* (co-corresponding author) (2017) Using a novel computational drug repositioning approach (DrugPredict) to Rapidly Identify Potent Drug Candidates for Cancer Treatment. Oncogene advance online publication 2 October 2017; doi: 10.1038/onc.2017.328. http://www.nature.com/onc/journal/vaop/ncurrent/full/onc2017328a.html?WT.feed_name=subjects_genetics.

  24. Wang Q, McCormick TS, Ward NL, Cooper KD, Xu R* (2017) Combining mechanism-based prediction with patient-based profiling for psoriasis metabolomics biomarker discovery. The 2017 Annual American Medical Informatics Association Symposium, Nov 14-18, Wahshington DC.

  25. Wang Q, Xu R* (2017) Drug repositioning for prostate cancer: using a data-driven approach to gain new insights. The 2017 Annual American Medical Informatics Association Symposium, Nov 14-18, Wahshington DC.

  26. Wang Q, Xu R* (2017) MetabolitePredict: a de-novo human metabolomics prediction system and its applications in rheumatoid arthritis. Journal of Biomedical Informatics, 2017 Jul;71:222-228. doi: 10.1016/j.jbi.2017.06.002. Epub 2017 Jun 7 [6] PMID:28600026.

  27. Xu R*, Wang Q.(2016) A genomics-based systems approach towards drug repositioning for rheumatoid arthritis. BMC Genomics 2016, 17(Suppl 7):518. DOI: 10.1186/s12864-016-2910-0.PMID:27557330; PMCID:PMC5001200 [12].

  28. Xu R*, Wang Q, (2016) Towards understanding brain-gut-microbiome connections in Alzheimer’s disease. BMC Systems Biology 2016, 10:63 DOI: 10.1186/s12918-016-0307-y. PMID:27585440; PMCID:PMC5009560. [13]

  29. Xu R*, Wang Q (2015) A genome-wide drug repositioning approach toward prostate cancer drug discovery. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). (Vol. 9096, pp. 435-437). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 9096). Springer Verlag. DOI: 10.1007/978-3-319-19048-8 [15].

  30. Xu R*, Wang Q (2015) PhenoPredict: a disease phenome-wide drug repositioning approach towards schizophrenia drug discovery. Journal of Biomedical Informatics, pp. 348-355. DOI information: 10.1016/j.jbi.2015.06.027.PMID:26151312; PMCID:PMC4589865 [16]

  31. Xu R*, Wang Q, (2015) tcTKB: an integrated cardiovascular toxicity knowledge base for targeted cancer drugs. 2015 Annual American Medical Informatics Association Symposium, San Francisco, CA, Nov 13-18. PMID:26958275; PMCID:PMC4765587 [17]

  32. Wang Q, Xu R* (2015) DenguePredict: An Integrated Drug Repositioning System Towards Drug Discovery for Dengue. 2015 Annual American Medical Informatics Association Symposium, San Francisco, CA, Nov 13-18.PMID:26958268; PMCID:PMC4765554 [18]

  33. Xu R*, & Wang, Q. (2015, April). A Genome-Wide Drug Repositioning Approach toward Prostate Cancer Drug Discovery. In Bioinformatics Research and Applications: 11th International Symposium, ISBRA 2015 Norfolk, USA, June 7-10, 2015 Proceedings (Vol. 9096, p. 435). Springer. [20].

  34. Xu R*, Wang Q, (2015) Large-scale automatic extraction of side effects-associated with targeted anticancer drugs from full-text oncological articles. Journal of Biomedical Informatics Jun;55:64-72. doi: 10.1016/j.jbi.2015.03.009. Epub 2015 Mar 27. PMID:25817969; PMCID:PMC4582661 [22]

  35. Xu R*, Wang Q, Li L, (2015) Genome-wide systems analysis reveals strong link between colorectal cancer and trimethylamine N-oxide (TMAO), a gut microbial metabolite of dietary meat and fat. BMC Genomics2015, 16(Suppl 7):S4 (11 June 2015).PMID:26100814; PMCID:PMC4474417 [23].

  36. Xu R*, Wang Q, (2015) Comparing a knowledge-driven approach to a aupervised machine learning approach in large-scale extraction of drug-side effect relationships from free-text biomedical literature. BMC Bioinformatics 2015, 16(Suppl 5):S6 doi:10.1186/1471-2105-16-S5-S6. PMID:25860223; PMCID:PMC4402591 [24]

  37. Xu R*, Wang Q, (2015) Combining automatic table classification and relationship extraction in extracting anticancer drug-side effect pairs from full-text articles. Journal of Biomedical Informatics, Volume 53, February 2015, Pages 128–135. DOI: 10.1016/j.jbi.2014.10.002. PMID:25445920; PMCID:PMC4586056 [27

  38. Xu R*, Wang Q, (2014) Automatic construction of a large-scale and accurate drug-side-effect association knowledge base from biomedical literature. Journal of Biomedical Informatics, J Biomed Inform. 2014 Oct;51:191-9. doi: 10.1016/j.jbi.2014.05.013. Epub 2014 Jun 10. PMID:24928448; PMCID:PMC4589180.[32].

  39. Xu R*, Wang Q, (2014) A knowledge-Driven Approach in Constructing a Large-Scale Drug-Side Effect Relationship Knowledge Base for Computational Drug Discovery. International Symposium on Bioinformatics Research and Applications (ISBRA) 2014 Conference.

  40. Xu R*, Li L, Wang Q, (2014) dRiskKB: a large-scale disease-disease risk (causal) relationship knowledge base constructed from biomedical text. BMC Bioinformatics 2014, 15:105, doi:10.1186/1471-2105-15-105. PMID:24725842; PMCID:PMC3998061. [33].

  41. Xu R*, Wang Q, (2014) Large-scale combining signals from both biomedical literature and the FDA Adverse Event Reporting System (FAERS) to improve post-marketing drug safety signal detection. BMC Bioinformatics 2014 Jan 15;15:17. doi: 10.1186/1471-2105-15-17.PMID:24428898; PMCID:PMC3906761. [34].

  42. Xu R*, Wang Q, (2014) Automatic signal prioritizing and filtering approaches in detecting post-marketing cardiovascular events associated with targeted cancer drugs from the FDA Adverse Event Reporting System (FAERS). Journal of Biomedical Informatics (2014), Feb;47:171-7. doi: 10.1016/j.jbi.2013.10.008. Epub 2013 Oct 28.PMID:24177320; PMCID:PMC4452013. [35]

  43. Xu R*, Li L, Wang Q, (2013) Towards building a disease-phenotype relationship knowledge base: large scale extraction of disease-manifestation relationship from literature. Bioinformatics 2013; doi: 10.1093/bioinformatics/btt359. PMID 23828786; PMCID:PMC4068009 [39].

  44. Xu R*, Wang Q, (2013) A Semi-Supervised Pattern-Learning Approach to Extract Pharmacogenomics-Specific Drug-Gene Pairs from Biomedical Literature. J Pharmacogenom Pharmacoproteomics 4: 117. doi:10.4172/2153-0645.1000117. [40]

  45. Xu R*, Wang Q, (2013) Toward creation of a cancer drug toxicity knowledge base: automatically extracting cancer drug side effect relationships from literature. Journal of the American Medical Informatics Association (JAMIA), 2014;21:1 90-96.PMID:23686935; PMCID:PMC3912715 [41].

  46. Xu R*, Wang Q, (2013) A semi-supervised approach to extract pharmacogenomics-specific drug-gene pairs from biomedical literature for personalized medicine. Journal of Biomedical Informatics 2013 Aug;46(4):585-93. doi: 10.1016/j.jbi.2013.04.001. Epub 2013 Apr 6.PMID:23570835; PMCID:PMC4452014[42].

  47. Xu R*, Wang Q, (2013) Large-scale extraction of drug-disease treatment pairs from biomedical literature for drug repurposing. BMC Bioinformatics, 2013, 14(1), 181.PMID:23742147; PMCID:PMC3702428. [43]

  48. Xu R*, Wang Q, (2013) An iterative searching and ranking algorithm for prioritizing pharmacogenomics genes. Int J Comput Biol Drug Des. 2013;6(1-2):18-31. PMID 23428471. [44]

  49. Xu R*, Wang Q, (2012) A knowledge-driven conditional approach to extract pharmacogenomics specific drug-gene relationships from free text, Journal of Biomedical Informatics. 2012 Oct;45(5):827-34.PMID:22561026; PMCID:PMC4589154 [52]