Senior Research Staff

Malarkodi (Malar) Jebathilagam Samayamuthu

Directory Listing Information
Samayamuthu, Malar
Department of Biomedical Informatics

Senior Research Scientist

Cubicle 435j
5607 Baum Boulevard, Suite 400
412-624-3236

Chengli Shen

Directory Listing Information
Shen, Chengli
Department of Biomedical Informatics

Research Scientist

5607 Baum Boulevard, Suite 400
Pittsburgh, PA 15206
412-648-7789

Waqas Amin, MD

Directory Listing Information
Amin, Waqas
University of Pittsburgh

Senior Research Scientist, Department Biomedical Informatics, University of Pittsburgh

Room 437G
5607 Baum Boulevard
Pittsburgh, PA 15206
412-648-9069
Selected Publications: 

Amin W, Tsui FR, Borromeo C, Chuang CH, Espino JU, Ford D, Hwang W, Kapoor W, Lehmann H, Martich GD, Morton S, Paranjape A, Shirey W, Sorensen A, Becich MJ, Hess R; PaTH network team. PaTH: towards a learning health system in the Mid-Atlantic region. J Am Med Inform Assoc. 2014 Jul;21(4):633-6. PMID: 24821745 [PubMed - in process] PMCID: PMC4078296

Amin W, Srinivasan M, Song S, Parwani AV, Becich MJ. Use of Automated Image Analysis in Evaluation of Mesothelioma Tissue Microarray (TMA) from National Mesothelioma Virtual Bank. Pathology Research and Practice. 2014 February, 210(2) 79–82 PMID: 24359722

Amin W, Parwani AV, Melamed J, Raja F, Pennathur A, Valdevieso F, Whelan NB, Landreneau R, Luketich J, Feldman M, Pass HI, Becich MJ. National Mesothelioma Virtual Bank: A Platform for Collaborative Research and Mesothelioma Biobanking Resource to Support Translational Research, Lung Cancer International, vol. 2013, Article ID 765748, 9 pages, 2013. doi: 10.1155/2013/765748

Amin W,Chandran U, Parwani AV, Becich MJ. Biomedical Informatics for Anatomic Pathology. In Cheng, Liang; Bostwick, David G. (Eds.) Essentials of Anatomic Pathology 3rd ed. New York, NY. Springer: August 2010

Amin W, Sirintrapun JS, Parwani AV. Utility and application of synoptic reporting in pathology. Journal of Open Access Bioinformatics. 2010 July; 2(1): 105-112. doi: 10.2147/OAB.S12295

Amin W, Parwani AV. Nephrogenic Adenoma. Pathology Research and Practice. 2010 Oct 15; 206(10):659-62. PMID: 20619548

Amin W, Singh H, Dzubinski LA, Schoen RE, Parwani AV. Design and utilization of the colorectal and pancreatic neoplasm virtual biorepository: An early detection research network initiative. Journal of Pathology Informatics. 2010 Oct 1; 1:22. PMID: 21031013. PMCID: PMC2956178. doi: 10.4103/2153-3539.70831

Amin W,Kang HP,Becich MJ. Data management, Database and Data Warehouse. In Ochs MF, Casagrande JT, Davuluri RV. (Eds.) Biomedical Informatics in Cancer Research 1st Edition. New York, NY: Springer: 2010.

Amin W, Kang P, Egloff A, Singh H, Hetrick J, Trent K, Seethala R, Grandis F, Parwani P. An informatics supported web-based data annotation and query tool to expedite translational research for head and neck malignancies. BMC Cancer 2009, 9:396. PMID: 19912644. PMCID: 2780457. doi: 10.1186/1471-2407-9-396

Amin W, Parwani AV. Adenomatoid Tumor of Testis. Clinical Medicine: Pathology 2009:2 1–6. PMID: 21151545. PMCID: PMC2990235

Kang HP, Devine LJ, Piccoli AL, Seethala RR, Amin W, Parwani AV. Usefulness of a Synoptic Data Tool for Reporting of Head and Neck Neoplasms Based on the College of American Pathologists Cancer Checklists American Journal of Clinical Pathology 2009;132:521-530. PMID: 19762529

Amin W, Parwani A, Schmandt L, Mohanty S, Farhat G, Pople A, Winters S, Whelan N, Schneider A, Milnes J, Valdivieso F, Feldman M, Pass H, Dhir R, Melamed J, Becich M. National Mesothelioma Virtual Bank: a standard based biospecimen and clinical data resource to enhance translational research. BMC cancer. 2008 Aug; 8(1): 236. PMID: 18700971. PMCID: PMC2533341

Amin W, Srintrapun SJ, Parwani AV. Automated Whole Slide Imaging. Expert Opin Med Diagn. 2008 Oct; 2(10):1173-81. PMID: 23496426

Mohanty S, Mistry A, Amin W, Parwani A, Pople A, Schmandt L, Winters S, Milliken E, Kim P, Whelan N, Farhat G, Melamed J, Taioli E, Dhir R, Pass H, Becich, M. The development and deployment of Common Data Elements for tissue banks for translational research in cancer - an emerging standard based approach for the Mesothelioma Virtual Tissue Bank. BMC cancer 2008 Apr; 8(8): 91. PMID: 18397527. PMCID: PMC2329649

Jeremy Espino, MD, MS

Directory Listing Information
Espino, Jeremy
Department of Biomedical Informatics

 

Senior Research Scientist
Director of Information Technology and Open Source Software Development
Director of Information Technology, Real-time Outbreak and Disease Surveillance Laboratory
Senior Research Associate Director of Information Technology, Real-time Outbreak and Disease Surveillance Laboratory
Room 435
5607 Baum Boulevard
Pittsburgh, PA 15206
412-648-7344
Selected Publications: 

Rexit R, Tsui FC, Espino JU, Chrysanthis PK, Wesaratchakit S, Ye Y. An analytics appliance for identifying (near) optimal over-the-counter medicine products as health indicators for influenza surveillance. J Manager Infor Systems. 2015;48:151-63.

Amin W, Tsui FC, Borromeo C, Chang CH, Espino JU, Ford D, Hwang W, Kapoor W, Lehmann H, Martich GD, Morton S, Paranjape A, Shirey W, Sorensen A, Becich MJ, Hess R. PaTH: towards a learning health system in the Mid-Atlantic region. J Am Med Inform Assoc.. 2014;21(4):63-6, PMID: 24821745 PMCID: PMC4078296

Villamarín R, Cooper G, Wagner M, Tsui FC, Espino JU. A method for estimating from thermometer sales the incidence of diseases that are symptomatically similar to influenza. Journal of Biomedical Informatics. 2013 Jun;46(3):444-57. PMID: 23501015 PMCID: PMC4609543

Liu TY, Sanders JL, Tsui FC, Espino JU, Dato VM, Suyama J. Association of over-the-counter pharmaceutical sales with influenza-like-illnesses to patient volume in an urgent care setting. PLoS ONE. 2013;8(3):e59273. Epub 2013 Mar 21. PMID: 23555647. PMCID: PMC3605458. doi: 10.1371/journal.pone.0059273

M. Wagner et al., "A Decision-Theoretic Model of Disease Surveillance and Control and a Prototype Implementation for the Disease Influenza," Data Engineering Workshops (ICDEW), 2012 IEEE 28th International Conference on, Arlington, VA, 2012, pp. 49-54.
doi: 10.1109/ICDEW.2012.32

Rexit R, Tsui F, Espino J, Wesaratchaki S, Ye Y, Chrysanthis PK. Using a distributed search engine to identify optimal product sets for use in an outbreak detection system. International Workshop on Collaborative Big Data, 2012 8th International Conference on Collaborative Computing. 2012: 560-566. doi: 10.4108/icst.collaboratecom.2012.250728

Chapman WW, Dowling JN, Baer A, Buckeridge DL, Cochrane D, Conway MA, Elkin P, Espino J, Gunn JE, Hales CM, Hutwagner L, Keller M, Larson C, Noe R, Okhmatovskaia A, Olson K, Paladini M, Scholer M, Sniegoski C, Thompson D, Lober B. Developing syndrome definitions based on consensus and current use. J Am Med Inform Assoc. 2010 Sep-Oct;17(5):595-601. PMID: 20819870. PMCID: PMC2995670

Rexit R, Tsui FC, Espino JU, Wesaratchakit S, Ye Y, Chrysanthis PK. Using a distributed search engine to identify optimal product sets for use in an outbreak detection system. International Workshop on Collaborative Big Data (C-Big 2012); 2012 Oct 14 - 17; Pittsburgh, PA. 2014 Oct. 560-66.

Tsui FC, Espino JU, Weng Y, Choudary A, Su HD, Wagner MM. Key design elements of a data utility for national biosurveillance: event-driven architecture, caching, and Web service model. AMIA Annu Symp Proc. 2005:739-43. PMID: 16779138. PMCID: PMC1560630

Wagner MM, Espino J, Tsui FC, Gesteland P, Chapman W, Ivanov O, Moore A, Wong W, Dowling J, Hutman J. Syndrome and outbreak detection using chief-complaint data--experience of the Real-Time Outbreak and Disease Surveillance project. MMWR Morb Mortal Wkly Rep. 2004 Sep 24;53 Suppl:28-31. PMID: 15714623

Wagner MM, Tsui FC, Espino J, Hogan W, Hutman J, Hersh J, Neill D, Moore A, Parks G, Lewis C, Aller R. National Retail Data Monitor for public health surveillance. MMWR Morb Mortal Wkly Rep. 2004 Sep 24; 53 Suppl:40-2. PMID: 15714625

Espino JU, Wagner M, Szczepaniak C, Tsui FC, Su H, Olszewski R, Liu Z, Chapman W, Zeng X, Ma L, Lu Z, Dara J, Centers for Disease, Control and Prevention. Removing a barrier to computer-based outbreak and disease surveillance--the RODS Open Source Project. MMWR – Morb Mortal Wkly Rep. 2004, 53 Suppl: 32-9. PMID: 15714624

Espino JU, Wagner MM, Tsui FC, Su HD, Olszewski RT, Lie Z, Chapman W, Zeng X, Ma L, Lu ZW, Dara J. The RODS Open Source Project: removing a barrier to syndromic surveillance. Medinfo. 2004, 11 Pt 2: 1192-6. PMID: 15361001

Wagner MM, Robinson JM, Tsui FC, Espino JU, Hogan WR. Design of a national retail data monitor for public health surveillance. J Am Med Inform Assoc. 2003 Sep-Oct; 10(5):409-18. Epub 2003 Jun 4. PMID: 12807802. PMCID: PMC212777

Gesteland PH, Gardner RM, Tsui FC, Espino JU, Rolfs RT, James BC, Chapman WW, Moore AW, Wagner MM. Automated syndromic surveillance for the 2002 Winter Olympics. J Amer Med Inform Assoc. 2003, 10(6): 547-54. PMID: 12925547. PMCID: PMC264432

Tsui FC, Espino JU, Dato VM, Gesteland PH, Hutman J, Wagner MM. Technical description of RODS: a real-time public health surveillance system. J Amer Med Inform Assoc. 2003, 10(5): 399-408. PMID: 12807803. PMCID: PMC212776

Espino JU, Hogan WR, Wagner MM. Telephone triage: a timely data source for surveillance of influenza-like diseases. AMIA Annu Symp Proc. 2003:215-9. PMID: 14728165. PMCID: PMC1480215

Lober WB, Karras BT, Wagner MM, Overhage JM, Davidson AJ, Fraser H, Trigg LJ, Mandl KD, Espino JU, Tsui FC. Roundtable on bioterrorism detection: information system-based surveillance. J Amer Med Inform Assoc. 2002, 9, 2: 105-15. PMID: 11861622. PMCID: PMC344564

Gesteland PH, Wagner MM, Chapman WW, Espino JU, Tsui FC, Gardner RM, Rolfs RT, Dato V, James BC, Haug PJ. Rapid deployment of an electronic disease surveillance system in the state of Utah for the 2002 Olympic Winter Games, Proc AMIA Symp. 2002:285-9. PMID: 12463832. PMCID: PMC2244330

Tsui FC, Espino JU, Wagner MM, Gesteland P, Ivanov O, Olszewski RT, Liu Z, Zeng X, Chapman W, Wong WK, Moore A. Data, network, and application: technical description of the Utah RODS Winter Olympic Biosurveillance System. Proc AMIA Annu Symp 2002: 815-9. PMID: 12463938

Gesteland PH, Wagner MM, Chapman WW, Espino JU, Tsui FC, Gardner RM, Rolfs RT, Dato V, James BC, Haug PJ. (2002). Rapid deployment of an electronic disease surveillance system in the state of Utah for the 2002 Olympic Winter Games. Proceedings of the AMIA Symposium, 285–289. PMID: 12463832 PMCID: PMC2244330

Tsui FC, Espino JU, Wagner MM, Gesteland P, Ivanov O, Olszewski RT, Liu Z, Zeng X, Chapman W, Wong WK, Moore A. (2002). Data, network, and application: technical description of the Utah RODS Winter Olympic Biosurveillance System. Proceedings of the AMIA Symposium, 815–819. PMID: 12463938 PMCID: PMC2244477

Wagner MM, Tsui FC, Espino JU, Dato VM, Sittig DF, Caruana RA, McGinnis LF, Deerfield DW, Druzdzel MJ, Fridsma DB. The emerging science of very early detection of disease outbreaks. J Public Health Manag Pract. 2001 Nov;7(6):51-9. PMID: 11710168

Espino JU, Wagner MM. Accuracy of ICD-9-coded chief complaints and diagnoses for the detection of acute respiratory illness. J Amer Med Inform Assoc. 2001: 164-168. PMID: 11833477. PMCID: PMC2243564

^