Publications
2024
Prantzalos, K., Upadhyaya, D.P., Golnari, P., Fernandez-BacaVaca, G., Aispuro, G.P., Salehizadeh, S., Thyagaraj, S., Gurski, N., and Sahoo, S.S., (2024). Neural Mosaics: Detecting Aberrant Brain Interactions using Algebraic Topology and Generative Artificial Intelligence . AMIA 2024 Annual Symposium. November 9 - 13, San Francisco, CA. American Medical Informatics Association, (Accepted).
Upadhyaya, D. P., Tarabichi, Y., Prantzalos, K., Ayub, S., Kaelber, D. C., & Sahoo, S. S. (2024). Machine learning interpretability methods to characterize the importance of hematologic biomarkers in prognosticating patients with suspected infection . Computers in biology and medicine, 183, 109251. Advance online publication. https://doi.org/10.1016/j.compbiomed.2024.109251
Upadhyaya, D.P., Shaikh, A., Cakir, G.B., Prantzalos, K., Golnari, P., Ghasia, F.F. and Sahoo, S.S., (2024). A 360 Degree View for Large Language Models: Early Detection of Amblyopia in Children using Multi-View Eye Movement Recordings. 22nd International Conference on Artificial Intelligence in Medicine (AIME24), Salt Lake City, UT July 9-12, 2024.
Sahoo, S. S., Plasek, J. M., Xu, H., Uzuner, Ö., Cohen, T., Yetisgen, M., Liu, H., Meystre, S., & Wang, Y. (2024). Large language models for biomedicine: foundations, opportunities, challenges, and best practices. Journal of the American Medical Informatics Association : JAMIA, ocae074.
Sivagnanam, S., Yeu, S., Lin, K., Sakai, S., Garzon, F., Yoshimoto, K., ... & Lytton, W. W. (2024). Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain . Database, 2024, baae023.
Upadhyaya, D.P., Shaikh, A., Prantzalos, K., Golnari, P., Ghasia, F.F. and Sahoo, S.S., (2024). Helios: A Platform for Early Childhood Amblyopia Detection using Fixation Eye Movements . AMIA 2024 Annual Symposium. November 9 - 13, San Francisco, CA. American Medical Informatics Association (Poster), (Accepted).
Sanchez, E., Upadhyaya, D. P., Cakir, G. B., Shaikh, A., Stefano, R., Sahoo, S., & Ghasia, F. (2024). Machine Learning, Artificial Intelligence and Eye Movements: Utility in Detection of Amblyopia . Investigative Ophthalmology & Visual Science, 65(7), 4301-4301.
2023
Wang, L., Ambite, J.L., Appaji, A., Bijsterbosch, J., Dockes, J., Herrick, R., Kogan, A., Lander, H., Marcus, D., Moore, S.M. and Poline, J.B., 2023. NeuroBridge: a prototype platform for discovery of the long-tail neuroimaging data. Frontiers in Neuroinformatics, 17.
Upadhyaya, D.P., Prantzalos, K., Thyagaraj, S., Shafiabadi, N., Fernandez-BacaVaca, G., Sivagnanam, S., Majumdar, A. and Sahoo, S.S., 2023. Machine Learning Interpretability Methods to Characterize Brain Network Dynamics in Epilepsy . medRxiv, pp.2023-06.
Prantzalos, K., Upadhyaya, D.P., Shafiabadi, N., Gurski, N., Fernandez-BacaVaca, G.,
Yoshimoto, K., Sivagnanam, S., Majumdar, A. and Sahoo, S.S., 2023. MaTiLDA: An Integrated Machine Learning and Topological Data Analysis Platform for Brain Network Dynamics . Proceedings of the 29th Pacific Symposium on Biocomputing (PSB), 29:65-80(2024).
Sahoo, S.S., Turner, M.D., Wang, L., Ambite, J.L., Appaji, A., Rajasekar, A., Lander, H.M., Wang, Y. and Turner, J.A., 2023. NeuroBridge ontology: computable provenance metadata to give the long tail of neuroimaging data a FAIR chance for secondary use. Frontiers in Neuroinformatics, 17.
2022
Wang, X., Wang, Y., Ambite, J.L., Appaji, A., Lander, H., Moore, S.M., Rajasekar, A.K., Turner, J.A., Turner, M.D., Wang, L. and Sahoo, S.S., 2022. Enabling scientific reproducibility through FAIR data management: An ontology-driven deep learning approach in the NeuroBridge Project. In AMIA Annual Symposium Proceedings (Vol. 2022, p. 1135). American Medical Informatics Association.
Sahoo, S.S., Kobow, K., Zhang, J., Buchhalter, J., Dayyani, M., Upadhyaya, D.P., Prantzalos, K., Bhattacharjee, M., Blumcke, I., Wiebe, S. and Lhatoo, S.D., 2022. Ontology-based feature engineering in machine learning workflows for heterogeneous epilepsy patient records . Scientific Reports, 12(1), p.19430.
Lander, H., Rajasekar, A., Wang, Y., Watson, M., Sahoo, S., Turner, J., Poline, J-B. & Wang, L. (2022). Linking NeuroBridge and NeuroQuery with deep semantic matching. Neuroinformatics Assembly.
Turner, J.A., Turner, M.D., Appaji, A., Rajasekar, A.K., Wang, L. & Sahoo, S.S. (2022). NeuroBridge ontology development for shared neuroimaging datasets. International Neuroinformatics Coordinating Facility (INCF) Assembly, 2022.
Spilsbury, J.C., Hernandez, E., Kiley, K., Gillerlane Hinkes, E., Prasanna, S., Shafiabadi, N., Rao, P. and Sahoo, S.S., 2022. Social Service Workers’ Use of Social Media to Obtain Client Information: Current Practices and Perspectives on a Potential Informatics Platform. Journal of Social Service Research, 48(6), pp.739-752.
2021
Gupta, D.K., Marano, M., Aurora, R., Boyd, J. and Sahoo, S.S., 2020. Movement disorders ontology for clinically oriented and clinicians-driven data mining of multi-center cohorts in Parkinson’s disease. medRxiv, pp.2020-11. Movement disorders ontology for clinically-oriented and clinicians-driven data mining of multi-center cohorts in Parkinson's disease (Poster)
Prantzalos, K., Zhang, J., Shafiabadi, N., Fernandez-BacaVaca, G. and Sahoo, S.S., 2021. Epilepsy-Connect: An Integrated Knowledgebase for Characterizing Alterations in Consciousness State of Pharmacoresistant Epilepsy Patients. In AMIA Annual Symposium Proceedings (Vol. 2021, p. 1019). American Medical Informatics Association.
Zhang, J., Bauman, R., Shafiabadi, N., Gurski, N., Fernandez-BacaVaca, G. and Sahoo, S.S., 2021. Characterizing Brain Network Dynamics using Persistent Homology in Patients with Refractory Epilepsy. In AMIA Annual Symposium Proceedings (Vol. 2021, p. 1244). American Medical Informatics Association.
2020
Sahoo, S.S., Gershon, A., Nassim, S., Kaushik, G., Curtis, T., Lhatoo, S.D. and Fernandez-BacaVaca, G., 2020. NeuroIntegrative Connectivity (NIC) informatics tool for brain functional connectivity network analysis in cohort studies. In AMIA Annual Symposium Proceedings (Vol. 2020, p. 1090). American Medical Informatics Association.
Liu, C., Kim, M., Rueschman, M. and Sahoo, S.S., 2020. ProvCaRe: A Large-Scale Semantic Provenance Resource for Scientific Reproducibility. In Provenance in Data Science: From Data Models to Context-Aware Knowledge Graphs (pp. 59-73). Cham: Springer International Publishing.
Lhatoo, S.D., Bernasconi, N., Blumcke, I., Braun, K., Buchhalter, J., Denaxas, S., Galanopoulou, A., Josephson, C., Kobow, K., Lowenstein, D. and Ryvlin, P., 2020. Big data in epilepsy: clinical and research considerations. Report from the Epilepsy Big Data Task Force of the International League Against Epilepsy. Epilepsia, 61(9), pp.1869-1883.
Carr, S.J., Gershon, A., Shafiabadi, N., Lhatoo, S.D., Tatsuoka, C. and Sahoo, S.S., 2021. An integrative approach to study structural and functional network connectivity in epilepsy using imaging and signal data. Frontiers in integrative neuroscience, 14, p.491403
2019
Sahoo, S.S., Valdez, J., Kim, M., Rueschman, M. and Redline, S., 2019. ProvCaRe: characterizing scientific reproducibility of biomedical research studies using semantic provenance metadata. International journal of medical informatics, 121, pp.10-18.
Gershon, A., Devulapalli, P., Zonjy, B., Ghosh, K., Tatsuoka, C. and Sahoo, S.S., 2019. Computing functional brain connectivity in neurological disorders: efficient processing and retrieval of electrophysiological signal data. AMIA Summits on Translational Science Proceedings, 2019, p.107.
Yang, S., Ghosh, K., Sakaie, K., Sahoo, S.S., Carr, S.J.A. and Tatsuoka, C., 2019. A simplified crossing fiber model in diffusion weighted imaging. Frontiers in Neuroscience, 13, p.492.
Hong X, Liu C, Momotaz H, Cassidy K, Sajatovic M, Sahoo SS. Enhancing Multi-Center Patient Cohort Studies in the Managing Epilepsy Well (MEW) Network: Integrated Data Integration and Statistical Analysis . In AMIA Annual Symposium Proceedings Vol. 2019, pp
Socrates, V., Gershon, A.L. and Sahoo, S.S., 2019, August. Computation of Brain Functional Connectivity Network Measures in Epilepsy: A Web-Based Platform for EEG Signal Data Processing and Analysis. In MedInfo (pp. 1590-1591).
Sahoo, S.S., Valdez, J., Rueschman, M. and Kim, M., 2019. Semantic Provenance Graph for Reproducibility of Biomedical Research Studies: Generating and Analyzing Graph Structures from Published Literature. Studies in health technology and informatics, 264, p.328.
2018
Gershon, A., Lhatoo, S.D., Tatsuoka, C., Ghosh, K., Loparo, K. and Sahoo, S.S., 2018. Scalable Signal Data Processing for Measuring Functional Connectivity in Epilepsy Neurological Disorder. Signal Processing and Machine Learning for Biomedical Big Data (Book).
Valdez, J., Kim, M., Rueschman, M., Redline, S. and Sahoo, S.S., 2018. Classification of provenance triples for scientific reproducibility: A comparative evaluation of deep learning models in the ProvCaRe project. In Provenance and Annotation of Data and Processes: 7th International Provenance and Annotation Workshop, IPAW 2018, London, UK, July 9-10, 2018, Proceedings (pp. 30-41). Springer International Publishing.
2017
Sajatovic, M., Tatsuoka, C., Welter, E., Friedman, D., Spruill, T.M., Stoll, S., Sahoo, S.S., Bukach, A., Bamps, Y.A., Valdez, J. and Jobst, B.C., 2017. Correlates of quality of life among individuals with epilepsy enrolled in self-management research: from the US Centers for Disease Control and Prevention Managing Epilepsy Well Network. Epilepsy & Behavior, 69, pp.177-180.
Valdez, J., Kim, M., Rueschman, M., Socrates, V., Redline, S. and Sahoo, S.S., 2017. ProvCaRe semantic provenance knowledgebase: evaluating scientific reproducibility of research studies. In AMIA Annual Symposium Proceedings (Vol. 2017, p. 1705). American Medical Informatics Association.
Valdez, J., Rueschman, M., Kim, M., Arabyarmohammadi, S., Redline, S. and Sahoo, S.S., 2017. An extensible ontology modeling approach using post coordinated expressions for semantic provenance in biomedical research. In On the Move to Meaningful Internet Systems. OTM 2017 Conferences: Confederated International Conferences: CoopIS, C&TC, and ODBASE 2017, Rhodes, Greece, October 23-27, 2017, Proceedings, Part II (pp. 337-352). Springer International Publishing.
Gershon, A.L., Zonjy, B., Tatsuoka, C., Ghosh, K. and Sahoo, S.S., 2017. A Flexible Computational Neuroinformatics Workflow for Computing Functional Networks in Epilepsy Neurological Disorder. In AMIA.
2016
Sahoo, S.S., Valdez, J. and Rueschman, M., 2016. Scientific reproducibility in biomedical research: provenance metadata ontology for semantic annotation of study description. In AMIA Annual Symposium Proceedings (Vol. 2016, p. 1070). American Medical Informatics Association.
Valdez, J., Rueschman, M., Kim, M., Redline, S. and Sahoo, S.S., 2016. An ontology-enabled natural language processing pipeline for provenance metadata extraction from biomedical text (short paper). In On the Move to Meaningful Internet Systems: OTM 2016 Conferences: Confederated International Conferences: CoopIS, C&TC, and ODBASE 2016, Rhodes, Greece, October 24-28, 2016, Proceedings (pp. 699-708). Springer International Publishing. An Ontology-Enabled Natural Language Processing Pipeline for Provenance Metadata Extraction from Biomedical Text
Sahoo, S.S., Wei, A., Tatsuoka, C., Ghosh, K. and Lhatoo, S.D., 2016. Processing neurology clinical data for knowledge discovery: scalable data flows using distributed computing. Machine Learning for Health Informatics: State-of-the-Art and Future Challenges, pp.303-318.
Dean, D.A., Goldberger, A.L., Mueller, R., Kim, M., Rueschman, M., Mobley, D., Sahoo, S.S., Jayapandian, C.P., Cui, L., Morrical, M.G. and Surovec, S., 2016. Scaling up scientific discovery in sleep medicine: the national sleep research resource. Sleep, 39(5), pp.1151-1164.
Sahoo, S.S., Zhang, G.Q., Bamps, Y., Fraser, R., Stoll, S., Lhatoo, S.D., Tatsuoka, C., Sams, J., Welter, E. and Sajatovic, M., 2016. Managing information well: Toward an ontology-driven informatics platform for data sharing and secondary use in epilepsy self-management research centers. Health informatics journal, 22(3), pp.548-561.
Yang, S., Tatsuoka, C., Ghosh, K., Lacuey-Lecumberri, N., Lhatoo, S.D. and Sahoo, S.S., 2016. Comparative evaluation for brain structural connectivity approaches: towards integrative neuroinformatics tool for epilepsy clinical research. AMIA Summits on Translational Science Proceedings, 2016, p.446.
Sahoo, S.S., Ramesh, P., Welter, E., Bukach, A., Valdez, J., Tatsuoka, C., Bamps, Y., Stoll, S., Jobst, B.C. and Sajatovic, M., 2016. Insight: An ontology-based integrated database and analysis platform for epilepsy self-management research. International journal of medical informatics, 94, pp.21-30.
Sahoo, S.S., Wei, A., Valdez, J., Wang, L., Zonjy, B., Tatsuoka, C., Loparo, K.A. and Lhatoo, S.D., 2016. NeuroPigPen: a scalable toolkit for processing electrophysiological signal data in neuroscience applications using apache pig. Frontiers in neuroinformatics, 10, p.18.
2015
Sahoo SS, Rao P. Provenance Analysis and RDF Query Processing: W3C PROV for Data Quality and Trust . In the 14th International Semantic Web Conference (ISWC 2015), Bethlehem, PA, 2015. (Tutorial, to appear)
Sahoo SS, Rueschman M, Valdez J, Hsu W, Lhatoo SD, Redline S. Provenance Analysis over Biomedical Big Data Using PROV: Towards Effective Secondary Data Analysis Across Multiple Studies. NIH Big Data to Knowledge (BD2K) Meeting, Bethesda MD. Nov 12-13, 201 Provenance Analysis over Biomedical Big Data Using PROV: Towards Effective Secondary Data Analysis Across Multiple Studies (Poster)
Ramesh, P., Wei, A., Welter, E., Bamps, Y., Stoll, S., Bukach, A., Sajatovic, M. and Sahoo, S.S., 2015, November. Insight: Semantic provenance and analysis platform for multi-center neurology healthcare research. In 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (pp. 731-736). IEEE.
Jayapandian, C., Wei, A., Ramesh, P., Zonjy, B., Lhatoo, S.D., Loparo, K., Zhang, G.Q. and Sahoo, S.S., 2015. A scalable neuroinformatics data flow for electrophysiological signals using MapReduce. Frontiers in neuroinformatics, 9, p.4.
LaFrance Jr, W.C., Ranieri, R., Bamps, Y., Stoll, S., Sahoo, S.S., Welter, E., Sams, J., Tatsuoka, C. and Sajatovic, M., 2015. Comparison of common data elements from the Managing Epilepsy Well (MEW) Network integrated database and a well-characterized sample with nonepileptic seizures. Epilepsy & Behavior, 45, pp.136-141.
2014
Cui, L., Sahoo, S.S., Lhatoo, S.D., Garg, G., Rai, P., Bozorgi, A. and Zhang, G.Q., 2014. Complex epilepsy phenotype extraction from narrative clinical discharge summaries. Journal of biomedical informatics, 51, pp.272-279.
Jayapandian, C., Chen, C.H., Dabir, A., Lhatoo, S., Zhang, G.Q. and Sahoo, S.S., 2014. Domain ontology as conceptual model for big data management: application in biomedical informatics. In Conceptual Modeling: 33rd International Conference, ER 2014 , Atlanta, GA, USA, October 27-29, 2014. Proceedings 33 (pp. 144-157). Springer International Publishing.
Zhang, G.Q., Cui, L., Lhatoo, S., Schuele, S.U. and Sahoo, S.S., 2014. MEDCIS: multi-modality epilepsy data capture and integration system. In AMIA Annual Symposium Proceedings (Vol. 2014, p. 1248). American Medical Informatics Association.
Sahoo, S.S., Tao, S., Parchman, A., Luo, Z., Cui, L., Mergler, P., Lanese, R., Barnholtz-Sloan, J.S., Meropol, N.J. and Zhang, G.Q., 2014. Trial prospector: matching patients with cancer research studies using an automated and scalable approach. Cancer informatics, 13, pp.CIN-S19454.
Sahoo SS, McIntyre C, Lhatoo SD. A Match Made in Cloud? Meeting the Requirements of the Next Generation Neuroscience Research Using Configurable Cloud Infrastructure . National Science Foundation (NSF) Cloud Workshop, Dec 11-12, 2014
2013
Jayapandian, C.P., Chen, C.H., Bozorgi, A., Lhatoo, S.D., Zhang, G.Q. and Sahoo, S.S., 2013. Electrophysiological signal analysis and visualization using cloudwave for epilepsy clinical research. Studies in health technology and informatics, 192, p.817.
Sahoo, S.S., Zhang, G.Q. and Lhatoo, S.D., 2013. Epilepsy informatics and an ontology‐driven infrastructure for large database research and patient care in epilepsy. Epilepsia, 54(8), pp.1335-1341.
Lebo, T., Sahoo, S., McGuinness, D., Belhajjame, K., Cheney, J., Corsar, D., Garijo, D., Soiland-Reyes, S., Zednik, S. and Zhao, J., 2013. Prov-o: The prov ontology. W3C recommendation, 30.
Sahoo, S.S., Lhatoo, S.D., Gupta, D.K., Cui, L., Zhao, M., Jayapandian, C., Bozorgi, A. and Zhang, G.Q., 2014. Epilepsy and seizure ontology: towards an epilepsy informatics infrastructure for clinical research and patient care. Journal of the American Medical Informatics Association, 21(1), pp.82-89.
Parchman AJ, Zhang GQ, Mergler P, Barnholtz-Sloan J, Lanese R, Miller DW, Opper C,Sahoo SS, Tao S, Teagno J, Warfe J, Meropol NJ. Trial prospector: An automated clinical trials eligibility matching program . Proceedings of the American Society of Clinical
Asiaee, A.H., Doshi, P., Minning, T., Sahoo, S., Parikh, P., Sheth, A. and Tarleton, R.L., 2013. From questions to effective answers: On the utility of knowledge-driven querying systems for life sciences data. In Data Integration in the Life Sciences: 9th International Conference, DILS 2013, Montreal, QC, Canada, July 11-12, 2013. Proceedings 9 (pp. 38-45). Springer Berlin Heidelberg.
Sahoo, S.S., Jayapandian, C., Garg, G., Kaffashi, F., Chung, S., Bozorgi, A., Chen, C.H., Loparo, K., Lhatoo, S.D. and Zhang, G.Q., 2014. Heart beats in the cloud: distributed analysis of electrophysiological ‘Big Data’using cloud computing for epilepsy clinical research. Journal of the American Medical Informatics Association, 21(2), pp.263-271.
Jayapandian, C.P., Chen, C.H., Bozorgi, A., Lhatoo, S.D., Zhang, G.Q. and Sahoo, S.S., 2013. Cloudwave: distributed processing of “Big Data” from electrophysiological recordings for epilepsy clinical research using Hadoop. In AMIA Annual Symposium Proceedings (Vol. 2013, p. 691). American Medical Informatics Association.
Bozorgi, A., Chung, S., Kaffashi, F., Loparo, K.A., Sahoo, S., Zhang, G.Q., Kaiboriboon, K. and Lhatoo, S.D., 2013. Significant postictal hypotension: Expanding the spectrum of seizure‐induced autonomic dysregulation. Epilepsia, 54(9), pp.e127-e130.
Cui, L., Mueller, R., Sahoo, S. and Zhang, G.Q., 2013, September. Querying complex federated clinical data using ontological mapping and subsumption reasoning. In 2013 IEEE International Conference on Healthcare Informatics (pp. 351-360). IEEE.
2012
Parikh, P.P., Zheng, J., Logan-Klumpler, F., Stoeckert, C.J., Louis, C., Topalis, P., Protasio, A.V., Sheth, A.P., Carrington, M., Berriman, M. and Sahoo, S.S., 2012. The Ontology for Parasite Lifecycle (OPL): towards a consistent vocabulary of lifecycle stages in parasitic organisms. Journal of biomedical semantics, 3(1), pp.1-13.
Jayapandian, C.P., Zhao, M., Ewing, R.M., Zhang, G.Q. and Sahoo, S.S., 2012. A semantic proteomics dashboard (SemPoD) for data management in translational research. BMC systems biology, 6, pp.1-13.
Teagno, J., Kiefer, R.C., Pathak, J., Zhang, G.Q. and Sahoo, S.S., 2012. A Distributed Semantic Web Approach for Cohort Identification. In AMIA.
Zhang, G.Q., Luo, L., Ogbuji, C., Joslyn, C., Mejino, J. and Sahoo, S.S., 2012. An analysis of multi-type relational interactions in FMA using graph motifs with disjointness constraints. In AMIA Annual Symposium Proceedings (Vol. 2012, p. 1060). American Medical Informatics Association.
Cui, L., Bozorgi, A., Lhatoo, S.D., Zhang, G.Q. and Sahoo, S.S., 2012. EpiDEA: extracting structured epilepsy and seizure information from patient discharge summaries for cohort identification. In AMIA Annual Symposium Proceedings (Vol. 2012, p. 1191). American Medical Informatics Association.
Parikh, P.P., Minning, T.A., Nguyen, V., Lalithsena, S., Asiaee, A.H., Sahoo, S.S., Doshi, P., Tarleton, R. and Sheth, A.P., 2012. A semantic problem solving environment for integrative parasite research: Identification of intervention targets for Trypanosoma cruzi. PLoS neglected tropical diseases, 6(1), p.e1458.
Sahoo, S.S., Zhao, M., Luo, L., Bozorgi, A., Gupta, D., Lhatoo, S.D. and Zhang, G.Q., 2012. OPIC: ontology-driven patient information capturing system for epilepsy. In AMIA Annual Symposium Proceedings (Vol. 2012, p. 799). American Medical Informatics Association.
Jayapandian, C.P., Zhao, M., Ewing, R.M., Zhang, G.Q. and Sahoo, S.S., 2012. A semantic proteomics dashboard (SemPoD) for data management in translational research. BMC systems biology, 6, pp.1-13.
Zhang, G.Q., Sahoo, S.S. and Lhatoo, S.D., 2012. From classification to epilepsy ontology and informatics. Epilepsia, 53, pp.28-32.
2011
Sahoo, S.S., Ogbuji, C., Luo, L., Dong, X., Cui, L., Redline, S.S. and Zhang, G.Q., 2011. Midas: automatic extraction of a common domain of discourse in sleep medicine for multi-center data integration. In AMIA Annual Symposium Proceedings (Vol. 2011, p. 1196). American Medical Informatics Association.
Sahoo, S.S., 2011. Towards Desiderata for Provenance Ontologies in Biomedicine . In ICBO.
Mueller R, Sahoo SS, Dong X, Redline S, Arabandi S, Luo L, Zhang GQ. Mapping multi-institution data sources to domain ontology for data federation: the PhysioMIMI approach . AMIA Clinical Research Informatics Summit (CRI), 2011.
Zhang GQ, Mueller R, Jonhson N, Arabandi S, Sahoo SS, Redline S. Online Exploration of Case-control Study Designs in VISAGE . AMIA Clinical Research Informatics Summit (CRI), 2011.
Zhao, J., Sahoo, S.S., Missier, P., Sheth, A. and Goble, C., 2010. Extending semantic provenance into the web of data. IEEE Internet Computing, 15(1), pp.40-48.
Sahoo, S.S., Nguyen, V., Bodenreider, O., Parikh, P., Minning, T. and Sheth, A.P., 2011. A unified framework for managing provenance information in translational research . BMC bioinformatics, 12(1), pp.1-18.
2010
Missier P,Sahoo SS, Zhao J, Goble C, Sheth A. Janus: from workflows to semantic provenance and linked open data . The 3rd International Provenance and Annotation Workshop (IPAW), Lecture Notes in Computer Science, Vol. 6378/2010, 2010. pp. 129-141.
Deus H, Zhao J, Sahoo SS, Samwald M, Prud’hommeaux E, Miller M, Marshall MS, Cheung K. Provenance of Microarray Experiments for a Better Understanding of Experiment Results . The 2nd International Workshop on Role of Semantic Web in Provenance Management (
Patni H, Sahoo SS, Henson C, Sheth A. Provenance Aware Linked Sensor Data , The 2nd International Workshop on Trust and Privacy on the Social and Semantic Web, co-located with ESWC, 2010.
Sahoo SS, Groth P, Hartig O, Miles S, Coppens S, Myers J, Gil Y, Moreau L, Zhao J, Panzer M, Garijo D. Provenance Vocabulary Mappings . W3C Provenance Incubator Group Report, 2010.
Barga R, Simmhan Y, Chinthaka-Withana E, Sahoo SS, Jackson J, Araujo N. Provenance for Scientific Workflows Towards Reproducible Research . IEEE Data Engineering Bulletin, 2010. Vol. 33(3). pp. 50-58.
Sahoo SS, Bodenreider O, Hitzler P, Sheth AP, Thirunarayan K. Provenance Context Entity (PaCE): Scalable provenance tracking for scientific RDF data . The 22nd International Conference on Scientific and Statistical Database Management (SSDBM), 2010. pp. 46
2009
Sahoo SS, Halb W, Hellmann S, Idehen K, Thibodeau Jr. T, Auer S, Sequeda J, Ezzat A. A Survey of Current Approaches for Mapping of Relational Databases to RDF . W3C RDB2RDF Incubator Group Report, 2009. http://cci.case.edu/cci/images/0/04/RDB2RDF_SurveyRep
Sahoo SS, Weatherly DB, Mutharaju R, Anantharam P, Sheth AP, Tarleton RL. Ontology-driven Provenance Management in eScience: an Application in Parasite Research . The 8th International Conference on Ontologies, DataBases, and Applications of Semantics, (OD
Sahoo SS, Sheth A. Provenir ontology: Towards a Framework for eScience Provenance Management. Microsoft eScience Workshop, 2009. http://cci.case.edu/cci/images/7/7a/Framework_for_eScience_Provenance_Management_CR.pdf
2008
Valerio MD, Sahoo SS, Barga RS, Jackson JJ. Capturing Workflow Event Data for Monitoring, Performance Analysis, and Management of Scientific Workflows . SWBES08, co-located with the 4th IEEE International Conference on eScience, 2008. pp. 626-33. http://cc
Sahoo SS, Bodenreider O, Rutter JL, Skinner KJ, Sheth AP. An ontology-driven semantic mash-up of gene and biological pathway information: Application to the domain of nicotine dependence . Journal of Biomedical Informatics (Special Issue: Semantic Mashup o
Sahoo SS, Sheth AP, Henson C. Semantic Provenance for eScience: ‘Meaningful’ Metadata to Manage the Deluge of Scientific Data. IEEE Internet Computing, Web-Scale Workflow Track, M.B. Blake and M. Huhns (Eds.) , 2008. Vol. 12(4). pp.46-54. (Featured in Asso
Sheth A, Henson C,Sahoo SS. Semantic Sensor Web . IEEE Internet Computing, 2008. Vol. 12(4). pp. 78-83. http://cci.case.edu/cci/images/2/2a/SHS08-IC-Column-SSW.pdf
2007
Sahoo SS, Sheth A, Hunter B, York WS. SemBOWSER–Adding Semantics to biological Web services registry. Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences. Baker CJO, Cheung KO (Eds.) , Springer, 2007. pp. 317–40. http://cci.case.edu/cci/
Sahoo SS, Bodenreider O, Zeng K, Sheth AP. An experiment in integrating large biomedical knowledge resources with RDF: Application to associating genotype and phenotype information . International Workshop on Health Care and Life Sciences Data Integration
Sahoo SS, Zeng K, Bodenreider O, Sheth AP. From ‘glycosyltransferase’ to ‘congenital muscular dystrophy’: Integrating knowledge from NCBI Entrez Gene and the Gene Ontology . The 12th World Congress on Health (Medical) Informatics (Medinfo), 2007. pp. 1260–
2006
Sahoo SS, Thomas C, Sheth AP, York WS, Tartir S. Knowledge Modeling and Its Application in Life Sciences: A Tale of Two Ontologies . The 15th International World Wide Web (WWW) Conference, 2006. pp. 317-26 http://cci.case.edu/cci/images/f/f2/P1088-sahoo.pd
Sahoo SS, Sheth A. Bioinformatics applications of Web Services, Web Processes and role of Semantics. Semantic Web Processes and Their Applications. Cardoso J, Sheth A (Eds.) , Springer, 2006. pp. 305–22.
2005
Atwood III J,Sahoo SS, Alvarez-Manilla G, Weatherly DB, Kolli K, Orlando R, York WS. Rapid Communications Mass Spectrometry, 2005. Vol. 19(21). pp.3002-6. PMID: 16196021 https://www.ncbi.nlm.nih.gov/pubmed/16196021">Simple modification of a protein databa Simple modification of a protein database for mass spectral identification of N-linked glycopeptides
Sahoo SS, Thomas C, Sheth AP, Henson C, York WS. GLYDE-An expressive XML standard for the representation of glycan structure . Carbohydrate Research, 2005. Vol. 340(18). pp.2802-7. PMID: 16242678 https://www.ncbi.nlm.nih.gov/pubmed/16242678
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