Bio: Robotics, natural language processing, and machine learning have made amazing advances over the past few decades, with significant time and funding dedicated to development of countless applications of these fields. Nevertheless, no machine-based system can match the versatility or robustness of the human brain; human-created language and image processing systems are vastly inferior to their biological counterparts; and human decisions and mechanical actions remain the gold standard in the medical field. The goal of my research is to bridge the gap between the brain and machine applications through:
Zhang H, Polson J, Nael K, Salamon N, Yoo B, El-Saden S, Scalzo F, Speier W, Arnold CW. Intra-domain task-adaptive transfer learning to determine acute ischemic stroke onset time. Comput Med Imaging Graph. 2021 Jun;90:101926. doi: 10.1016/j.compmedimag.2021.101926. Epub 2021 Apr 24. PMID: 33934065.
Sheth J, Tankus A, Tran M, Pouratian N, Fried I, Speier W. Generalizing neural signal-to-text brain-computer interfaces. Biomed Phys Eng Express. 2021 Apr 30;7(3). doi: 10.1088/2057-1976/abf6ab. PMID: 33836507.
Raman AG,…, Speier W, Felker E, Sisk AE, Lu D, Kinnaird A, Reiter RE, Marks LS, Arnold CW. Optimizing Spatial Biopsy Sampling for the Detection of Prostate Cancer. J Urol. 2021 Apr 28:101097JU0000000000001832. doi: 10.1097/JU.0000000000001832. Epub ahead of print. PMID: 33908801.
Li J, Li W, Sisk A, Ye H, Wallace WD, Speier W, Arnold CW. A multi-resolution model for histopathology image classification and localization with multiple instance learning. Comput Biol Med. 2021 Apr;131:104253. doi: 10.1016/j.compbiomed.2021.104253. Epub 2021 Feb 10. PMID: 33601084; PMCID: PMC7984430.
Meng Y, Speier W, Ong MK, Arnold C. Bidirectional Representation Learning from Transformers using Multimodal Electronic Health Record Data to Predict Depression. IEEE J Biomed Health Inform. 2021 Mar 4;PP. doi: 10.1109/JBHI.2021.3063721. Epub ahead of print. PMID: 33661740.
Sarma KV, Harmon S, Sanford T, Roth H,…, Speier W, Arnold CW. Federated learning improves site performance in multicenter deep learning without data sharing. J Am Med Inform Assoc. 2021 Jun 12;28(6):1259-1264. doi: 10.1093/jamia/ocaa341. PMID: 33537772; PMCID: PMC8200268.
Johnson AA, Reidler JS, Speier W, Fuerst B, Wang J, Osgood GM. Visualization of Fluoroscopic Imaging in Orthopedic Surgery: Head-Mounted Display vs Conventional Monitor. Surg Innov. 2021 Jan 31:1553350620987978. doi: 10.1177/1553350620987978. Epub ahead of print. PMID: 33517863.
Meng Y, Speier W, Ong M, Arnold CW. HCET: Hierarchical Clinical Embedding With Topic Modeling on Electronic Health Records for Predicting Future Depression. IEEE J Biomed Health Inform. 2021 Apr;25(4):1265-1272. doi: 10.1109/JBHI.2020.3004072. Epub 2021 Apr 6. PMID: 32749975; PMCID: PMC8086808.
2020Dhinagar NJ, Speier W, Sarma KV, Raman A, Kinnaird A, Raman SS, Marks LS, Arnold CW. Semi-automated PIRADS scoring via mpMRI analysis. J Med Imaging (Bellingham). 2020 Nov;7(6):064501. doi: 10.1117/1.JMI.7.6.064501. Epub 2020 Dec 29. PMID: 33392358; PMCID: PMC7769753.
Sohn A, Speier W, Lan E, Aoki K, Fonarow GC, Ong MK, Arnold CW. Integrating remote monitoring into heart failure patients' care regimen: A pilot study. PLoS One. 2020 Nov 19;15(11):e0242210. doi: 10.1371/journal.pone.0242210. PMID: 33211733; PMCID: PMC7676713.
Parthasarathy N, Arnold CW, Pouratian N, Speier W. Optimizing P300 speller performance using language models for character and word prediction. IEEE International Conference on Bioinformatics and Bioengineering 2020. doi: 10.1109/BIBE50027.2020.00137.
Soetedjo J, Keluo-Udeke O, Arnold CW, Pouratian N, Speier W. Maintaining High Accuracy General P300 Speller Using the Language Modeling and Dynamic Stopping. IEEE International Conference on Bioinformatics and Bioengineering 2020. doi: 10.1109/BIBE50027.2020.00066.
Shufelt CL,…, Speier W, Lopez M, Mastali M, Mouapi K, van den Broek I, Wei J, Spiegel B, Van Eyk JE, Bairey-Merz CN. Biometric and Psychometric Remote Monitoring and Cardiovascular Risk Biomarkers in Ischemic Heart Disease. J Am Heart Assoc. 2020 Sep 15;9(18):e016023. doi: 10.1161/JAHA.120.016023. Epub 2020 Sep 8. PMID: 32896202; PMCID: PMC7726999.
Li W, Wang Z, Yue Y, Li J, Speier W, Zhou M, Arnold CW. Semi-supervised learning using adversarial training with good and bad samples. Machine Vision and Applications 2020; 31(6):1-11.
2019Comstock L, Tankus A, Tran M, Pouratian N, Fried I, Speier W. Developing a real-time translator from neural signals to text: An articulatory phonetics approach. Proceedings of the Society for Computation in Linguistics 2019; 2:37. doi: 10.7275/z2k5-r779.
Ho KC, Speier W, Zhang H, Scalzo F, El-Saden S, Arnold CW. A Machine Learning Approach for Classifying Ischemic Stroke Onset Time From Imaging. IEEE Trans Med Imaging. 2019 Jul;38(7):1666-1676. doi: 10.1109/TMI.2019.2901445. Epub 2019 Feb 25. PMID: 30802855; PMCID: PMC6661120.
Ho KC, Scalzo F, Sarma KV, Speier W, El-Saden S, Arnold CW. Predicting ischemic stroke tissue fate using a deep convolutional neural network on source magnetic resonance perfusion images. J Med Imaging (Bellingham). 2019 Apr;6(2):026001. doi: 10.1117/1.JMI.6.2.026001. Epub 2019 May 22. PMID: 31131293; PMCID: PMC6529818.
Speier W, Arnold CW, Chandravadia N, Roberts D, Pendekanti S, Marttini A, Pouratian N. A Self-paced P300 Speller with Improved Typing Speed Using Continuous Stimulus Presentations. Graz Brain-Computer Interface Conference 2019. doi: 10.3217/978-3-85125-682-6-63.
Li W, Wang Z, Li J, Polson J, Speier W, Arnold CW. Semi-supervised learning based on generative adversarial network: a comparison between good GAN and bad GAN approach. CVPR LID Workshop 2019. ArXiv:1905.06484.
Li J, Li W, Gertych A, Knudsen B, Speier W, Arnold CW. An attention-based multi-resolution model for prostate whole slide image classification and localization. CVPR 2019. ArXiv:1905.13208.
Meng Y, Speier W, Shufelt C, Joung S, E Van Eyk J, Bairey Merz CN, Lopez M, Spiegel B, Arnold CW. A Machine Learning Approach to Classifying Self-Reported Health Status in a Cohort of Patients With Heart Disease Using Activity Tracker Data. IEEE J Biomed Health Inform. 2020 Mar;24(3):878-884. doi: 10.1109/JBHI.2019.2922178. Epub 2019 Jun 11. PMID: 31199276; PMCID: PMC6904535.
Petousis P, Winter A, Speier W, Aberle DR, Hsu W, Bui AAT. Using Sequential Decision Making to Improve Lung Cancer Screening Performance. IEEE Access. 2019;7:119403-119419. doi: 10.1109/ACCESS.2019.2935763. Epub 2019 Aug 16. PMID: 32754420; PMCID: PMC7402617.
Sheth J, Tankus A, Tran M, Comstock L, Fried I, Speier W. Identifying input features for development of real-time translation of neural signals to text. Interspeech 2019: 869-873. September 2019. doi:10.21437/Interspeech.2019-3092.
Shufelt C,…, Speier W, Mastali M, Fu Q, Van Eyk JE, Spiegel B, Merz CNB. A protocol integrating remote patient monitoring patient reported outcomes and cardiovascular biomarkers. NPJ Digit Med. 2019 Sep 3;2:84. doi: 10.1038/s41746-019-0145-6. PMID: 31508495; PMCID: PMC6722086.
Parsi B, Speier W, Arnold CW, Lou M, Scalzo F. LSTM Network for Prediction of Hemorrhagic Transformation in Acute Stroke. Medical Image Computing and Computer-Assisted Intervention 2019; 11767: 177-185. October. DOI:10.1007/978-3-030-32251-9_20.
Sohn A, Speier W, Lan E, Aoki K, Fonarow G, Ong M, Arnold CW. Assessment of Heart Failure Patients' Interest in Mobile Health Apps for Self-Care: Survey Study. JMIR Cardio. 2019 Oct 29;3(2):e14332. doi: 10.2196/14332. PMID: 31758788; PMCID: PMC6851712.
2018Ho KC, Speier W, El-Saden S, Arnold CW. Classifying Acute Ischemic Stroke Onset Time using Deep Imaging Features. AMIA Annu Symp Proc. 2018 Apr 16;2017:892-901. PMID: 29854156; PMCID: PMC5977679.
Speier W, Arnold CW, Chandravadia N, Roberts D, Pendekanti S, Pouratian N. Improving P300 Spelling Rate using Language Models and Predictive Spelling. Brain Comput Interfaces (Abingdon). 2018;5(1):13-22. doi: 10.1080/2326263X.2017.1410418. Epub 2017 Dec 26. PMID: 30560145; PMCID: PMC6294452.
Tsolaki E, Downes A, Speier W, Elias WJ, Pouratian N. The potential value of probabilistic tractography-based for MR-guided focused ultrasound thalamotomy for essential tremor. Neuroimage Clin. 2018 Dec 12;17:1019-1027. doi: 10.1016/j.nicl.2017.12.018. PMID: 29527503; PMCID: PMC5842733.
Matiasz NJ, Wood J, Doshi P, Speier W, Beckemeyer B, Wang W, Hsu W, Silva AJ. ResearchMaps.org for integrating and planning research. PLoS One. 2018 May 3;13(5):e0195271. doi: 10.1371/journal.pone.0195271. PMID: 29723213; PMCID: PMC5933701.
Neufeld EV, Dolezal BA, Speier W, Cooper CB. Effect of altering breathing frequency on maximum voluntary ventilation in healthy adults. BMC Pulm Med. 2018 May 24;18(1):89. doi: 10.1186/s12890-018-0650-4. PMID: 29793460; PMCID: PMC5968560.
Speier W, Dzubur E, Zide M, Shufelt C, Joung S, Van Eyk JE, Bairey Merz CN, Lopez M, Spiegel B, Arnold CW. Evaluating utility and compliance in a patient-based eHealth study using continuous-time heart rate and activity trackers. J Am Med Inform Assoc. 2018 Oct 1;25(10):1386-1391. doi: 10.1093/jamia/ocy067. PMID: 29850807; PMCID: PMC6188512.
Li J, Speier W, Ho KC, Sarma KV, Gertych A, Knudsen BS, Arnold CW. An EM-based semi-supervised deep learning approach for semantic segmentation of histopathological images from radical prostatectomies. Comput Med Imaging Graph. 2018 Nov;69:125-133. doi: 10.1016/j.compmedimag.2018.08.003. Epub 2018 Sep 3. PMID: 30243216; PMCID: PMC6173982.
2017Speier W, Chandravadia N, Roberts D, Pendekanti S, Pouratian N. Online BCI Typing using Language Model Classifiers by ALS Patients in their Homes. Brain Comput Interfaces (Abingdon). 2017;4(1-2):114-121. doi: 10.1080/2326263X.2016.1252143. Epub 2016 Nov 15. PMID: 29051907; PMCID: PMC5644496.
Hollada J, Zide M, Speier W, Roter D. Readability assessment of PCORI public abstracts in relation to accessibility. Epidemiology 2017; 28(4):e37-e38. doi:10.1097/EDE.0000000000000650.
Speier W, Deshpande A, Cui L, Chandravadia N, Roberts D, Pouratian N. A comparison of stimulus types in online classification of the P300 speller using language models. PLoS One. 2017 Apr 13;12(4):e0175382. doi: 10.1371/journal.pone.0175382. PMID: 28406932; PMCID: PMC5391014.
