Conference Papers (Peer Reviewed)

44. S. Mimar^Ω, A. S. Paul^Ω, N. Lucarelli^†, S. P. Border^†, S. Devarasetty^†, P. K. Dande^†, U. Guttikonda^†, N. Yerra^†, L. Barisoni, J. Hodgin, A. Z. Rosenberg, W. Clapp, and P. Sarder, “ComPRePS: An automated cloud-based image analysis tool to democratize AI in digital pathology,” SPIE–Medical Imaging 2024: Digital & Computational Pathology, San Diego, CA, Feb. 21, 2024.

43. N. Lucarelli^†, Z. Laszik, S. Winfree, T. M. El-Achkar, M. T. Eadon, S. Jain, and P. Sarder, “Integration of CODEX and brightfield histology for cell type segmentation and classification using deep learning,” SPIE–Medical Imaging 2024: Digital & Computational Pathology, San Diego, CA, Feb. 21, 2024.

42. A. Naglah^§, A. S. Paul^Ω, R. M. Ferreira, A. Z. Rosenberg, S. S. Han, J. Ray, M. T. Eadon, and P. Sarder, “Correlation of glomerular histomorphometry changes with spatially resolved transcriptomic profiles in diabetic nephropathy,” SPIE–Medical Imaging 2024: Digital & Computational Pathology, San Diego, CA, Feb. 21, 2024.

41. J. Maragall^‡, N. Lucarelli^†, S. P. Border^†, M. J. Tan^†, S. Winfree, Z. Laszik, M. Eadon, T. M. El-Achkar, S. Jain, and P. Sarder, “CODEX and H&E imaging: cell type mapping, analysis, and visualization pipeline,” SPIE–Medical Imaging 2024: Digital & Computational Pathology, San Diego, CA, Feb. 21, 2024.

40. S. L. Kee, M. A. Sy, S. P. Border^†, N. Lucarelli^†, A. Gupta^†, P. Sarder, M. Masalunga, and M. J. Tan^†, “Predicting papillary renal cell carcinoma prognosis using integrative analysis of histopathological images and genomic data,” 10^th International Work-Conference on Bioinformatics and Biomedical Engineering, vol. 13920, pp: 1-14, Gran Canaria, Spain, Jul. 2023.

39. B. Ginley^§, N. Lucarelli^†, J. Zee, S. Jain, S. S. Han, L. Rodrigues, M. L. Wong, K. Y. Jen, and P. Sarder, “Automated reference kidney histomorphometry using a panoptic segmentation neural network correlates to patient demographics and creatinine,” Proc. of SPIE–Medical Imaging 2023: Digital & Computational Pathology, vol. 12471, pp. 1247166:1–5, San Diego, CA, Feb. 2023.

38. B. Lutnick^†, N. Lucarelli^†, and P. Sarder, “Generative modeling of histology tissue reduces human annotation effort for segmentation model development,” Proc. of SPIE–Medical Imaging 2023: Digital & Computational Pathology, vol. 12471, pp. 1247165:1–5, San Diego, CA, Feb. 2023.

37. B. Shickel, N. Lucarelli^†, A. Rao, D. Yun, K. C. Moon, S. S. Han, and P. Sarder, “Spatially aware transformer networks for contextual prediction of diabetic nephropathy progression from whole slide images,” Proc. of SPIE–Medical Imaging 2023: Digital & Computational Pathology, vol. 12471, pp. 1247119:1–12, San Diego, CA, Feb. 2023.

36. S. P. Border^†, A. Rosenberg, J. Zee, R. Levenson, K. Y. Jen, P. Sarder, and F. Fereidouni, “Improving quantification of renal fibrosis using deep-DUET,” Proc. of SPIE–Medical Imaging 2023: Digital & Computational Pathology, vol. 12471, pp. 1247115:1–5, San Diego, CA, Feb. 2023.

35. B. Lutnick^†, D. Manthey, J. U. Becker, J. E. Zuckerman, L. Rodrigues, K. Y. Jen, and P. Sarder, “A cloud-based tool for federated segmentation of whole slide images,” Proc. of SPIE–Medical Imaging 2022: Digital & Computational Pathology, vol. 12039, pp. 1203951:1–7, San Diego, CA, USA, Feb. 2022.

34. N. Kavthekar^†, B. Ginley^§, S. P. Border^†, N. Lucarelli^†, K. Y. Jen, and P. Sarder, “Automated tubular morphometric visualization for whole kidney biopsy,” Proc. of SPIE–Medical Imaging 2022: Digital & Computational Pathology, vol. 12039, pp. 1203948:1–7, San Diego, CA, USA, Feb. 2022.

33. N. Lucarelli^†, D. Yun, D. Han, B. Ginley^§, K. C. Moon, A. Rosenberg, J. E. Tomaszewski, S. S. Han, and P. Sarder, “Computational integration of renal histology and urinary proteomics using deep learning regression,” Proc. of SPIE–Medical Imaging 2022: Digital & Computational Pathology, vol. 12039, pp. 1203931:1–9, San Diego, CA, USA, Feb. 2022.

32. S. P. Border^†, B. Ginley^†, J. E. Tomaszewski, and P. Sarder, “HistoLens: A stand-alone tool for quantitative feature visualization of glomerular histology images,” Proc. of SPIE–Medical Imaging 2022: Digital & Computational Pathology, vol. 12039, pp. 1203929:1–8, San Diego, CA, USA, Feb. 2022.

31. D. Govind^†, S. Meamardoost, R. Yacoub, R. Gunawan, J. E. Tomaszewski, and P. Sarder, “Integrating image analysis with single cell RNA-seq data to study podocyte-specific changes in diabetic kidney disease,” Proc. of SPIE–Medical Imaging 2022: Digital & Computational Pathology, vol. 12039, pp. 1203927:X–X, San Diego, CA, USA, Feb. 2022.

30. K. Y. Jen^*, L. K. Murali^†,*, B. Lutnick^†, B. Ginley^†, D. Govind^†, H. Mori, G. Gao, and P. Sarder, “In silico multi-compartment detection based on multiplex immunohistochemical staining in renal pathology,” Proc. of SPIE–Medical Imaging 2021: Digital & Computational Pathology, vol. 11603, pp. 1160337:1–8, San Diego, CA, USA, Feb. 2021.

29. A. K. Shashiprakash^†, B. Lutnick^†, B. Ginley^†, D. Govind^†, N. Lucarelli^†, K. Y. Jen, A. Z. Rosenberg, A. Urisman, V. Walavalkar, J. E. Zuckerman, M. Delsante, M. L. Z. Bissonnette, J. E. Tomaszewski, D. Manthey, and P. Sarder, “A distributed system improves inter-observer and AI concordance in annotating interstitial fibrosis and tubular atrophy,” Proc. of SPIE–Medical Imaging 2021: Digital & Computational Pathology, vol. 11603, pp. 1160328:1–6, San Diego, CA, USA, Feb. 2021.

28. B. Lutnick^†, A. K. Shashiprakash^†, D. Manthey, and P. Sarder, “User friendly, cloud based, whole slide image segmentation,” Proc. of SPIE–Medical Imaging 2021: Digital & Computational Pathology, vol. 11603, pp. 1160316:1–6, San Diego, CA, USA, Feb. 2021.

27. D. Govind^†, B. A. Santo^†, B. Ginley^†, R. Yacoub, A. Z. Rosenberg, K. Y. Jen, V. Walavalkar, G. E. Wilding, A. M. Worral, I. Mohammad, and P. Sarder, “Automated detection and quantification of Wilms’ Tumor 1-positive cells in murine diabetic kidney disease,” Proc. of SPIE–Medical Imaging 2021: Digital & Computational Pathology, vol. 11603, pp. 1160312:1–7, San Diego, CA, USA, Feb. 2021.

26. D. Govind^†, K. Y. Jen, and P. Sarder, “Deep learning-based automated hot-spot detection and tumor grading in human gastrointestinal neuroendocrine tumor,” Proc. of SPIE–Medical Imaging 2020: Digital Pathology, vol. 11320, pp. 1132009:1–7, Houston, TX, USA, Feb. 2020.

25. L. K. Murali^†, B. Lutnick^†, B. Ginley^†, J. E. Tomaszewski, and P. Sarder, “Generative modeling for renal microanatomy,” Proc. of SPIE–Medical Imaging 2020: Digital Pathology, vol. 11320, pp. 1132040:1–10, Houston, TX, USA, Feb. 2020.

24. K. E. Maraszek^‡, B. A. Santo^†, R. Yacoub, J. E. Tomaszewski, I. Mohammad, A. M. Worral, and P. Sarder, “The presence and location of podocytes in glomeruli as affected by diabetes mellitus,” Proc. of SPIE–Medical Imaging 2020: Digital Pathology, vol. 11320, pp. 1132012:1–10, Houston, TX, USA, Feb. 2020.

23. S. P. Border^†, K. Y. Jen, W. L. C. dos-Santos, J. E. Tomaszewski, and P. Sarder, “Probabilistic modelling of diabetic nephropathy progression,” Proc. of SPIE–Medical Imaging 2020: Digital Pathology, vol. 11320, pp. 1132018:1–10, Houston, TX, USA, Feb. 2020.

22. B. A. Santo^†, B. H. Segal, J. E. Tomaszewski, I. Mohammad, A. M. Worral, S. Jain, M. Visser, and P. Sarder, “Neutrophil Extracellular Traps (NETs): an unexplored territory in renal pathobiology, a pilot computational study,” Proc. of SPIE–Medical Imaging 2020: Digital Pathology, vol. 11320, pp. 1132022:1–7, Houston, TX, USA, Feb. 2020.

21. B. Ginley^†, K. Y. Jen, A. Rosenberg, G. M. Rossi, S. Jain, and P. Sarder, “Fully automated classification of glomerular lesions in lupus nephritis,” Proc. of SPIE–Medical Imaging 2020: Digital Pathology, vol. 11320, pp. 1132005:1–7, Houston, TX, USA, Feb. 2020.

20. B. Lutnick^†, B. Ginley^†, K. Y. Jen, W. Dong, and P. Sarder, “Generative modeling for label-free glomerular modeling and classification,” Proc. of SPIE–Medical Imaging 2020: Digital Pathology, vol. 11320, pp. 1132008:1–6, Houston, TX, USA, Feb. 2020.

19. S. Dhiman^†, I. Singh, and P. Sarder, “Computational analysis of cerebrovascular structures imaged using two-photon microscopy,” Proc. of SPIE–Medical Imaging 2019: Digital Pathology, vol. 10956, pp. 1095617:1–6, San Diego, CA, USA, Feb. 2019.

18. A. Majumdar^†, K. Y. Jen, S. Jain, J. E. Tomaszewski, and P. Sarder, “Examining structural patterns and causality in diabetic nephropathy using inter-glomerular distance and Bayesian graphical models,” Proc. of SPIE–Medical Imaging 2019: Digital Pathology, vol. 10956, pp. 1095608:1–6, San Diego, CA, USA, Feb. 2019.

17. D. Govind^†, B. Ginley^†, B. Lutnick^†, J. E. Tomaszewski, and P. Sarder, “Glomerular detection and segmentation from multimodal microscopy images using a Butterworth band-pass filter,” Proc. of SPIE–Medical Imaging 2018: Digital Pathology, vol. 10581, pp. 10158114:1–7, Houston, TX, USA, Feb. 2018.

16. B. Lutnick^†, R. Yacoub, K. Y. Jen, J. E. Tomaszewski, S. Jain, and P. Sarder, “Deep variational auto-encoders for unsupervised glomerular classification,” Proc. of SPIE–Medical Imaging 2018: Digital Pathology, vol. 10581, pp. 1015810C:1–7, Houston, TX, USA, Feb. 2018.

15. O. Simon^†, R. Yacoub, S. Jain, J. E. Tomaszewski, and P. Sarder, “Examining structural changes in diabetic nephropathy using inter-nuclear distances in glomeruli: A comparison of variously automated methods,” Proc. of SPIE–Medical Imaging 2018: Digital Pathology, vol. 10581, pp. 1015810B:1–10, Houston, TX, USA, Feb. 2018.

14. B. Ginley^†, J. E. Tomaszewski, K. Y. Jen, A. Fogo, S. Jain, and P. Sarder, “Computational analysis of the structural progression of human diabetic nephropathy glomeruli,” Proc. of SPIE–Medical Imaging 2018: Digital Pathology, vol. 10581, pp. 1015810A:1–7, Houston, TX, USA, Feb. 2018.

13. K. Black, M. Zhou, P. Sarder, M. Kuchuk, A. Al-Yasiri, S. Gunsten, K. Liang, H. Hennkens, W. Akers, R. Laforest, S. Brody, C. Cutler, and S. Achilefu, “Dual-radiolabeled nanoparticle probes for depth-independent in vivo imaging of enzyme activation,” Proc. of SPIE–Reporters, Markers, Dyes, Nanoparticles, and Molecular Probes for Biomedical Applications, vol. 10508, pp. 1050805:1–5, San Francisco, CA, USA, Jan. 2018.

12. B. Lutnick^†, J. E. Tomaszewski, and P. Sarder, “Leveraging unsupervised training sets for multi-scale compartmentalization in renal pathology,” Proc. of SPIE–Medical Imaging 2017: Digital Pathology, vol. 10140, pp. 101400I:1–7, Orlando, FL, USA, Feb. 2017.

11. B. Ginley^†, J. E. Tomaszewski, and P. Sarder, “Automatic computational labeling of glomerular textural boundaries,” Proc. of SPIE–Medical Imaging 2017: Digital Pathology, vol. 10140, pp. 101400G:1–7, Orlando, FL, USA, Feb. 2017.

10. B. Ginley^†, T. Emmons, P. Sasankan, C. Urban, B. H. Segal, and P. Sarder, “Identification and characterization of neutrophil extracellular trap shapes in flow cytometry,” Proc. of SPIE–Medical Imaging 2017: Digital Pathology, vol. 10140, pp. 101400D:1–7, Orlando, FL, USA, Feb. 2017.

9. P. Sarder, B. Ginley^‡, and J. E. Tomaszewski, “Automated renal histopathology: Digital extraction and quantification of renal pathology,” Proc. of SPIE–Medical Imaging 2016: Digital Pathology, vol. 9791, pp. 97910F:1–12, San Diego, CA, USA, Mar. 2016.

8. D. Hu^*, P. Sarder^*, P. Ronhovde, S. Achilefu, and Z. Nussinov, “Community detection for fluorescent lifetime microscopy image segmentation,” Proc. of SPIE–Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XXI, vol. 8949, pp. 89491K:1–13, San Francisco, CA, USA, Feb. 2014.

7. D. Maji, M. Zhou, P. Sarder, and S. Achilefu, “Near-infrared fluorescence quenching properties of copper (II) ions for potential applications in biological imaging,” Proc. of SPIE–Reporters, Markers, Dyes, Nanoparticles, and Molecular Probes for Biomedical Applications, vol. 8956, pp. 89560K:1–6, San Francisco, CA, USA, Feb. 2014.

6. P. Sarder, W. Akers, G. Sudlow, S. Yazdanfar, and S. Achilefu “Quantitative determination of maximal imaging depth in all-NIR multiphoton microscopy images of thick tissues,” Proc. of SPIE–Multiphoton Microscopy in the Biomedical Sciences XIV, vol. 8948, pp. 894827:1–7, San Francisco, CA, USA, Feb. 2014.

5. X. Xu, Z. Li, N. Kotagiri, P. Sarder, S. Achilefu, and A. Nehorai, “Microfluidic microsphere-trap arrays for simultaneous detection of multiple targets,” Proc. of SPIE–Microfluidics, BioMEMS, and Medical Microsystems XI, vol. 8615, pp. 86151E:1–11, San Francisco, CA, USA, Feb. 2013.

4. X. Xu^*, P. Sarder^*, Z. Li^*, and A. Nehorai, “Optimization of microfluidic trap-based microsphere arrays,” Proc. of SPIE–Microfluidics, BioMEMS, and Medical Microsystems XI, vol. 8615, pp. 86150V:1–12, San Francisco, CA, USA, Feb. 2013.

3. X. Xu, P. Sarder, and A. Nehorai, “Statistical design of position-encoded microsphere arrays at low target concentrations,” 45^th Asilomar Conf. on Signals, Systems, and Computers, pp. 1694–1698, Pacific Grove, CA, USA, Nov. 2011.

2. P. Sarder, and A. Nehorai, “Statistical design of a 3D microarray with position-encoded microspheres,” Proc. Third International Workshop on Computational Advances in Multi-Sensor Adaptive Processing (CAMSAP), pp. 161–164, Aruba, Dutch Antilles, Dec. 2009.

1. P. Sarder, and A. Nehorai, “Performance analysis of quantifying fluorescence of target-captured microparticles from microscopy images,” Proc. Fourth IEEE Workshop on Sensor Array and Multi-Channel Processing, pp. 289–293, Waltham, MA, USA, Jul. 2006.