Pinaki Sarder PhD
Pinaki Sarder
PhD
Assistant Professor
Department of Pathology and Anatomical Sciences
Jacobs School of Medicine & Biomedical Sciences
Specialty/Research Focus
Bioinformatics; Biomedical Image Analysis; Biomedical Imaging
Professional Summary:
I have worked in three distinct research domains in my career: analytical statistical signal processing, experimental molecular imaging, and genomic data analysis. I collaborate with researchers from both academia and industry in multiple disciplines, including theoretical and applied physics, biochemistry, cell biology, molecular biology, and medicine. This multidisciplinary, cross-sector experience has given me unique skills and tools for successfully executing the goals of my laboratory.
The major projects in my laboratory are focused on quantitative biomedical image processing and analysis. I am also interested in developing end-user biomedical software. This work will build on my previous research and expand into translational research that will directly support human health.
At present, major projects in our lab are centered on developing computational methods to analyze histopathological images of the heterogeneous renal microscopic architecture. Using the developed computational tools, we are expecting to unearth early digital biomarkers of diabetic nephropathy (DN). Tools derived in our projects will allow modeling of clinical outcomes, such as end-stage renal disease and death, for DN patients and will also provide clinicians with invaluable information about their patient's expected disease trajectory and progression.
Our laboratory is woven strongly into the Department of Pathology and Anatomical Sciences' innovative research and teaching directions that integrate anatomy, pathology, and data analysis. Departmental faculty members participate in both graduate biomedical and medical programs; as part of that effort, I seek motivated trainees/students to work in my research group to focus on our novel research direction. I believe that teaching and research greatly complement each other, and I emphasize equally teaching in the classroom and guiding students in my research lab.
Education and Training:
- Postdoctoral Fellow, Optical Radiology, Washington University in St. Louis, School of Medicine (2015)
- Fellowship, Biostatistics, Harvard University, School of Public Health (2011)
- MS, Electrical Engineering, Washington University in St. Louis (2010)
- PhD, Electrical Engineering, Washington University in St. Louis (2010)
- BS, Electrical Engineering, Indian Institute of Technology, Kanpur (2003)
Employment:
- Assistant Professor, Pathology and Anatomical Sciences, University at Buffalo, The State University of New York (2015-present)
Awards and Honors:
- First author of one of the 10 best "Editors‘ Pick" articles in 2012-13 in Biomicrofluidics journal from American Institute of Physics (2014)
- Recipient, Travel Grant, Foundation for the National Institutes of Health, 2010 Human Microbiome Research Conference, St. Louis, Missouri, USA (2010)
- Marshal, School of Engineering and Applied Science, Washington University in St. Louis, Commencement (2010)
- Recipient, Imaging Sciences Pathway program Graduate Student Fellowship, Washington University School of Medicine (2007)
Research Expertise:
- Digital Pathology
- Image Analysis
- Image Processing
Research Centers:
- Center of Excellence in Bioinformatics and Life Sciences
- Center for Computational Research (CCR)
Grants and Sponsored Research:
- November 2017–October 2018
Computational Imaging of Renal Structures for Diagnosing Diabetic Nephropathy
Augusta University (Subcontract of NIH/NIDDK Grants DK076169 & DK115255)
Role: Principal Investigator
$100,000 - January 2017–June 2018
Automated Digital Image Analysis of Microscopic Renal Structures for Early Diagnosis of Proteinuric Renal Disease
University at Buffalo
Role: Principal Investigator
$25,000
Journal Articles:
- Simon O, Yacoub R, Jain S, Tomaszewski JE, Sarder P. Multi-radial LBP Features as a Tool for Rapid Glomerular Detection and Assessment in Whole Slide Histopathology Images. Sci Rep. 2018; 8(1).
- Ginley BG, Emmons T, Lutnick B, Urban CF, Segal BH, Sarder P. Computational detection and quantification of human and mouse neutrophil extracellular traps in flow cytometry and confocal microscopy. Sci Rep. 2017; 7(1).
- Narla ST, Lee YW, Benson CA, Sarder P, Brennand KJ, Stachowiak EK, Stachowiak MK. Common developmental genome deprogramming in schizophrenia - Role of Integrative Nuclear FGFR1 Signaling (INFS). Schizophr Res. 2017; 185.
- Ginley, B, Tomaszewski JE, Yacoub R, Chen F, Sarder P. Unsupervised labeling of glomerular boundaries using Gabor filters and statisical testing in renal histology epub. 2017.
- Lutnick, B, Tomaszewski JE, Sarder P. Leveraging Unsupervised Training Sets for Multi-Scale Compartmentization in Renal Pathology. Proc SPIE Medical Imaging. 2017.
- Ginley, B, Tomaszewski JE, Sarder P. Automatic computational labeling of glomerular textural boundaries.. Digital Pathology. 2017.
- Sarder P, Ginley B, Tomaszewski J. Automated renal histopathology: Digital extraction and quantification of renal pathology. Proc SPIE. 2016; 9791.
- Sarder P, Grinley, B, Tomaszewski JE. Automated renal histopathology: Digital extraction and quantification of renal pathology.. SPIE. 2016.
- Gilson RC, Tang R, Som A, Klajer C, Sarder P, Sudlow GP, Akers WJ, Achilefu S. Protonation and Trapping of a Small pH-Sensitive Near-Infrared Fluorescent Molecule in the Acidic Tumor Environment Delineate Diverse Tumors in Vivo. Mol Pharm. 2015; 12(12).
- Ringhausen E, Wang T, Pitts J, Sarder P, Akers WJ. Evaluation of Dynamic Optical Projection of Acquired Luminescence for Sentinel Lymph Node Biopsy in Large Animals. Technol Cancer Res Treat. 2015.
- Sarder P, Maji D, Achilefu S. Molecular Probes for Fluorescence Lifetime Imaging. Bioconjug Chem. 2015; 26(6).
- Hu D*, Sarder P*, Ronhovde P, Achilefu S, Nussinov Z. Community detection for fluorescent lifetime microscopy image segmentation. Proc SPIE. 2014; 8949.
- Sarder P, Akers W, Sudlow G, Yazdanfar S, Achilefu S. Quantitative determination of maximal imaging depth in all-NIR multiphoton microscopy images of thick tissues. Proc SPIE. 2014; 8948.
- Hu D*, Sarder P*, Ronhovde P, Orthaus S, Achilefu S, Nussinov Z. Automatic segmentation of fluorescence lifetime microscopy images of cells using multiresolution community detection--a first study. J Microsc. 2014; 253(1).
- Xu X, Li Z, Sarder P, Kotagori N, Nehorai A. Simultaneous detection of multiple biological targets using optimized microfluidic microsphere-trap arrays. J Micro/Nanolith MEMS MOEMS. 2014; 13(1).
- Sarder P, Gullicksrud K, Mondal S, Sudlow GP, Achilefu S, Akers WJ. Dynamic optical projection of acquired luminescence for aiding oncologic surgery. J Biomed Opt. 2013; 18(12).
- Sarder P, Yazdanfar S, Akers WJ, Tang R, Sudlow GP, Egbulefu C, Achilefu S. All-near-infrared multiphoton microscopy interrogates intact tissues at deeper imaging depths than conventional single- and two-photon near-infrared excitation microscopes. J Biomed Opt. 2013; 18(10).
- Xu X, Sarder P, Kotagiri N, Achilefu S, Nehorai A. Performance analysis and design of position-encoded microsphere arrays using the Ziv-Zakai bound. IEEE Trans Nanobioscience. 2013; 12(1).
- Xu X*, Sarder P*, Li Z*, Nehorai A. Optimization of microfluidic microsphere-trap arrays. Biomicrofluidics. 2013; 7(1).
- Nothdurft R*, Sarder P*, Bloch S, Culver J, Achilefu S. Fluorescence lifetime imaging microscopy using near-infrared contrast agents. J Microsc. 2012; 247(2).
- Sarder P, Nehorai A. Statistical design of position-encoded microsphere arrays. IEEE Trans Nanobioscience. 2011; 10(1).
- Sarder P, Schierding W, Cobb JP, Nehorai A. Estimating sparse gene regulatory networks using a bayesian linear regression. IEEE Trans Nanobioscience. 2010; 9(2).
- Sarder P, Nehorai A. Estimating locations of quantum-dot-encoded microparticles from ultra-high density 3-D microarrays. IEEE Trans Nanobioscience. 2008; 7(4).
- Sarder P, Nehorai A, Davis PH, Stanley SL. Estimating gene signals from noisy microarray images. IEEE Trans Nanobioscience. 2008; 7(2).
- Sarder P, Nehorai A. Deconvolution methods for 3D fluorescence microscopy images: An overview. IEEE Signal Process Mag. 2006; 23(3).
Books and Book Chapters:
- Sarder P, Zhang W, Cobb JP, Nehorai A. Gene reachability using Page ranking on gene co-expression networks. Link Mining: Models, Algorithms, and Applications. 2010.
Presentations:
- "Automated quanti cation of glomeruli features in renal pathology" SPIE Medical Imaging, SPIE, Digital Pathology (2016)
- "Automatic segmentation of fluorescence lifetime microscopy images of cells using multi-resolution community detection" SPIE BiOS, SPIE, Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XXI (2014)
- "Comparison of near-infrared confocal and multiphoton microscopy modalities in deep tissue imaging using cyanine contrast agents" SPIE BiOS, SPIE, Multiphoton Microscopy in the Biomedical Sciences XIV (2014)
- "Dynamic projection of fluorescence molecular imaging information for aiding oncologic surgery" 2013 World Molecular Imaging Congress (2013)
Service Activities:
- Journal of Medical Imaging & Health Informatics; Associate Editor (2015–present)
- Program Committee, 2015 IEEE International Workshop on Machine Learning for Signal Processing; Member (2015)
- Technical Program Committee, International Conference on Energy, Power, and Environment: Towards Sustainable Growth (IEEE Technically Co-Sponsored); Member (2015)
- Faculty Diversity and Inclusion Committee, School of Medicine & Biomedical Sciences, University at Buffalo; Department Representative (2015–present)