Polarization sensitive photothermal mid-infrared spectroscopic imaging of human bone marrow tissue
Rupali Mankar, Chalapathi Charan Gajjela, Carlos E. Bueso-Ramos, C. Cameron Yin, David Mayerich, and Rohith K. Reddy
Applied Spectroscopy
March
2022
https://doi.org/10.1177%2F00037028211063513
Prostacyclin promotes degenerative pathology in a model of Alzheimer’s disease
Tasha Womack, Craig Vollert, Odochi Nwoko, Monika Schmitt, Saghi Montazari, Tina Beckett, David Mayerich, Paul Murphy, Jason Eriksen
Frontiers in Cellular Neuroscience
February
2022
https://doi.org/10.3389/fncel.2022.769347
Probe the Localized Electrochemical Environment Effects and Electrode Reaction Dynamics for Metal Batteries using In Situ 3D Microscopy
Guangxia Feng, Jiaming Guo, Huajun Tian, Zhao Li, Yaping Shi, David Mayerich, Yang Yang, Xiaonan Shan
Advanced Energy Materials
December
2021
https://doi.org/10.1002/aenm.202103484
Multimodal high-resolution embryonic imaging with light sheet fluorescence microscopy and optical coherence tomography
Behzad Khajavi, Ruijiao Sun, Harshdeep Singh Chawla, Henry H. Le, Manmohan Singh, Alexander W. Schill, Mary E. Dickinson, David Mayerich, Kirill V. Larin
Optics Letters
August
2021
https://doi.org/10.1364/OL.430202
Multi-Modal Image Sharpening in Fourier Transform Infrared (FTIR) Microscopy
Rupali Mankar, Chalapathi Gajjela, Farideh Foroozandeh, Saurabh Prasad, David Mayerich, Rohith Reddy, Jason Eriksen, Badrinath Roysam, David Mayerich
Analyst
April
2021
https://doi.org/10.1039/D1AN00103E
Segmenting Continuous but Sparsely-Labeled Structures in Super-Resolution Microscopy Using Perceptual Grouping
Jiabing Li, Camille Artur, Jason Eriksen, Badrinath Roysam, David Mayerich
Lecture Notes in Computer Science, Proceedings of the International Conference on Medical Image Computing and Computer-Assisted Intervention
12265, 141-150
September
2020
https://doi.org/10.1007/978-3-030-59722-1_14
Artificial intelligence and machine learning in nephropathology
Jan U. Becker, David Mayerich, Jonathan Barratt, Peter Boor, Chandra Mohan, Hien V. Nguyen, Badrinath Roysam
Kidney International
9(1):65-75
July
2020
https://doi.org/10.1016/j.kint.2020.02.027
https://pubmed.ncbi.nlm.nih.gov/32475607/
Spontaneous Formation of 2D/3D Heterostructures on the Edges of 2D Ruddlesden-Popper Hybrid Perovskite Crystals
Zhaojun Qin, Shenyu Dai, Chalapathi Charan Gajjela, Chong Wang, Viktor Hadjiev, Guang Yang, Jiabing Li, Xin Zhong, Zhongjia Tang, Yan Yao, Arnold Guloy, Rohith Reddy, David Mayerich, Liangzi Deng, Qingkai Yu, Guoying Feng, Hector Calderon, Francisco Hernandez, Zhiming Wang, Jiming Bao
Chemistry of Materials
May
2020
https://doi.org/10.1021/acs.chemmater.0c00419
Photoluminescence Mapping and Time-Domain Thermo-Photoluminescence for Rapid Imaging and Measurement of Thermal Conductivity of Boron Arsenide
Shuai Yue, Geethal Amila Gamage, Mohammadjavad Mohebinia, David Mayerich, Vishal Talari, Yu Deng, Fei Tian, Shen-Yu Dai, Haoran Sun, Viktor Hadjiev, Wei Zhang, Guoying Geng, Jonathan Hu, Dong Liu, Zhiming Want, Zhifeng Ren, Jiming Bao
Materials Today Physics
13:100194
February
2020
https://doi.org/10.1016/j.mtphys.2020.100194
Reconstructing the angiome: a new platform for characterizing disease progression and drug efficacy
Pavel Govyadinov, Jiaming Guo, Guoning Chen, Jason Eriksen, David Mayerich
SPIE
SPIE Photonics West
February
2020
https://doi.org/10.1021/acs.analchem.9b03015
Automated Osteosclerosis Grading of Clinical Biopsies Using Infrared Spectroscopic Imaging
Rupali Mankar, Carlos E. Bueso-Ramos, C. Cameron Yin, Juliana Elisa Hidalgo-Lopez, Sebastian Berisha, Mustafa Kansiz, David Mayerich
Analytical Chemistry
2020
https://doi.org/10.1021/acs.analchem.9b03015
Multiplex protein-specific microscopy with ultraviolet surface excitation
Jiaming Guo, Camille Artur, Tasha Womack, Jason Eriksen, David Mayerich
Biomedical Optics Express
11(1), 99-108
2020
https://doi.org/10.1364/BOE.11.000099
https://www.ncbi.nlm.nih.gov/pubmed/32010503
Three-dimensional macro-scale micro-structure imaging with deep ultraviolet excitation
Jiaming Guo, Camille Artur, Jason Eriksen, David Mayerich
SPIE
SPIE/COS Photonics Asia, Hangzhou, China
November
2019
https://doi.org/10.1117/12.2538364
Three-Dimensional Microscopy by Milling with Ultraviolet Excitation
Jiaming Guo, Camille Artur, Jason Eriksen, David Mayerich
Nature Scientific Reports
251:58:00
October
2019
https://doi.org/10.1038/s41598-019-50870-1
Three-Dimensional GPU-Accelerated Active Contours for Automated Localization of Cells in Large Images
Mahsa Lotfollahi, Sebastian Berisha, Leila Saadatifard, Laura Montier, Jokubas Ziburkus, David Mayerich
PLoS ONE
14(6):e0215843
June
2019
https://doi.org/10.1371/journal.pone.0215843
https://www.ncbi.nlm.nih.gov/pubmed/31173591
Digital Staining of High-Definition FTIR Images Using Deep Learning
Mahsa Lotfollahi, Sebastian Berisha, Davar Daeinejad, David Mayerich
Applied Spectroscopy
73(5):556–564
May
2019
https://www.ncbi.nlm.nih.gov/pubmed/30657342
Robust Tracing and Visualization of Heterogeneous Microvascular Networks
Pavel Govyadinov, Tasha Womack, Jason Eriksen, Guoning Chen, David Mayerich
IEEE Transactions on Visualization and Computer Graphics
25(4):1760-1773
April
2019
https://doi.org/10.1109/TVCG.2018.2818701
Accurate flow in augmented networks (AFAN): An approach to generating three-dimensional biomimetic microfluidic networks with controlled flow
Jiaming Guo, Keely A. Keller, Pavel Govyadinov, Paul Ruchhoeft, John. H. Slater, and David Mayerich
Analytical Methods
11:8-16
2019
https://doi.org/10.1039/c8ay01798k
https://www.ncbi.nlm.nih.gov/pubmed/31490456
Deep learning for FTIR histology: leveraging spatial and spectral features with convolutional neural networks
Sebastian Berisha, Mahsa Lotfollahi, Jahandar Jahanipour, Ilker Gurcan, Michael Walsh, Rohit Bhargava, Hien Van Nguyen, and David Mayerich
Analyst
144:1642-1653
February
2019
https://www.ncbi.nlm.nih.gov/pubmed/30644947
TIMING 2.0: High-throughput single-cell profiling of dynamic cell-cell interactions by time-lapse imaging microscopy in nanowell gids
Hengyang Lu, Jiabing Li, Melisa Martinez Paniagua, Irfan Bandey, Amit Amritkar, Harjeet Singh, David Mayerich, Navin Varadarajan, Badrinath Roysam
Bioinformatics
35(4):706-708
February
2019
https://www.ncbi.nlm.nih.gov/pubmed/30084956
Planar Alignment of Graphene Sheets by a Rotating Magnetic Field for Full Exploitation of Graphene as a 2D Material
Feng Lin, Guang Yang, Chao Niu, Yanan Wang, Zhuan Zhu, Haokun Luo, Chong Dai, Yandi Hu, Xufeng Zhou, Zhaoping Liu, Jonathan Hu, Zhiming Wang, David Mayerich, Jiming Bao
Advanced Functional Materials
28(46)
November
2018
Numerical Methods in Practice: A Programming Guide to Numerical Computing Using C and Python
Application of Vibrational Spectroscopy and Imaging to Point-of-Care Medicine: A Review
Susanne Pahlow, Karina Weber, Jurgen Popp, Bayden R. Wood, Kamila Kochan, Anja Ruther, David Perez-Guaita, Philip Heraud, Nick Stone, Alex Dudgeon, Ben Gardner, Rohith Reddy, David Mayerich, Rohit Bhargava
Applied Spectroscopy
72(1_suppl):52-84
2018
https://doi.org/10.1177/0003702818791939
https://www.ncbi.nlm.nih.gov/pubmed/30265133
Mitigating fringing in discrete-frequency infrared imaging using time-delayed integration
Shihao Ran, Sebastian Berisha, Rupali Mankar, Wei-Chuan Shih, David Mayerich
Biomedical Optics Express
9(2):832-843
2018
https://doi.org/10.1364/BOE.9.000832
https://www.ncbi.nlm.nih.gov/pubmed/29552416
Selecting optimal features from Fourier transform infrared spectroscopy for discrete-frequency imaging
Rupali Mankar, Michael Walsh, Rohit Bhargava, Saurabh Prasad, David Mayerich
Analyst
143:1147-1156
2018
https://doi.org/10.1039/c7an01888f
https://www.ncbi.nlm.nih.gov/pubmed/29404544
Plasmonic nanoparticle-based expansion microscopy with surface-enhanced Raman and dark-field spectroscopic imaging
Camille Artur, Tasha Womack, Fusheng Zhao, Jason Eriksen, David Mayerich, Wei-Chuan Shih
Biomedical Optics Express
9(2):603-615
2018
https://doi.org/10.1364/BOE.9.000603
https://www.ncbi.nlm.nih.gov/pubmed/29552397
Comparison and combination of rotational imaging optical coherence tomography and selective plane illumination microscopy for embryonic study
Chen Wu, Henry Le, Shihao Ran, Manmohan Singh, Irina V. Larina, David Mayerich, Mary E. Dickinson, Kirill V. Larin
Biomedical Optics Express
8(10):4629-4639
2017
https://doi.org/10.1364/BOE.8.004629
https://www.ncbi.nlm.nih.gov/pubmed/29082090
BIM-Sim: Interactive Simulation of Broadband Imaging Using Mie Theory
Sebastian Berisha, Thomas van Dijk, Rohit Bhargava, P. Scott Carney, and David Mayerich
Frontiers in Physics
5:5
February
2017
https://doi.org/10.3389/fphy.2017.00005
https://www.ncbi.nlm.nih.gov/pubmed/29170738
SIproc: an open-source biomedical data processing platform for large hyperspectral images
Sebastian Berisha, Shengyuan Chang, Sam Saki, Davar Daeinejad, Ziqi He, Rupali Mankar, and David Mayerich
Analyst
142(8): 1350-1357
April
2017
https://doi.org/10.1039/c6an02082h
https://www.ncbi.nlm.nih.gov/pubmed/27924319
Image-Guided, Laser-Based Fabrication of Vascular-Derived Microfluidic Networks
Keely Heintz, David Mayerich, and John Slater
Journal of Visualized Experiments
(119): e55101
January
2017
https://doi.org/10.3791/55101
https://www.ncbi.nlm.nih.gov/pubmed/28117805
A dual-modality optical coherence tomography and selective plane illumination microscopy system for mouse embryonic imaging
Chen Wu, Shihao Ran, Henry Le, Manmohan Singh, Irina Larina, David Mayerich, Mary Dickinson, and Kirill Larin
IEEE
39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society
2017
Multimodal embryonic imaging using optical coherence tomography, selective plane illumination microscopy, and optical projection tomography
Manmohan Singh, Chen Wu, David Mayerich, Mary Dickinson, Irina Larina, and Kirill Larin
IEEE
IEEE Engineering in Medicine and Biology Society (EMBC)
August
2016
https://doi.org/10.1109/EMBC.2016.7591585
https://www.ncbi.nlm.nih.gov/pubmed/28269143
Comparison of rotational imaging optical coherence tomography and selective plane illumination microscopy for embryonic study
Chen Wu, Shihao Ran, Henry Le, Manmohan Singh, Irina Larina, David Mayerich, Mary Dickinson, Kirill Larin
SPIE
Proceedings SPIE, Optical Methods in Developmental Biology IV
March
2016
High definition infrared spectroscopic imaging for lymph node histopathology
L. Suzanne Leslie, Tomasz P. Wrobel, David Mayerich, Snehal Bindra, Rajyasree Emmadi, and Rohit Bhargava
PLoS ONE
10(6): e0127238
2015
https://doi.org/10.1371/journal.pone.0127238
https://www.ncbi.nlm.nih.gov/pubmed/26039216
Compositional prior information in computed infrared spectroscopic imaging
Bradley Deutsch, Rohith Reddy, David Mayerich, Rohit Bhargava, and P. Scott Carney.
Journal of the Optical Society of America A
32(6):1126-1131
May
2015
https://doi.org/10.1364/JOSAA.32.001126
https://www.ncbi.nlm.nih.gov/pubmed/26367047
Stain-less staining for computed histopathology
David Mayerich, Michael Walsh, Andre Kadjacsy-Balla, Partha Ray, Stephen Hewitt, and Rohit Bhargava.
Technology
03(1):27
March
2015
https://doi.org/10.1142/S2339547815200010
https://www.ncbi.nlm.nih.gov/pubmed/26029735
On the importance of image formation optics in the design of infrared spectroscopic imaging systems
David Mayerich, Thomas van Dijk, Michael Walsh, Matthew Schulmerich, P. Scott Carney, Rohit Bhargava
Analyst
139(16): 4031-4036
April
2014
https://doi.org/10.1039/c3an01687k
https://www.ncbi.nlm.nih.gov/pubmed/24936526
Breast histopathology using random decision forests-based classification of infrared spectroscopic imaging data
David Mayerich, Michael Walsh, Andre Kadjacsy-Balla, Shachi Mittal, Rohit Bhargava
SPIE
Proceedings of SPIE Medical Imaging 2014: Digital Pathology, 9041(904107)
May
2015
Real-Time Interactive Data Mining for Chemical Imaging Information: Application to Automated Histopathology
David Mayerich, Michael Walsh, Matthew Schulmerich, and Rohit Bhargava
BMC Bioinformatics
16:36
May
2013
https://doi.org/10.1186/1471-2105-14-156
https://www.ncbi.nlm.nih.gov/pubmed/23651487
Rapid Spectral-Domain Localization
Thomas van Dijk, David Mayerich, Rohit Bhargava, and P. Scott Carney
Optics Express
21(10):12822-12830
May
2013
https://doi.org/10.1364/OE.21.012822
https://www.ncbi.nlm.nih.gov/pubmed/23736501
Recovery of Absorption Spectra from Fourier Transform Infrared Microspectroscopic Measurements of Intact Spheres
Thomas van Dijk, David Mayerich, P. Scott Carney, and Rohit Bhargava
Applied Spectroscopy
67(5):546-552
April
2013
https://doi.org/10.1366/12-06847
https://www.ncbi.nlm.nih.gov/pubmed/23643044
Volume Visualization in Serial Electron Microscopy Using Local Variance
David Mayerich and John Hart
IEEE BioVis
pp. 9-16
October
2012
https://doi.org/10.1109/BioVis.2012.6378578
NetMets: Software for Quantifying and Visualizing Errors in Biological Network Segmentation
David Mayerich, Chris Bjornsson, Jonathan Taylor, and Badrinath Roysam
BMC Bioinformatics
13(Suppl 8):S7
May
2012
https://doi.org/10.1186/1471-2105-13-S8-S7
https://www.ncbi.nlm.nih.gov/pubmed/22607549
Optimizing the Design of FT-IR Spectroscopic Imaging Instruments to Obtain Increased Spatial Resolution of Chemical Species
Rohith Reddy, David Mayerich, Michael Walsh, Matthew Schulmerich, Paul Scott Carney, Rohit Bhargava
IEEE ISBI
pp. 354-357
May
2012
https://doi.org/10.1109/ISBI.2012.6235557
Specimen Preparation, Imaging, and Analysis Protocols for Knife-Edge Scanning Microscopy
Yoonsuck Choe, David Mayerich, Jaerock Kwon, Daniel Miller, Chul Sung, Ji Ryang Chung, Todd Huffman, John Keyser, Louise Abbott
Automated Cropping and Artifact Removal for Knife-Edge Scanning Microscopy
Jaerock Kwon, David Mayerich, Yoonsuck Choe
IEEE ISBI
pp. 1366-1369
March
2011
https://doi.org/10.1109/ISBI.2011.5872654
Charting Out the Octopus Connectome at Submicron Resolution Using the Knife-Edge Scanning Microscope
Yoonsuck Choe, Louise Abbott, Giovanna Ponte, John Keyser, Jaerock Kwon, David Mayerich, Daniel Miller, Donghyeop Han, Anna Grimaldi, Graziano Fiorito, David Edelman, Jeffrey McKinstry
