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High-throughput profiling of tissue and tissue model microarrays: Combined transmitted light and 3-color fluorescence digital pathology

Rebecca Critchley-Thorne, Michel Nederlof, Shigeo Watanabe, Bill Burnip, DLansing Taylor
2011 Journal of Pathology Informatics  
Here we describe the use of the Hamamatsu NanoZoomer Digital Pathology slide scanner with HCImage software for combined brightfield and multiplexed fluorescence biomarker analysis and highlight its applications  ...  There is also a need for tissue-based multivariate biomarker assays to improve the accuracy of diagnostic, prognostic, and predictive testing.  ...  Higher multiplexing can be achieved by staining and imaging biomarkers in serial sections using the NanoZoomer.  ... 
doi:10.4103/2153-3539.89849 pmid:22200032 pmcid:PMC3237061 fatcat:bnv3jjsr3zdk7ayletgcjvfoeq

Quantitative measurement of cancer tissue biomarkers in the lab and in the clinic

Daniel E Carvajal-Hausdorf, Kurt A Schalper, Veronique M Neumeister, David L Rimm
2014 Laboratory Investigation  
Here, we revisit the reporters and methods used for single-and multiplexed in situ visualization of protein and RNA.  ...  Then we examine methods for the use of quantitative platforms for in situ measurement of protein and mRNA levels.  ...  in a single sample (ie, target multiplexing) provides information on tissue distribution, marker colocalization, and synchronous-level quantitation.  ... 
doi:10.1038/labinvest.2014.157 pmid:25502176 pmcid:PMC4383674 fatcat:igvzzwxugjhevabejtgszd6gue

Novel Platforms of Multiplexed Immunofluorescence for Study of Paraffin Tumor Tissues

Edwin Parra
2017 Journal of Cancer Treatment and Diagnosis  
These new technologies can be valuable for tumor examination in formalin-fixed paraffin-embedded (FFPE) specimens, and for improved new treatment discoveries and translational cancer studies.  ...  Although, most of the old platforms are not more used after the powerful multiplex IHC methods are continue growing, the basis of these old methodologies have helped to improve the new technologies.  ...  Perkin Elmer developed the Opal ™ workflow ( Figure 2B) , which allows simultaneous staining of multiple biomarkers within a single paraffin tissue section.  ... 
doi:10.29245/2578-2967/2018/1.1122 fatcat:axoua2apmrb6tcaptqgg5u4dmy

Microfluidics-assisted multiplexed biomarker detection for in situ mapping of immune cells in tumor sections

Daniel Migliozzi, Benjamin Pelz, Diego G. Dupouy, Anne-Laure Leblond, Alex Soltermann, Martin A. M. Gijs
2019 Microsystems & Nanoengineering  
As proof-of-concept analyses, we identified coexpression and colocalization patterns of biomarkers to classify the immune cells and their activation status.  ...  Here, we present a quantitative method to identify ten different immuno-markers in the same tumor cut section, thereby saving precious samples and enabling correlative analysis on several cell families  ...  This work was supported by the Commission for Technology and Innovation (CTI project no. 18257.2 PFLS-LS).  ... 
doi:10.1038/s41378-019-0104-z pmid:31700674 pmcid:PMC6831597 fatcat:26akvgeirrd7xm7yjjzob4gpba

High-Throughput Single Extracellular Vesicle Profiling [chapter]

Yanling Cai, Di Wu
2021 Secretomics [Working Title]  
In this chapter, we will discuss advanced strategies for studying single EVs, including single EV imaging systems, flow cytometers, nano-sensing technologies and single EV barcoding assay.  ...  Besides the investigation of EV biology, single EV analysis technologies are promising approach for liquid biopsy, which relies on the detection of biomarker EVs readily available in body fluids but in  ...  The colocalization of multiple biomarkers could be simultaneously recorded via multi-color TIR imaging.  ... 
doi:10.5772/intechopen.97544 fatcat:7ioe3zroqfgjrffgpiw5vdyeqy

Comparison of Multiplexed Immunofluorescence Imaging to Chromogenic Immunohistochemistry of Skin Biomarkers in Response to Monkeypox Virus Infection

Anup Sood, Yunxia Sui, Elizabeth McDonough, Alberto Santamaría-Pang, Yousef Al-Kofahi, Zhengyu Pang, Peter B. Jahrling, Jens H. Kuhn, Fiona Ginty
2020 Viruses  
on serial sections and compared to MxIF automated single cell quantification of the same markers that were multiplexed on a single tissue section.  ...  multiplexed tissue immunofluorescence (MxIF) method with single cell-level quantitation termed Cell DIVETM.  ...  the US Department of Health and Human Services or of the institutions and companies affiliated with the authors.  ... 
doi:10.3390/v12080787 pmid:32717786 fatcat:4jetz2orwjdcfkimjs5tdzotim

Molecular profiling of single cancer cells and clinical tissue specimens with semiconductor quantum dots

Yun Xing, Andrew M Smith, Amit Agrawal, Gang Ruan, Shuming Nie
2006 International Journal of Nanomedicine  
Semiconductor quantum dots (QDs) are a new class of fl uorescent labels with broad applications in biomedical imaging, disease diagnostics, and molecular and cell biology.  ...  These improved QDs have opened new possibilities for real-time imaging and tracking of molecular targets in living cells, for multiplexed analysis of biomolecular markers in clinical tissue specimens,  ...  The work was supported in part by NIH grants (P20 GM072069, R01 CA108468-01, and U54CA119338) and the Georgia Cancer Coalition Distinguished Cancer Scholars Program (to S.N.).  ... 
doi:10.2147/nano.2006.1.4.473 pmid:17722280 pmcid:PMC2676641 fatcat:kc45u6mmkbbjxn6erahleqoeyy

High-throughput single-EV liquid biopsy: Rapid, simultaneous, and multiplexed detection of nucleic acids, proteins, and their combinations

Jian Zhou, Zuoren Wu, Jie Hu, Dawei Yang, Xiaoyan Chen, Qin Wang, Jie Liu, Maosen Dou, Wenjun Peng, Yuanyuan Wu, Wenhao Wang, Chenjian Xie (+4 others)
2020 Science Advances  
Concurrent detection of multiple biomarkers at a single-EV level would greatly improve prognosis and/or diagnosis and understanding of EV phenotypes, biogenesis, and functions.  ...  Here, we introduced a High-throughput Nano-bio Chip Integrated System for Liquid Biopsy (HNCIB) system for simultaneous detection of proteins and mRNA/miRNA in a single EV.  ...  Data and materials availability: All data needed to evaluate the conclusions in the paper are present in the paper and/or the Supplementary Materials.  ... 
doi:10.1126/sciadv.abc1204 pmid:33219024 pmcid:PMC7679165 fatcat:yqay7o5tvfekpftwmevblwdhgi

Immunocapture strategies in translational proteomics

Claudia Fredolini, Sanna Byström, Elisa Pin, Fredrik Edfors, Davide Tamburro, Maria Jesus Iglesias, Anna Häggmark, Mun-Gwan Hong, Mathias Uhlen, Peter Nilsson, Jochen M Schwenk
2015 Espert Review of Proteomics  
Acknowledgment The authors would like to thank Devin Sullivan (Cellprofiling -Subcellular Human Protein Atlas; SciLifeLab, School of Biotechnology, KTH -Royal Institute of Technology, Sweden) for the great  ...  Financial & competing interests disclosure The authors have no relevant affiliations or financial involvement with any organization or entity with a financial interest in or financial conflict with the  ...  For example, the xMAP® bead array technology (Luminex Corp., Austin, TX, USA) currently offers up to 500 parallel measurements in a single run.  ... 
doi:10.1586/14789450.2016.1111141 pmid:26558424 pmcid:PMC4732419 fatcat:fybbxk7bgvdxxa3h33r7by77pi

Covalently deposited dyes: a new chromogen paradigm that facilitates analysis of multiple biomarkers in situ

William A Day, Mark R Lefever, Robert L Ochs, Anne Pedata, Lauren J Behman, Julia Ashworth-Sharpe, Donald D Johnson, Eric J May, James G Grille, Esteban A Roberts, Jerry W Kosmeder, Larry E Morrison
2016 Laboratory Investigation  
Multiplexed analysis of multiple biomarkers in a tissue sample requires use of reporter dyes with specific spectral properties that enable discrimination of signals.  ...  It is anticipated that this new paradigm will enable generation of a wide variety of new chromogens, useful for both research and clinical biomarker analysis that will benefit clinicians and patients.  ...  As a result there is a greater demand for multiplexing technologies that enable analysis of multiple biomarkers on a single tissue specimen.  ... 
doi:10.1038/labinvest.2016.115 pmid:27869794 fatcat:saqhnbo4mze4de7gfbmk6csmfm

Development of a quantitative pharmacodynamic assay for apoptosis in fixed tumor tissue and its application in distinguishing cytotoxic drug−induced DNA double strand breaks from DNA double strand breaks associated with apoptosis

Angie B. Dull, Deborah Wilsker, Melinda Hollingshead, Christina Mazcko, Christina M. Annunziata, Amy K. LeBlanc, James H. Doroshow, Robert J. Kinders, Ralph E. Parchment
2018 OncoTarget  
Clinical feasibility was established using formalinfixed, paraffin-embedded biopsies from a canine cancer clinical trial; γH2AX/CC3 colocalization analysis revealed apoptosis induction by two novel indenoisoquinoline  ...  Here, we describe an immunofluorescence assay that distinguishes between apoptosis and drug-induced DSBs by measuring coexpression of γH2AX and membrane blebbing− associated CC3 to indicate apoptosis,  ...  ACKNOWLEDGMENTS We thank Sandy Eldridge for pathology review and the Comparative Oncology Trials Consortium (COTC) institution veterinarians who enrolled patients and/or served on the Data and Safety Monitoring  ... 
doi:10.18632/oncotarget.24936 pmid:29682208 pmcid:PMC5908309 fatcat:n3op7m6n3fertpmyvjproht66y

Multifunctional quantum dots for personalized medicine

Pavel Zrazhevskiy, Xiaohu Gao
2009 Nano Today  
Quantum dots (QDs), semiconductor nanocrystals with unique photo-physical properties, represent a novel class of fluorescence probes to address many of the needs of personalized medicine.  ...  However, a number of diseases, such as cancer, immunodeficiencies, and neurological disorders, still evade conventional diagnostic and therapeutic approaches.  ...  Acknowledgments This work is support in part by the National Science Foundation for a Faculty Early Career Development award (CAREER 0645080), and the National Institute of Health (R01 CA131797).  ... 
doi:10.1016/j.nantod.2009.07.004 pmid:20161004 pmcid:PMC2757762 fatcat:pyamnk23pvdglkuo32oheu5lny

CdSe quantum dots evaluation in primary cellular models or tissues derived from patients

Carlota Tosat-Bitrián, Valle Palomo
2020 Nanomedicine: Nanotechnology, Biology and Medicine  
QD-based multiplexed imaging has been proved to overcome most of the major drawbacks of conventional techniques, exhibiting higher sensitivity, reliability, accuracy and simultaneous labelling of key biomarkers  ...  Here we review and discuss the studies of these nanoparticles in patient derived cellular samples or tissues, including cellular models from iPSCs from patients, biopsied and post-mortem tissue.  ...  the multiplexed staining with conventional single QD labeling, IHC and WB. 59 In a subsequent study, the mQDL enabled a single cell level analysis detecting 4 biomarkers, reducing sample variability  ... 
doi:10.1016/j.nano.2020.102299 pmid:32931928 fatcat:7xhi3udrmze75cjz7oivb6oijm

Dissecting Tumor-Immune Microenvironment in Breast Cancer at a Spatial and Multiplex Resolution

Evangelos Tzoras, Ioannis Zerdes, Nikos Tsiknakis, Georgios C. Manikis, Artur Mezheyeuski, Jonas Bergh, Alexios Matikas, Theodoros Foukakis
2022 Cancers  
Towards improved understanding of the complex interactions in TIME, several emerging multiplex in situ methods are being developed and gaining much attention for protein detection.  ...  Surrogates for antitumor immune response have been explored as predictive biomarkers to immunotherapy, though with several limitations.  ...  Towards this end, novel multispectral and spatial technologies should be used.  ... 
doi:10.3390/cancers14081999 pmid:35454904 pmcid:PMC9026731 fatcat:den2rusn2jgbhdmsixnlj7i4lu

High-dimensional immune-profiling in cancer: implications for immunotherapy

Samuel Chuah, Valerie Chew
2020 Journal for ImmunoTherapy of Cancer  
Conventional technologies used for this purpose were limited by the depth and dimensionality of the data.  ...  We highlight herein some of the high-dimensional technologies currently employed in immune profiling in cancer and summarize the insights and potential benefits they could bring in designing better cancer  ...  , unbiased, multiplex profiling of both the proteome and transcriptome of a single cell. 58 Protein epitopes are detected via oligonucleotide-conjugated antibodies (similar to Abseq).  ... 
doi:10.1136/jitc-2019-000363 pmid:32034066 pmcid:PMC7057482 fatcat:v7bf2vo325eerhyr2hzmhpbkei
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