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https://www.readbyqxmd.com/read/28446788/resolution-enhanced-fourier-ptychographic-microscopy-based-on-high-numerical-aperture-illuminations
#1
Jiasong Sun, Chao Zuo, Liang Zhang, Qian Chen
High-resolution and wide field-of-view (FOV) microscopic imaging plays a central role in diverse applications such as high-throughput screening and digital pathology. However, conventional microscopes face inherent trade-offs between the spatial resolution and FOV, which are fundamental limited by the space-bandwidth product (SBP) of the optical system. The resolution-FOV tradeoff can be effectively decoupled in Fourier ptychography microscopy (FPM), however, to date, the effective imaging NA achievable with a typical FPM system is still limited to the range of 0...
April 26, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28446544/cellular-expression-of-pd-l1-in-the-peripheral-blood-of-lung-cancer-patients-is-associated-with-worse-survival
#2
Daniel J Boffa, Ryon P Graf, Michelle C Salazar, Jessica Hoag, David Lu, Rachel Krupa, Jessica Louw, Lyndsey Dugan, Yipeng Wang, Mark Landers, Mahipal Suraneni, Stephanie B Greene, Samir Makani, Marisa Magaña, Lyudmila Bazhenova, Ryan V Dittamore, Jorge Nieva
BACKGROUND: Lung cancer treatment has become increasingly dependent upon invasive biopsies to profile tumors for personalized therapy. Recently, tumor expression of PD-L1 has gained interest as a potential predictor of response to immunotherapy. Circulating biomarkers present an opportunity for tumor profiling without the risks of invasive procedures. We characterized PD-L1 expression within populations of nucleated cells in the peripheral blood of lung cancer patients in hopes of expanding the role of liquid biopsy in this setting...
April 26, 2017: Cancer Epidemiology, Biomarkers & Prevention
https://www.readbyqxmd.com/read/28440660/implementation-of-whole-slide-imaging-for-clinical-purposes-issues-to-consider-from-the-perspective-of-early-adopters
#3
Andrew J Evans, Mohamed E Salama, Walter H Henricks, Liron Pantanowitz
CONTEXT: - There is growing interest in the use of digital pathology, especially whole slide imaging, for diagnostic purposes. Many issues need to be considered when incorporating this technology into a clinical laboratory. The College of American Pathologists established a Digital Pathology Committee to support the development of College programs related to digital pathology. One of its many initiatives was a panel discussion entitled "Implementing Whole-Slide Imaging for Clinical Use: What to Do and What to Avoid," given for 3 years at the College's annual meetings starting in 2014...
April 25, 2017: Archives of Pathology & Laboratory Medicine
https://www.readbyqxmd.com/read/28430222/impact-of-partial-coherence-on-the-apparent-optical-transfer-function-derived-from-the-response-to-amplitude-edges
#4
S Mojtaba Shakeri, Lucas J van Vliet, Sjoerd Stallinga
We present an investigation of the impact of partial coherence on optical imaging systems with the focus on whole slide imaging (WSI) systems for digital pathology. The investigation is based on the analysis of the edge response of the optical system, which gives rise to an apparent optical transfer function (OTF) that can be linked to two elementary complex functions Q and U. The function Q is directly related to the transmission cross coefficient (TCC) and can be identified with the performance function first introduced by Kintner and Sillitto...
April 20, 2017: Applied Optics
https://www.readbyqxmd.com/read/28426134/metastasis-detection-from-whole-slide-images-using-local-features-and-random-forests
#5
Mira Valkonen, Kimmo Kartasalo, Kaisa Liimatainen, Matti Nykter, Leena Latonen, Pekka Ruusuvuori
Digital pathology has led to a demand for automated detection of regions of interest, such as cancerous tissue, from scanned whole slide images. With accurate methods using image analysis and machine learning, significant speed-up, and savings in costs through increased throughput in histological assessment could be achieved. This article describes a machine learning approach for detection of cancerous tissue from scanned whole slide images. Our method is based on feature engineering and supervised learning with a random forest model...
April 20, 2017: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/28423830/bridging-the-semantic-gap-between-diagnostic-histopathology-and-image-analysis
#6
Lamine Traore, Yannick Kergosien, Daniel Racoceanu
With the wider acceptance of Whole Slide Images (WSI) in histopathology domain, automatic image analysis algorithms represent a very promising solution to support pathologist's laborious tasks during the diagnosis process, to create a quantification-based second opinion and to enhance inter-observer agreement. In this context, reference vocabularies and formalization of the associated knowledge are especially needed to annotate histopathology images with labels complying with semantic standards. In this work, we elaborate a sustainable triptych able to bridge the gap between pathologists and image analysis scientists...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28421181/mct1-in-invasive-ductal-carcinoma-monocarboxylate-metabolism-and-aggressive-breast-cancer
#7
Jennifer M Johnson, Paolo Cotzia, Roberto Fratamico, Lekha Mikkilineni, Jason Chen, Daniele Colombo, Mehri Mollaee, Diana Whitaker-Menezes, Marina Domingo-Vidal, Zhao Lin, Tingting Zhan, Madalina Tuluc, Juan Palazzo, Ruth C Birbe, Ubaldo E Martinez-Outschoorn
Introduction: Monocarboxylate transporter 1 (MCT1) is an importer of monocarboxylates such as lactate and pyruvate and a marker of mitochondrial metabolism. MCT1 is highly expressed in a subgroup of cancer cells to allow for catabolite uptake from the tumor microenvironment to support mitochondrial metabolism. We studied the protein expression of MCT1 in a broad group of breast invasive ductal carcinoma specimens to determine its association with breast cancer subtypes and outcomes. Methods: MCT1 expression was evaluated by immunohistochemistry on tissue micro-arrays (TMA) obtained through our tumor bank...
2017: Frontiers in Cell and Developmental Biology
https://www.readbyqxmd.com/read/28418027/accurate-and-reproducible-invasive-breast-cancer-detection-in-whole-slide-images-a-deep-learning-approach-for-quantifying-tumor-extent
#8
Angel Cruz-Roa, Hannah Gilmore, Ajay Basavanhally, Michael Feldman, Shridar Ganesan, Natalie N C Shih, John Tomaszewski, Fabio A González, Anant Madabhushi
With the increasing ability to routinely and rapidly digitize whole slide images with slide scanners, there has been interest in developing computerized image analysis algorithms for automated detection of disease extent from digital pathology images. The manual identification of presence and extent of breast cancer by a pathologist is critical for patient management for tumor staging and assessing treatment response. However, this process is tedious and subject to inter- and intra-reader variability. For computerized methods to be useful as decision support tools, they need to be resilient to data acquired from different sources, different staining and cutting protocols and different scanners...
April 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28382222/summary-of-the-4-th-nordic-symposium-on-digital-pathology
#9
Claes Lundström, Marie Waltersson, Anders Persson, Darren Treanor
The Nordic symposium on digital pathology (NDP) was created to promote knowledge exchange across stakeholders in health care, industry, and academia. In 2016, the 4(th) NDP installment took place in Linköping, Sweden, promoting development and collaboration in digital pathology for the benefit of routine care advances. This article summarizes the symposium, gathering 170 attendees from 13 countries. This summary also contains results from a survey on integrated diagnostics aspects, in particular radiology-pathology collaboration...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28381191/expression-and-associations-of-traf1-bmi-1-aldh1-and-lin28b-in-oral-squamous-cell-carcinoma
#10
Tian-Fu Wu, Yi-Cun Li, Si-Rui Ma, Bing-Liu, Wen-Feng Zhang, Zhi-Jun Sun
Tumor necrosis factor receptor-associated factor 1, an adaptor protein of tumor necrosis factor 2, is involved in classical nuclear factor (NF)-κB activation and lymphocyte recruitment. However, less is known about the expression and association of tumor necrosis factor receptor-associated factor 1 with cancer stem cell markers in oral squamous cell carcinoma. This study aimed to investigate the expression of tumor necrosis factor receptor-associated factor 1 and stem cell characteristic markers (lin28 homolog B, B cell-specific Moloney murine leukemia virus integration site 1, and aldehyde dehydrogenase 1) in oral squamous cell carcinoma and analyze their relations...
April 2017: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
https://www.readbyqxmd.com/read/28352074/optimized-mass-spectrometry-analysis-workflow-with-polarimetric-guidance-for-ex-vivo-and-in-situ-sampling-of-biological-tissues
#11
Michael Woolman, Adam Gribble, Emma Bluemke, Jing Zou, Manuela Ventura, Nicholas Bernards, Megan Wu, Howard J Ginsberg, Sunit Das, Alex Vitkin, Arash Zarrine-Afsar
Spatially Targeted Mass Spectrometry (MS) analysis using survey scans with an imaging modality often requires consecutive tissue slices, because of the tissue damage during survey scan or due to incompatible sample preparation requirements between the survey modality and MS. We report two spatially targeted MS analysis workflows based on polarized light imaging guidance that use the same tissue sample for survey and targeted analysis. The first workflow is applicable for thin-slice analysis, and uses transmission-polarimetry-guided Desorption ElectroSpray Ionization Mass Spectrometry (DESI-MS), and confirmatory H&E histopathology analysis on the same slice; this is validated using quantitative digital pathology methods...
March 28, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28347240/computer-aided-prognosis-on-breast-cancer-with-hematoxylin-and-eosin-histopathology-images-a-review
#12
REVIEW
Jia-Mei Chen, Yan Li, Jun Xu, Lei Gong, Lin-Wei Wang, Wen-Lou Liu, Juan Liu
With the advance of digital pathology, image analysis has begun to show its advantages in information analysis of hematoxylin and eosin histopathology images. Generally, histological features in hematoxylin and eosin images are measured to evaluate tumor grade and prognosis for breast cancer. This review summarized recent works in image analysis of hematoxylin and eosin histopathology images for breast cancer prognosis. First, prognostic factors for breast cancer based on hematoxylin and eosin histopathology images were summarized...
March 2017: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
https://www.readbyqxmd.com/read/28325451/multiview-boosting-digital-pathology-analysis-of-prostate-cancer
#13
Jin Tae Kwak, Stephen M Hewitt
BACKGROUND AND OBJECTIVE: Various digital pathology tools have been developed to aid in analyzing tissues and improving cancer pathology. The multi-resolution nature of cancer pathology, however, has not been fully analyzed and utilized. Here, we develop an automated, cooperative, and multi-resolution method for improving prostate cancer diagnosis. METHODS: Digitized tissue specimen images are obtained from 5 tissue microarrays (TMAs). The TMAs include 70 benign and 135 cancer samples (TMA1), 74 benign and 89 cancer samples (TMA2), 70 benign and 115 cancer samples (TMA3), 79 benign and 82 cancer samples (TMA4), and 72 benign and 86 cancer samples (TMA5)...
April 2017: Computer Methods and Programs in Biomedicine
https://www.readbyqxmd.com/read/28320627/maximal-ambient-noise-levels-and-type-of-voice-material-required-for-valid-use-of-smartphones-in-clinical-voice-research
#14
Jean Lebacq, Jean Schoentgen, Giovanna Cantarella, Franz Thomas Bruss, Claudia Manfredi, Philippe DeJonckere
PURPOSE: Smartphone technology provides new opportunities for recording standardized voice samples of patients and transmitting the audio files to the voice laboratory. This drastically improves the achievement of baseline designs, used in research on efficiency of voice treatments. However, the basic requirement is the suitability of smartphones for recording and digitizing pathologic voices (mainly characterized by period perturbations and noise) without significant distortion. In a previous article, this was tested using realistic synthesized deviant voice samples (/a:/) with three precisely known levels of jitter and of noise in all combinations...
March 17, 2017: Journal of Voice: Official Journal of the Voice Foundation
https://www.readbyqxmd.com/read/28275608/design-and-implementation-of-the-retinoblastoma-collaborative-laboratory
#15
Seemi Qaiser, Alice Limo, Josiah Gichana, Kahaki Kimani, Jessie Githanga, Wairimu Waweru, Elizabeth A O Dimba, Helen Dimaras
PURPOSE: The purpose of this work was to describe the design and implementation of a digital pathology laboratory, the Retinoblastoma Collaborative Laboratory (RbCoLab) in Kenya. METHOD: The RbCoLab is a central lab in Nairobi that receives retinoblastoma specimens from all over Kenya. Specimens were processed using evidence-based standard operating procedures. Images were produced by a digital scanner, and pathology reports were disseminated online. RESULTS: The lab implemented standard operating procedures aimed at improving the accuracy, completeness, and timeliness of pathology reports, enhancing the care of Kenyan retinoblastoma patients...
January 2017: Ocular Oncology and Pathology
https://www.readbyqxmd.com/read/28236118/expression-of-vista-correlated-with-immunosuppression-and-synergized-with-cd8-to-predict-survival-in-human-oral-squamous-cell-carcinoma
#16
Lei Wu, Wei-Wei Deng, Cong-Fa Huang, Lin-Lin Bu, Guang-Tao Yu, Liang Mao, Wen-Feng Zhang, Bing Liu, Zhi-Jun Sun
V-domain Ig suppressor of T cell activation (VISTA), a novel immune checkpoint regulatory molecule, suppresses T cell mediated immune responses. The aim of the present study was to profile the immunological expression, clinical significance and correlation of VISTA in human oral squamous cell carcinoma (OSCC). Human tissue microarrays, containing 165 primary OSCCs, 48 oral epithelial dysplasias and 43 normal oral mucosae, were applied to investigate the expression levels of VISTA, CD8, cytotoxic T lymphocyte-associated antigen 4 (CTLA-4), programmed death ligand 1 (PD-L1), PI3Kα p110, IL13Rα2, phospho-STAT3 at tyrosine 705 (p-STAT3) and myeloid-derived suppressor cell (MDSC) markers (CD11b and CD33) by immunohistochemistry and digital pathology analysis...
May 2017: Cancer Immunology, Immunotherapy: CII
https://www.readbyqxmd.com/read/28220842/image-processing-in-digital-pathology-an-opportunity-to-solve-inter-batch-variability-of-immunohistochemical-staining
#17
Yves-Rémi Van Eycke, Justine Allard, Isabelle Salmon, Olivier Debeir, Christine Decaestecker
Immunohistochemistry (IHC) is a widely used technique in pathology to evidence protein expression in tissue samples. However, this staining technique is known for presenting inter-batch variations. Whole slide imaging in digital pathology offers a possibility to overcome this problem by means of image normalisation techniques. In the present paper we propose a methodology to objectively evaluate the need of image normalisation and to identify the best way to perform it. This methodology uses tissue microarray (TMA) materials and statistical analyses to evidence the possible variations occurring at colour and intensity levels as well as to evaluate the efficiency of image normalisation methods in correcting them...
February 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28193010/variations-in-the-abundance-of-lipid-biomarker-ions-in-mass-spectrometry-images-correlate-to-tissue-density
#18
Jade Bilkey, Alessandra Tata, Trevor D McKee, Andreia M Porcari, Emma Bluemke, Michael Woolman, Manuela Ventura, Marcos N Eberlin, Arash Zarrine-Afsar
While mass spectrometry (MS) imaging is widely used to investigate the molecular composition of ex vivo slices of cancerous tumors, little is known about how variations in the cellular properties of cancer tissue can influence cancer biomarker ion images. To better understand the basis for variations in the abundances of cancer biomarker ions seen in MS images of relatively homogeneous ex vivo tumor samples, sections of snap frozen human breast cancer murine xenografts were subjected to desorption electrospray ionization mass spectrometry (DESI-MS) imaging...
December 20, 2016: Analytical Chemistry
https://www.readbyqxmd.com/read/28179316/correlation-of-blood-t-cells-to-intratumoural-density-and-location-of-cd3-and-cd8-t-cells-in-colorectal-cancer
#19
Hanne R Hagland, Dordi Lea, Martin M Watson, Kjetil Søreide
AIM: To test the feasibility of conducting parallel analyses of circulating T-cells in blood and intratumoural T-cells in colorectal cancer. A pre-operative 'liquid biopsy' to determine immune status would facilitate clinical decision-making. MATERIALS AND METHODS: A total of 18 patients with stage I-III colorectal cancer (CRC) were included. Blood was analyzed for T-cell type (CD3(+), CD4(+) and CD8(+)) and count using flow cytometry. Intratumoural T-cells were stained using immunohistochemistry and quantified by digital pathology...
2017: Anticancer Research
https://www.readbyqxmd.com/read/28138402/construction-and-analysis-of-tissue-microarrays-in-the-era-of-digital-pathology-a-pilot-study-targeting-cdx1-and-cdx2-in-a-colon-cancer-cohort-of-612-patients
#20
Sarah Nolte, Inti Zlobec, Alessandro Lugli, Werner Hohenberger, Roland Croner, Susanne Merkel, Arndt Hartmann, Carol I Geppert, Tilman T Rau
CDX1 and CDX2 are possibly predictive biomarkers in colorectal cancer. We combined digitally-guided (next generation) TMA construction (ngTMA) and the utility of digital image analysis (DIA) to assess accuracy, tumour heterogeneity and the selective impact of different combined intensity-percentage levels on prognosis.CDX1 and CDX2 immunohistochemistry was performed on ngTMAs covering normal tissue, tumour centre and invasive front. The percentages of all epithelial cells per staining intensity per core were analysed digitally...
January 2017: Journal of Pathology. Clinical Research
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