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Cytometry. Part A: the Journal of the International Society for Analytical Cytology

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https://www.readbyqxmd.com/read/29782066/omip-047-high-dimensional-phenotypic-characterization-of-b-cells
#1
Thomas Liechti, Huldrych F Günthard, Alexandra Trkola
No abstract text is available yet for this article.
May 21, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29777599/immense-random-colocalization-revealed-by-automated-high-content-image-cytometry-seriously-questions-fish-as-gold-standard-for-detecting-eml4-alk-fusion
#2
Gábor Smuk, Tamás Tornóczky, László Pajor, Ilse Chudoba, Béla Kajtár, Veronika Sárosi, Gábor Pajor
EML4-ALK gene fusion (inv2(p21p23)) of non-small cell lung cancer (NSCLC) predisposes to tyrosine kinase inhibitor treatment. One of the gold standard diagnostics is the dual color (DC) break-apart (BA) FISH technique, however, the unusual closeness of the involved genes has been suggested to raise likelihood of random co-localization (RCL) of signals. Although this is suspected to decrease sensitivity (often to as low as 40-70%), the exact level and effect of RCL has not been revealed thus far. Signal distances were analyzed to the 0...
May 19, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29762901/cell-dynamic-morphology-classification-using-deep-convolutional-neural-networks
#3
Heng Li, Fengqian Pang, Yonggang Shi, Zhiwen Liu
Cell morphology is often used as a proxy measurement of cell status to understand cell physiology. Hence, interpretation of cell dynamic morphology is a meaningful task in biomedical research. Inspired by the recent success of deep learning, we here explore the application of convolutional neural networks (CNNs) to cell dynamic morphology classification. An innovative strategy for the implementation of CNNs is introduced in this study. Mouse lymphocytes were collected to observe the dynamic morphology, and two datasets were thus set up to investigate the performances of CNNs...
May 15, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29733508/fast-rapid-determinations-of-antibiotic-susceptibility-phenotypes-using-label-free-cytometry
#4
Tzu-Hsueh Huang, Yih-Ling Tzeng, Robert M Dickson
Sepsis, a life-threatening immune response to blood infections (bacteremia), has a ∼30% mortality rate and is the 10th leading cause of US hospital deaths. The typical bacterial loads in adult septic patients are ≤100 bacterial cells (colony forming units, CFU) per ml blood, while pediatric patients exhibit only ∼1000 CFU/ml. Due to the low numbers, bacteria must be propagated through ∼24-hours blood cultures to generate sufficient CFUs for diagnosis and further analyses. Herein, we demonstrate that, unlike other rapid post-blood culture antibiotic susceptibility tests (ASTs), our phenotypic approach can drastically accelerate ASTs for the most common sepsis-causing gram-negative pathogens by circumventing long blood culture-based amplification...
May 7, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29710381/semantic-segmentation-of-mfish-images-using-convolutional-networks
#5
Esteban Pardo, José Mário T Morgado, Norberto Malpica
Multicolor in situ hybridization (mFISH) is a karyotyping technique used to detect major chromosomal alterations using fluorescent probes and imaging techniques. Manual interpretation of mFISH images is a time consuming step that can be automated using machine learning; in previous works, pixel or patch wise classification was employed, overlooking spatial information which can help identify chromosomes. In this work, we propose a fully convolutional semantic segmentation network for the interpretation of mFISH images, which uses both spatial and spectral information to classify each pixel in an end-to-end fashion...
April 30, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29969196/new-editor-on-the-block
#6
EDITORIAL
J Paul Robinson, Attila Tárnok
No abstract text is available yet for this article.
June 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29898281/methods-toward-improved-analysis
#7
EDITORIAL
Attila Tárnok
No abstract text is available yet for this article.
May 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29683554/monitoring-circulating-prostate-cancer-cells-by-in-vivo-flow-cytometry-assesses-androgen-deprivation-therapy-on-metastasis
#8
Kai Pang, Chengying Xie, Zhangru Yang, Yuanzhen Suo, Xi Zhu, Dan Wei, Xiaofu Weng, Xunbin Wei, Zhengqin Gu
It remains controversial whether surgical castration prolongs survival rate and improves therapy prospects in patients suffering from prostate cancer. We used PC3 cell line to establish prostate tumor models. In vivo flow cytometry and ultrasonic imaging were used to monitor the process of prostate cancer growth, development and metastasis. We found out that the number of circulating tumor cells (CTCs) in orthotopic tumor model was higher than that in subcutaneous tumor model. The CTC number in orthotopic tumor model was due to burst growth, while CTC number in subcutaneous tumor model showed a gradual increase with tumor size...
May 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29665244/dafi-a-directed-recursive-data-filtering-and-clustering-approach-for-improving-and-interpreting-data-clustering-identification-of-cell-populations-from-polychromatic-flow-cytometry-data
#9
Alexandra J Lee, Ivan Chang, Julie G Burel, Cecilia S Lindestam Arlehamn, Aishwarya Mandava, Daniela Weiskopf, Bjoern Peters, Alessandro Sette, Richard H Scheuermann, Yu Qian
Computational methods for identification of cell populations from polychromatic flow cytometry data are changing the paradigm of cytometry bioinformatics. Data clustering is the most common computational approach to unsupervised identification of cell populations from multidimensional cytometry data. However, interpretation of the identified data clusters is labor-intensive. Certain types of user-defined cell populations are also difficult to identify by fully automated data clustering analysis. Both are roadblocks before a cytometry lab can adopt the data clustering approach for cell population identification in routine use...
April 17, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29665192/microfluidic-facs-becoming-real
#10
Chengxun Liu
No abstract text is available yet for this article.
April 17, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29659138/quantification-of-airway-fibrosis-in-asthma-by-flow-cytometry
#11
Andrew Reichard, Nicholas Wanner, Eric Stuehr, Mario Alemagno, Kelly Weiss, Kimberly Queisser, Serpil Erzurum, Kewal Asosingh
Airway fibrosis is a prominent feature of asthma, contributing to the detrimental consequences of the disease. Fibrosis in the airway is the result of collagen deposition in the reticular lamina layer of the subepithelial tissue. Myofibroblasts are the leading cell type involved with this collagen deposition. Established methods of collagen deposition quantification present various issues, most importantly their inability to quantify current collagen biosynthesis occurring in airway myofibroblasts. Here, a novel method to quantify myofibroblast collagen expression in asthmatic lungs is described...
April 16, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29624852/cryopreserved-whole-blood-for-the-quantification-of-monocyte-t-cell-and-nk-cell-subsets-and-monocyte-receptor-expression-by-multi-color-flow-cytometry-a-methodological-study-based-on-participants-from-the-canadian-longitudinal-study-on-aging
#12
Chris P Verschoor, Vikas Kohli
Immunophenotyping by multi-color flow cytometry is arguably the best tool to identify and quantify distinct cell lineages from the peripheral blood and other biological fluids/tissues. Effective in both clinical and research settings, it can be used to estimate the frequency of a given cell type or measure its phenotypic or functional properties. Normally, immunophenotyping is performed in fresh or fractionated blood (i.e., PBMCs) the same day, or within 24 hours of collection; however, this may not be feasible for all study designs...
April 6, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29694735/the-expanded-cytometry-concept
#13
EDITORIAL
Attila Tárnok
No abstract text is available yet for this article.
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29648681/omip-045-characterizing-human-head-and-neck-tumors-and-cancer-cell-lines-with-mass-cytometry
#14
Tess M Brodie, Vinko Tosevski, Michaela Medová
No abstract text is available yet for this article.
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29517852/a-novel-flow-cytometry-tool-for-fibrosis-scoring-through-hepatic-stellate-cell-differentiation
#15
Johnny Amer, Ahmad Salhab, Sarit Doron, Gilles Morali, Rifaat Safadi
Hepatic stellate cells (HSCs) are a central fibrogenic cell type that contributes to collagen accumulation during chronic liver disease. Peripheral blood lymphocytes from HCV patients are phagocytized by HSCs and induce their differentiation. This study aimed to characterize HSCs differentiation using a flow cytometry tool for fibrosis scoring. NK cells from healthy donors and from patients with chronic HCV with various severities of fibrosis were co-cultured with a human HSC line (LX2). LX2 phagocytosis of NK cells were stained for NK cells (CD45/CD56/CD3) and NK activation marker (CD107a) as well as INF-γ, apoptosis (Annexin-V) and α-smooth-muscle-actin (αSMA, as a marker of LX2 activation)...
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29498809/antibody-based-cell-surface-proteome-profiling-of-metastatic-breast-cancer-primary-explants-and-cell-lines
#16
Vera S Donnenberg, Jayce Jieming Zhang, Erika Moravcikova, Ernest Michael Meyer, Haihui Lu, Christian T Carson, Albert D Donnenberg
Flow cytometric cell surface proteomics provides a new and powerful tool to determine changes accompanying neoplastic transformation and invasion, providing clues to essential interactions with the microenvironment as well as leads for potential therapeutic targets. One of the most important advantages of flow cytometric cell surface proteomics is that it can be performed on living cells that can be sorted for further characterization and functional studies. Here, we document the surface proteome of clonogenic metastatic breast cancer (MBrCa) explants, which was strikingly similar to that of normal mesenchymal stromal cells (P = 0...
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29498807/application-of-area-scaling-analysis-to-identify-natural-killer-cell-and-monocyte-involvement-in-the-grantoxilux-antibody-dependent-cell-mediated-cytotoxicity-assay
#17
Justin Pollara, Chiara Orlandi, Charles Beck, R Whitney Edwards, Yi Hu, Shuying Liu, Shixia Wang, Richard A Koup, Thomas N Denny, Shan Lu, Georgia D Tomaras, Anthony DeVico, George K Lewis, Guido Ferrari
Several different assay methodologies have been described for the evaluation of HIV or SIV-specific antibody-dependent cell-mediated cytotoxicity (ADCC). Commonly used assays measure ADCC by evaluating effector cell functions, or by detecting elimination of target cells. Signaling through Fc receptors, cellular activation, cytotoxic granule exocytosis, or accumulation of cytolytic and immune signaling factors have been used to evaluate ADCC at the level of the effector cells. Alternatively, assays that measure killing or loss of target cells provide a direct assessment of the specific killing activity of antibodies capable of ADCC...
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29493890/dynamic-behavior-of-different-quantities-of-osteoblasts-during-formation-of-micromass-cultures
#18
Susanne Schäfer, Kent Urban, Maria Gerber, Markus Dekiff, Dieter Dirksen, Ulrich Plate
Implantation of micromass cultures of osteoblastic cells offers the possibility of scaffold free tissue engineering for example, regeneration of bone defects. However, the details of cell dynamics during the formation of these micromasses are still not well understood. This study aims to investigate and clarify the extent to which cell quantity influences the dynamics of micromass formation of osteoblastic cell cultures. For this purpose, the migration and aggregation during this process are investigated by optical inspection employing image processing software that allows for automated tracking of cell groups using digital image correlation...
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29480979/cellular-endogenous-nad-p-h-fluorescence-as-a-label-free-method-for-the-identification-of-erythrocytes-and-reticulocytes
#19
L Tauzin, V Campos, M Tichet
Reticulocytes and erythrocytes are the ultimate differentiated stages of erythropoiesis. In addition to being anucleate cells, they are characterized by the clearance of their mitochondrial pool or lack thereof. Given that for most research-oriented flow cytometry experiments erythrocytes and reticulocytes are often undesirable cell types, their identification and exclusion from analyses can be essential. Here, we describe a flow cytometric method based on cellular NAD(P)H-related autofluorescence, whose localization is mainly associated with mitochondria...
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29409121/novel-aspects-of-live-intestinal-epithelial-cell-function-revealed-using-a-custom-time-lapse-video-microscopy-apparatus
#20
Michael Papetti, Piotr Kozlowski
Many aspects of cell physiology, including migration, membrane function, and cell division, are best understood by observing live cell dynamics over time using video microscopy. To probe these phenomena in colon epithelial cells using simple components with a limited budget, we have constructed an inexpensive (<$410) self-contained apparatus, consisting of a closed-loop, feedback-controlled system regulated by a PID (proportional-integrative-derivative) controller contained within a 0.077 m3 insulated acrylic box...
April 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
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