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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/29683554/monitoring-circulating-prostate-cancer-cells-by-in-vivo-flow-cytometry-assesses-androgen-deprivation-therapy-on-metastasis
#6
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...
April 23, 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
#7
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
#8
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
#9
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/29648681/omip-045-characterizing-human-head-and-neck-tumors-and-cancer-cell-lines-with-mass-cytometry
#10
Tess M Brodie, Vinko Tosevski, Michaela Medová
No abstract text is available yet for this article.
April 12, 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
#11
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/29578650/quantification-of-alignment-of-vascular-smooth-muscle-cells
#12
Marcel P Dorta, Isis V de Brito, Alexandre C Pereira, Adriano M Alencar
Vascular smooth muscle cells (VSMCs) are essential components that keep the tonus of the arterial network, which is the channel used to conduct the blood from the heart to the peripheral areas of the body. It is known that mechanical and architectural changes in VSMCs may lead to functional modifications in the cardiovascular system; therefore, the quantitative characterization of these changes can help to elucidate questions that remain unclear in pathological situations, such as hypertension, vasospasm, vascular hypertrophy, and atherosclerosis...
March 26, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29573550/relative-quantification-of-beta-adrenergic-receptor-in-peripheral-blood-cells-using-flow-cytometry
#13
Didem Saygin, Nicholas Wanner, Jonathan A Rose, Sathyamangla V Naga Prasad, W H Wilson Tang, Serpil Erzurum, Kewal Asosingh
Beta-adrenergic receptors (β-ARs) play a critical role in many diseases. Quantification of β-AR density may have clinical implications in terms of assessing disease severity and identifying patients who could potentially benefit from beta-blocker therapy. Classical methods for β-AR quantification are based on labor-intensive and time-consuming radioligand binding assays. Here, we report optimization of a flow cytometry-based method utilizing a biotinylated β-AR ligand alprenolol as a probe and use of this method to quantify relative receptor expression in healthy controls (HC)...
March 24, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29533508/a-guide-to-choosing-fluorescent-protein-combinations-for-flow-cytometric-analysis-based-on-spectral-overlap
#14
Benjamin Kleeman, Andre Olsson, Tess Newkold, Matt Kofron, Monica DeLay, David Hildeman, H Leighton Grimes
The advent of facile genome engineering technologies has made the generation of knock-in gene-expression or fusion-protein reporters more tractable. Fluorescent protein labeling of specific genes combined with surface marker profiling can more specifically identify a cell population. However, the question of which fluorescent proteins to utilize to generate reporter constructs is made difficult by the number of candidate proteins and the lack of updated experimental data on newer fluorescent proteins. Compounding this problem, most fluorescent proteins are designed and tested for use in microscopy...
March 13, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29533506/a-field-applicable-method-for-flow-cytometric-analysis-of-granulocyte-activation-cryopreservation-of-fixed-granulocytes
#15
Karin de Ruiter, Selma van Staveren, Bart Hilvering, Edward Knol, Nienke Vrisekoop, Leo Koenderman, Maria Yazdanbakhsh
Upon activation granulocytes upregulate several adhesion molecules (CD11b) and granule proteins (CD35, CD66b) and shed surface l-selectin (CD62L). These changes in expression, as assessed by flow cytometry, can be used as markers for activation. Whereas these markers are usually studied in fresh blood samples, a new method is required when samples are collected at a field site with no direct access to a flow cytometer. Therefore, we developed and tested a field-applicable method in which fixed leukocytes were cryopreserved...
March 13, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29533503/model-free-quantification-and-visualization-of-colocalization-in-fluorescence-images
#16
Aaron B Taylor, Maria S Ioannou, Jesse Aaron, Teng-Leong Chew
The spatial association between fluorescently tagged biomolecules in situ provides valuable insight into their biological relationship. Within the limits of diffraction, such association can be measured using either Pearson's Correlation Coefficient (PCC) or Spearman's Rank Coefficient (SRC), which are designed to measure linear and monotonic correlations, respectively. However, the relationship between real biological signals is often more complex than these measures assume, rendering their results difficult to interpret...
March 13, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29533501/omip-046-characterization-of-invariant-t-cell-subset-activation-in-humans
#17
Kerri G Lal, Edwin Leeansyah, Johan K Sandberg, Michael A Eller
No abstract text is available yet for this article.
March 13, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29513398/a-flow-cytometry-based-assay-to-determine-the-phagocytic-activity-of-both-clinical-and-nonclinical-antibody-samples-against-chlamydia-trachomatis
#18
Marco Grasse, Ida Rosenkrands, Anja Olsen, Frank Follmann, Jes Dietrich
Globally, an estimated 131 million new cases of chlamydial infection occur annually. Chlamydia trachomatis infection can cause permanent damage to the fallopian tubes in woman, resulting in infertility and a risk of ectopic pregnancy. There is a great need for a vaccine against Chlamydia trachomatis and as a result there is a need for assays to evaluate functional immune responses for use in future clinical trials and epidemiological studies. Antibodies play a crucial role in the defense against infection and can be protective by several functions, including phagocytosis and neutralization...
March 7, 2018: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29694735/the-expanded-cytometry-concept
#19
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/29517852/a-novel-flow-cytometry-tool-for-fibrosis-scoring-through-hepatic-stellate-cell-differentiation
#20
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
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