from Flow Cytometry to Cytomics
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Scooped by Gilbert C FAURE
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Counting Cells with a Hemocytometer

There can be tens of thousands of cells in one milliliter of culture medium. So how are cells counted?

 

Gilbert C FAURE's insight:

It is how techniques are taught or learned now! Thanks Youtube

Obviously, this first Scoop is not significant of the information you will find through the following 122 pages of this topic, with many recent informations of developments of flow cytometry, image cytometry... focusing particularly on the detection, quantification, characterization of rare events (CTCs, CECS..) in peripheral blood and biological fluids.

 

more than 3000 scoops, >5200 visitors, 10700 views (march 2015)

juin 2019 more than 4400 scoops, >13K visitors, >31,6 K views

 

For data from the curator, see the Nancytomique topic.

http://www.scoop.it/t/nancytomique

 

 

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Rescooped by Gilbert C FAURE from PARP Inhibitors Cancer Review
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Discovery: New Biomarker for Cancer Stem Cells - University of Houston

Discovery: New Biomarker for Cancer Stem Cells - University of Houston | from Flow Cytometry to Cytomics | Scoop.it
Protein Linked to Tumor Survival and Spread...

Via Krishan Maggon
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The Value and Versatility of Clinical Flow Cytometry | Technology Networks

The Value and Versatility of Clinical Flow Cytometry | Technology Networks | from Flow Cytometry to Cytomics | Scoop.it
Technology Networks is an internationally recognised publisher that provides access to the latest scientific news, products, research, videos and posters.
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A standardized flow cytometry network study for the assessment of circulating endothelial cell physiological ranges. - PubMed - NCBI

A standardized flow cytometry network study for the assessment of circulating endothelial cell physiological ranges. - PubMed - NCBI | from Flow Cytometry to Cytomics | Scoop.it
PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
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Flow cytometry for rapid characterisation of microbial community dynamics in waste stabilisation ponds –

Flow cytometry for rapid characterisation of microbial community dynamics in waste stabilisation ponds – | from Flow Cytometry to Cytomics | Scoop.it
Authors Liah X. Coggins, Irma Larma, Amy Hinchliffe, Ruben Props, Anas Ghadouani Algal and bacterial communities play a major role in the treatment performance and efficiency of waste stabilisation ponds (WSPs); however, the study of these WSP microbial communities has been challenging.
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Cells | Free Full-Text | Cooperative and Escaping Mechanisms between Circulating Tumor Cells and Blood Constituents

Cells | Free Full-Text | Cooperative and Escaping Mechanisms between Circulating Tumor Cells and Blood Constituents | from Flow Cytometry to Cytomics | Scoop.it
Metastasis is the leading cause of cancer-related deaths and despite measurable progress in the field, underlying mechanisms are still not fully understood. Circulating tumor cells (CTCs) disseminate within the bloodstream, where most of them die due to the attack of the immune system.
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Becton Dickinson and : BD Expands Single Cell Portfolio with Combined Whole Transcriptome and Protein Analysis Solution for High Dimensional Immunology Research | MarketScreener

Becton Dickinson and : BD Expands Single Cell Portfolio with Combined Whole Transcriptome and Protein Analysis Solution for High Dimensional Immunology Research | MarketScreener | from Flow Cytometry to Cytomics | Scoop.it
BD Rhapsody™ Whole Transcriptome Analysis Amplification Kit is designed and tested to work with BD Rhapsody™ Single-Cell Analysis System, BD® AbSeq reagents and BD®...| October 28, 2019...
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Controversies around epithelial–mesenchymal plasticity in cancer metastasis

Controversies around epithelial–mesenchymal plasticity in cancer metastasis | from Flow Cytometry to Cytomics | Scoop.it
Experimental evidence accumulated over decades has implicated epithelial–mesenchymal plasticity (EMP), which collectively encompasses epithelial–mesenchymal transition and the reverse process of mesenchymal–epithelial transition, in tumour metastasis, cancer stem cell generation and maintenance, and therapeutic resistance. However, the dynamic nature of EMP processes, the apparent need to reverse mesenchymal changes for the development of macrometastases and the likelihood that only minor cancer cell subpopulations exhibit EMP at any one time have made such evidence difficult to accrue in the clinical setting. In this Perspectives article, we outline the existing preclinical and clinical evidence for EMP and reflect on recent controversies, including the failure of initial lineage-tracing experiments to confirm a major role for EMP in dissemination, and discuss accumulating data suggesting that epithelial features and/or a hybrid epithelial–mesenchymal phenotype are important in metastasis. We also highlight strategies to address the complexities of therapeutically targeting the EMP process that give consideration to its spatially and temporally divergent roles in metastasis, with the view that this will yield a potent and broad class of therapeutic agents. In this Perspectives article, the authors outline the preclinical and clinical evidence for epithelial–mesenchymal plasticity (EMP) in cancer progression and metastasis, focusing on recent challenges and controversies, and highlight strategies to therapeutically target the EMP process.
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Guidelines for the use of flow cytometry and cell sorting in immunological studies (second edition): European Journal of Immunology: Vol 49, No 10

Guidelines for the use of flow cytometry and cell sorting in immunological studies (second edition): European Journal of Immunology: Vol 49, No 10 | from Flow Cytometry to Cytomics | Scoop.it
Click on the title to browse this issue
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Pathophysiology of Tumor Cell Release into the Circulation and Characterization of CTC.

Pathophysiology of Tumor Cell Release into the Circulation and Characterization of CTC. | from Flow Cytometry to Cytomics | Scoop.it
The traditional model of metastatic progression postulates that the ability to form distant metastases is driven by random mutations in cells of the primary tum...
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Exploring single-cell data with deep multitasking neural networks

Exploring single-cell data with deep multitasking neural networks | from Flow Cytometry to Cytomics | Scoop.it
It is currently challenging to analyze single-cell data consisting of many cells and samples, and to address variations arising from batch effects and different sample preparations. For this purpose, we present SAUCIE, a deep neural network that combines parallelization and scalability offered by neural networks, with the deep representation of data that can be learned by them to perform many single-cell data analysis tasks. Our regularizations (penalties) render features learned in hidden layers of the neural network interpretable. On large, multi-patient datasets, SAUCIE’s various hidden layers contain denoised and batch-corrected data, a low-dimensional visualization and unsupervised clustering, as well as other information that can be used to explore the data. We analyze a 180-sample dataset consisting of 11 million T cells from dengue patients in India, measured with mass cytometry. SAUCIE can batch correct and identify cluster-based signatures of acute dengue infection and create a patient manifold, stratifying immune response to dengue. SAUCIE, a deep learning platform to analyze single-cell data across samples and platforms, allows information to be obtained from the internal layers of the network, which provides additional mechanistic understanding that can be used to further tune data analysis.
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Microfluidics-assisted multiplexed biomarker detection for in situ mapping of immune cells in tumor sections

Microfluidics-assisted multiplexed biomarker detection for in situ mapping of immune cells in tumor sections | from Flow Cytometry to Cytomics | Scoop.it
Researchers in Switzerland have developed a chip to quickly and accurately identify different types of immune cells for cancer immunotherapy. A joint team from Ecole Polytechnique Fédérale de Lausanne and Lunaphore Technologies SA built on existing microfluidic technology to engineer a tissue...
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Detection of circulating tumor cells in drainage venous blood from colorectal cancer patients using a new filtration and cytology-based automated p... - PubMed - NCBI

Detection of circulating tumor cells in drainage venous blood from colorectal cancer patients using a new filtration and cytology-based automated p... - PubMed - NCBI | from Flow Cytometry to Cytomics | Scoop.it
PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
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Guidelines for the use of flow cytometry and cell sorting in immunological studies (second edition) - Cossarizza - 2019 - European Journal of Immunology

Guidelines for the use of flow cytometry and cell sorting in immunological studies (second edition) - Cossarizza - 2019 - European Journal of Immunology | from Flow Cytometry to Cytomics | Scoop.it
Abstract These guidelines are a consensus work of a considerable number of members of the immunology and flow cytometry community. They provide the theory and key practical aspects of flow cytometr...
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The Value and Versatility of Clinical Flow Cytometry | biotechnology.report

The Value and Versatility of Clinical Flow Cytometry | biotechnology.report | from Flow Cytometry to Cytomics | Scoop.it
The first conventional fluorescence-based flow cytometer was developed and commercialized in the late ‘60s/early ’70s in Germany.2 Over the last five decades, FCM has developed rapidly in terms of the number of its applications and the quantity and dimensionality of the data it generates...
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IJMS | Free Full-Text | Natural Killer Cell Function Tests by Flowcytometry-Based Cytotoxicity and IFN-γ Production for the Diagnosis of Adult Hemophagocytic Lymphohistiocytosis

IJMS | Free Full-Text | Natural Killer Cell Function Tests by Flowcytometry-Based Cytotoxicity and IFN-γ Production for the Diagnosis of Adult Hemophagocytic Lymphohistiocytosis | from Flow Cytometry to Cytomics | Scoop.it
Although natural killer (NK) cell function is a hallmark of hemophagocytic lymphohistiocytosis (HLH), there is no standard method or data on its diagnostic value in adults. Thus, we performed a single-center retrospective study of 119 adult patients with suspected HLH.
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Cancers | Free Full-Text | Post-Surgery Circulating Tumor Cells and AXL Overexpression as New Poor Prognostic Biomarkers in Resected Lung Adenocarcinoma

Cancers | Free Full-Text | Post-Surgery Circulating Tumor Cells and AXL Overexpression as New Poor Prognostic Biomarkers in Resected Lung Adenocarcinoma | from Flow Cytometry to Cytomics | Scoop.it
Background: The prognosis of early stage non-small cell lung cancer (NSCLC) is quite disappointing and the benefits of adjuvant therapy are relatively small. Thus, there is an urgent need to identify novel prognostic and predictive biomarkers. Lung adenocarcinoma has distinct clinical–pathological characteristics and novel therapeutic strategies are under active evaluation in the adjuvant setting. Here, we investigated the prognostic impact of circulating tumor cells (CTCs) and gene and miRNA tissue expression in resectable NSCLC. Patients and methods: We assessed the association between CTC subpopulations and the outcome of resected early stage lung adenocarcinoma (ADC) patients at three different time-points (CTC1-3) (before surgery, after one month, and after six months) in comparison to squamous cell carcinoma (SCC). Furthermore, gene and miRNA tissue expression, immunoprofiling, and epithelial-to-mesenchymal transition (EMT) markers were correlated with outcome. Results: ADC (n = 47) and SCC (n = 50) revealed different tissue expression profiles, resulting in the presence of different CTC subpopulations. In ADC, miR-155 correlated with AXL and IL6R expression, which were related to the presence of EMT CTC1 (p = 0.014 and p = 0.004). In the multivariate analysis, CTC2 was an independent prognostic factor for relapse-free survival, and CTC3 and AXL were independent prognostic for overall survival only in ADC. Neither the surgery nor the adjuvant treatment influenced the prognosis of these patients. Conclusions: Our study elucidate the prognostic impact of tissue AXL expression and the presence of CTCs after surgery in adenocarcinoma patients. Tissue AXL expression and CTC EMT activation could potentially represent biomarkers for the stratification of ADC patients that might benefit from new adjuvant therapies.
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Study shows how circulating tumor cells target distant organs –

Study shows how circulating tumor cells target distant organs – | from Flow Cytometry to Cytomics | Scoop.it
Molecular signature signals metastsis, provides potential treatment targetCredit: Remi Klotz in Yu lab/USC Most cancers kill because tumor cells spread...
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A blood cell repelling and tumor cell capturing surface for high-purity enrichment of circulating tumor cells - Journal of Materials Chemistry B (RSC Publishing)

A blood cell repelling and tumor cell capturing surface for high-purity enrichment of circulating tumor cells - Journal of Materials Chemistry B (RSC Publishing) | from Flow Cytometry to Cytomics | Scoop.it
The detection of circulating tumor cells (CTCs), an approach considered to be “liquid biopsy”, is crucial in cancer diagnosis, monitoring and prognosis. However, the extremely large number of blood cells challenges the rare CTC isolation and enrichment.
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Computational cytometer based on magnetically modulated coherent imaging and deep learning

Computational cytometer based on magnetically modulated coherent imaging and deep learning | from Flow Cytometry to Cytomics | Scoop.it
Detecting rare cells within blood has numerous applications in disease diagnostics. Existing rare cell detection techniques are typically hindered by their high cost and low throughput. Here, we present a computational cytometer based on magnetically modulated lensless speckle imaging, which introduces oscillatory motion to the magnetic-bead-conjugated rare cells of interest through a periodic magnetic force and uses lensless time-resolved holographic speckle imaging to rapidly detect the target cells in three dimensions (3D). In addition to using cell-specific antibodies to magnetically label target cells, detection specificity is further enhanced through a deep-learning-based classifier that is based on a densely connected pseudo-3D convolutional neural network (P3D CNN), which automatically detects rare cells of interest based on their spatio-temporal features under a controlled magnetic force. To demonstrate the performance of this technique, we built a high-throughput, compact and cost-effective prototype for detecting MCF7 cancer cells spiked in whole blood samples. Through serial dilution experiments, we quantified the limit of detection (LoD) as 10 cells per millilitre of whole blood, which could be further improved through multiplexing parallel imaging channels within the same instrument. This compact, cost-effective and high-throughput computational cytometer can potentially be used for rare cell detection and quantification in bodily fluids for a variety of biomedical applications. Rare cells of medical significance can be detected in blood by a high-throughput imaging technique that analyzes movements of magnetically-labelled target cells using deep-learning. Analysis of magnetically-modulated light interference using an artificial neural network enhances the ability of the system to specifically and sensitively detect the tagged cells as they respond to a periodically changing magnetic field. Researchers in the USA, led by Aydogan Ozcan at the University of California, Los Angeles, demonstrated the technique using rare cancer cells added to blood. They achieved a detection limit as low as ten cells per milliliter. The optical system uses a holographic process called speckle imaging, which is much more compact and achieves higher throughput than traditional methods. It holds significant potential for the rapid analysis of blood and other bodily fluids to diagnose and monitor disease.
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Mechanisms of 3D cell migration

Mechanisms of 3D cell migration | from Flow Cytometry to Cytomics | Scoop.it
Cell migration is essential for physiological processes as diverse as development, immune defence and wound healing. It is also a hallmark of cancer malignancy. Thousands of publications have elucidated detailed molecular and biophysical mechanisms of cultured cells migrating on flat, 2D substrates of glass and plastic. However, much less is known about how cells successfully navigate the complex 3D environments of living tissues. In these more complex, native environments, cells use multiple modes of migration, including mesenchymal, amoeboid, lobopodial and collective, and these are governed by the local extracellular microenvironment, specific modalities of Rho GTPase signalling and non-muscle myosin contractility. Migration through 3D environments is challenging because it requires the cell to squeeze through complex or dense extracellular structures. Doing so requires specific cellular adaptations to mechanical features of the extracellular matrix (ECM) or its remodelling. In addition, besides navigating through diverse ECM environments and overcoming extracellular barriers, cells often interact with neighbouring cells and tissues through physical and signalling interactions. Accordingly, cells need to call on an impressively wide diversity of mechanisms to meet these challenges. This Review examines how cells use both classical and novel mechanisms of locomotion as they traverse challenging 3D matrices and cellular environments. It focuses on principles rather than details of migratory mechanisms and draws comparisons between 1D, 2D and 3D migration. When cells migrate through complex 3D environments, as are most tissues, they encounter several challenges, including the need to adapt to changing biomechanical properties of the surroundings, squeezing through narrow passages and coordinating motion with other cells. A better understanding of 3D cell migration mechanisms provides key insights into development, tissue regeneration, immune responses and cancer cell dissemination.
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Type Purification by Single- Transcriptome-Trained Sorting

Type Purification by Single- Transcriptome-Trained Sorting | from Flow Cytometry to Cytomics | Scoop.it
By integrating single-cell transcriptomics data with FACS index sorting data, GateID
can be used to set nonintuitive sorting gates to efficiently isolate pure, live populations
of desired cell types from heterogenous mixtures without the need for identifying
labels, such as antibodies or transgenic reporters.
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Automated High-Throughput Flow Cytometry for High-Content Screening in Antibody Development. - PubMed - NCBI

Automated High-Throughput Flow Cytometry for High-Content Screening in Antibody Development. - PubMed - NCBI | from Flow Cytometry to Cytomics | Scoop.it
PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
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