keyword
MENU ▼
Read by QxMD icon Read
search

Single-cell

keyword
https://www.readbyqxmd.com/read/28110509/urine-cytology-findings-of-primary-paraganglioma-of-the-urinary-bladder-case-report
#1
Junghye Lee, Sanghui Park, Min-Sun Cho, Sun Hee Sung, Kwang Hyun Kim
Paraganglioma (PG) of the urinary bladder was detected in a 64-year-old male who was admitted to the hospital with gross hematuria. In voided urine, atypical cells were scattered as nests and single cells on low-power view. On higher-power view, tumor nests were composed of epithelioid cells with fine chromatin and moderate cytoplasm admixed with occasional spindle sustentacular cells. Single cells were discohesive and large with moderate cytoplasm and inconspicuous nucleoli. Subsequent cystoscopy revealed a solid oval mass...
January 22, 2017: Diagnostic Cytopathology
https://www.readbyqxmd.com/read/28110496/heterogenic-response-of-prokaryotes-toward-silver-nanoparticles-and-ions-is-facilitated-by-phenotypes-and-attachment-of-silver-aggregates-to-cell-surfaces
#2
Yuting Guo, Hans J Stärk, Gerd Hause, Matthias Schmidt, Hauke Harms, Lukas Y Wick, Susann Müller
Tons of anthropogenic silver nanoparticles (AgNPs) are assumed to be released into the environment due to their use in many consumer products. AgNPs are known to be toxic toward microorganisms and thus may harm their specific functions in ecosystems. Here we explore the impact of AgNPs on functioning of single cells in microbial populations at doses typically found in anthropogenic environments. The response of single cells to AgNPs was analyzed by flow cytometry and using the fluorescent dyes propidium iodide and DiBAC4 (3) as markers for cell membrane disintegration and depolarization, respectively...
January 22, 2017: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/28110020/tumor-evolution-linear-branching-neutral-or-punctuated
#3
Alexander Davis, Ruli Gao, Nicholas Navin
Intratumor heterogeneity has been widely reported in human cancers, but our knowledge of how this genetic diversity emerges over time remains limited. A central challenge in studying tumor evolution is the difficulty in collecting longitudinal samples from cancer patients. Consequently, most studies have inferred tumor evolution from single time-point samples, providing very indirect information. These data have led to several competing models of tumor evolution: linear, branching, neutral and punctuated. Each model makes different assumptions regarding the timing of mutations and selection of clones, and therefore has different implications for the diagnosis and therapeutic treatment of cancer patients...
January 18, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28109325/studying-hematopoiesis-using-single-cell-technologies
#4
REVIEW
Fang Ye, Wentao Huang, Guoji Guo
Hematopoiesis is probably the best-understood stem cell differentiation system; hematopoietic stem cell (HSC) transplantation represents the most widely used regenerative therapy. The classical view of lineage hierarchy in hematopoiesis is built on cell type definition system by a group of cell surface markers. However, the traditional model is facing increasing challenges, as many classical cell types are proved to be heterogeneous. Recently, the developments of new technologies allow genome, transcriptome, proteome, and epigenome analysis at the single-cell level...
January 21, 2017: Journal of Hematology & Oncology
https://www.readbyqxmd.com/read/28108933/modelling-genome-wide-topological-associating-domains-in-mouse-embryonic-stem-cells
#5
REVIEW
Y Zhan, L Giorgetti, G Tiana
Chromosome conformation capture (3C)-based techniques such as chromosome conformation capture carbon copy (5C) and Hi-C revealed that the folding of mammalian chromosomes is highly hierarchical. A fundamental structural unit in the hierarchy is represented by topologically associating domains (TADs), sub-megabase regions of the genome within which the chromatin fibre preferentially interacts. 3C-based methods provide the mean contact probabilities between chromosomal loci, averaged over a large number of cells, and do not give immediate access to the single-cell conformations of the chromatin fibre...
January 20, 2017: Chromosome Research
https://www.readbyqxmd.com/read/28107752/genome-nuclear-lamina-interactions-from-cell-populations-to-single-cells
#6
REVIEW
J Omar Yáñez-Cuna, Bas van Steensel
Lamina-associated domains (LADs) are large genomic regions that interact with the nuclear lamina (NL) and help to guide the spatial folding of chromosomes in the interphase nucleus. LADs have been linked to gene repression and other functions. Recent studies have begun to uncover some of the molecular players that drive LAD-NL interactions. A picture emerges in which DNA sequence, chromatin components and nuclear lamina proteins play an important role. Complementary to this, imaging and single-cell genomics approaches have revealed that some LAD-NL interactions are variable from cell to cell, while others are very stable...
January 17, 2017: Current Opinion in Genetics & Development
https://www.readbyqxmd.com/read/28107390/melanoma-cell-adhesion-and-migration-is-modulated-by-the-uronyl-2-o-sulfotransferase
#7
Katerina Nikolovska, Dorothe Spillmann, Jörg Haier, Andrea Ladányi, Christian Stock, Daniela G Seidler
Although the vast majority of melanomas are characterized by a high metastatic potential, if detected early, melanoma can have a good prognostic outcome. However, once metastasised, the prognosis is bleak. We showed previously that uronyl-2-O sulfotransferase (Ust) and 2-O sulfation of chondroitin/dermatan sulfate (CS/DS) are involved in cell migration. To demonstrate an impact of 2-O sulfation in metastasis we knocked-down Ust in mouse melanoma cells. This significantly reduced the amount of Ust protein and enzyme activity...
2017: PloS One
https://www.readbyqxmd.com/read/28106918/divergent-cytosine-dna-methylation-patterns-in-single-cell-soybean-root-hairs
#8
Md Shakhawat Hossain, Taiji Kawakatsu, Kyung Do Kim, Zhang Ning, Cuong T Nguyen, Saad M Khan, Josef M Batek, Trupti Joshi, Jeremy Schmutz, Jane Grimwood, Robert J Schmitz, Dong Xu, Scott A Jackson, Joseph R Ecker, Gary Stacey
Chromatin modifications, such as cytosine methylation of DNA, play a significant role in mediating gene expression in plants, which affects growth, development, and cell differentiation. As root hairs are single-cell extensions of the root epidermis and the primary organs for water uptake and nutrients, we sought to use root hairs as a single-cell model system to measure the impact of environmental stress. We measured changes in cytosine DNA methylation in single-cell root hairs as compared with multicellular stripped roots, as well as in response to heat stress...
January 20, 2017: New Phytologist
https://www.readbyqxmd.com/read/28106748/two-dimensional-numerical-simulations-of-ultrasound-in-liquids-with-gas-bubble-agglomerates-examples-of-bubbly-liquid-type-acoustic-metamaterials-blamms
#9
Christian Vanhille
This work deals with a theoretical analysis about the possibility of using linear and nonlinear acoustic properties to modify ultrasound by adding gas bubbles of determined sizes in a liquid. We use a two-dimensional numerical model to evaluate the effect that one and several monodisperse bubble populations confined in restricted areas of a liquid have on ultrasound by calculating their nonlinear interaction. The filtering of an input ultrasonic pulse performed by a net of bubbly-liquid cells is analyzed. The generation of a low-frequency component from a single cell impinged by a two-frequency harmonic wave is also studied...
January 17, 2017: Sensors
https://www.readbyqxmd.com/read/28105940/integrated-single-cell-data-analysis-reveals-cell-specific-networks-and-novel-coactivation-markers
#10
Shila Ghazanfar, Adam J Bisogni, John T Ormerod, David M Lin, Jean Y H Yang
BACKGROUND: Large scale single cell transcriptome profiling has exploded in recent years and has enabled unprecedented insight into the behavior of individual cells. Identifying genes with high levels of expression using data from single cell RNA sequencing can be useful to characterize very active genes and cells in which this occurs. In particular single cell RNA-Seq allows for cell-specific characterization of high gene expression, as well as gene coexpression. RESULTS: We offer a versatile modeling framework to identify transcriptional states as well as structures of coactivation for different neuronal cell types across multiple datasets...
December 5, 2016: BMC Systems Biology
https://www.readbyqxmd.com/read/28105840/recent-advances-in-the-analysis-of-single-cells
#11
Lucas Armbrecht, Petra S Dittrich
No abstract text is available yet for this article.
January 3, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28103756/compression-induced-chondrogenic-differentiation-of-embryonic-stem-cells-in-3-d-pdms-scaffolds
#12
Christina McKee, Yifeng Hong, Donggang Yao, G Rasul Chaudhry
Embryonic stem cells (ESCs) are an ideal source for chondrogenic progenitors for the repair of damaged cartilage tissue. It is currently difficult to induce uniform and scalable ESC differentiation in vitro, a process required for stem cell therapy. This is partly because stem cell fate is determined by complex interactions with the native microenvironment and mechanical properties of the extracellular matrix. Mechanical signaling is considered to be one of the major factors regulating the proliferation and differentiation of chondrogenic cells both in vitro and in vivo...
January 19, 2017: Tissue Engineering. Part A
https://www.readbyqxmd.com/read/28103286/mirnas-do-not-regulate-circadian-protein-synthesis-in-the-dinoflagellate-lingulodinium-polyedrum
#13
Steve Dagenais-Bellefeuille, Mathieu Beauchemin, David Morse
Dinoflagellates have been shown to express miRNA by bioinformatics and RNA blot (Northern) analyses. However, it is not yet known if miRNAs are able to alter gene expression in this class of organisms. We have assessed the possibility that miRNA may mediate circadian regulation of gene expression in the dinoflagellate Lingulodinium polyedrum using the Luciferin Binding Protein (LBP) as a specific example. LBP is a good candidate for regulation by miRNA since mRNA levels are constant over the daily cycle while protein synthesis is restricted by the circadian clock to a period of several hours at the start of the night phase...
2017: PloS One
https://www.readbyqxmd.com/read/28103239/identifying-t-cell-receptors-from-high-throughput-sequencing-dealing-with-promiscuity-in-tcr%C3%AE-and-tcr%C3%AE-pairing
#14
Edward S Lee, Paul G Thomas, Jeff E Mold, Andrew J Yates
Characterisation of the T cell receptors (TCR) involved in immune responses is important for the design of vaccines and immunotherapies for cancer and autoimmune disease. The specificity of the interaction between the TCR heterodimer and its peptide-MHC ligand derives largely from the juxtaposed hypervariable CDR3 regions on the TCRα and TCRβ chains, and obtaining the paired sequences of these regions is a standard for functionally defining the TCR. A brute force approach to identifying the TCRs in a population of T cells is to use high-throughput single-cell sequencing, but currently this process remains costly and risks missing small clones...
January 19, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28102411/defect-driven-shapes-in-nematic-droplets-analogies-with-cell-division
#15
Marco Leoni, Oksana V Manyuhina, Mark J Bowick, M Cristina Marchetti
Building on the striking similarity between the structure of the spindle during mitosis in living cells and nematic textures in confined liquid crystals, we use a continuum model of two-dimensional nematic liquid crystal droplets to examine the physical aspects of cell division. The model investigates the interplay between bulk elasticity of the microtubule assembly, described as a nematic liquid crystal, and surface elasticity of the cell cortex, modeled as a bounding flexible membrane, in controlling cell shape and division...
January 19, 2017: Soft Matter
https://www.readbyqxmd.com/read/28102345/corrigendum-a-comprehensive-strategy-for-the-analysis-of-acoustic-compressibility-and-optical-deformability-on-single-cells
#16
Tie Yang, Francesca Bragheri, Giovanni Nava, Ilaria Chiodi, Chiara Mondello, Roberto Osellame, Kirstine Berg-Sørensen, Ilaria Cristiani, Paolo Minzioni
No abstract text is available yet for this article.
January 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28102262/scaling-single-cell-genomics-from-phenomenology-to-mechanism
#17
Amos Tanay, Aviv Regev
Three of the most fundamental questions in biology are how individual cells differentiate to form tissues, how tissues function in a coordinated and flexible fashion and which gene regulatory mechanisms support these processes. Single-cell genomics is opening up new ways to tackle these questions by combining the comprehensive nature of genomics with the microscopic resolution that is required to describe complex multicellular systems. Initial single-cell genomic studies provided a remarkably rich phenomenology of heterogeneous cellular states, but transforming observational studies into models of dynamics and causal mechanisms in tissues poses fresh challenges and requires stronger integration of theoretical, computational and experimental frameworks...
January 18, 2017: Nature
https://www.readbyqxmd.com/read/28102192/the-impact-of-micrornas-on-transcriptional-heterogeneity-and-gene-co-expression-across-single-embryonic-stem-cells
#18
Gennaro Gambardella, Annamaria Carissimo, Amy Chen, Luisa Cutillo, Tomasz J Nowakowski, Diego di Bernardo, Robert Blelloch
MicroRNAs act posttranscriptionally to suppress multiple target genes within a cell population. To what extent this multi-target suppression occurs in individual cells and how it impacts transcriptional heterogeneity and gene co-expression remains unknown. Here we used single-cell sequencing combined with introduction of individual microRNAs. miR-294 and let-7c were introduced into otherwise microRNA-deficient Dgcr8 knockout mouse embryonic stem cells. Both microRNAs induce suppression and correlated expression of their respective gene targets...
January 19, 2017: Nature Communications
https://www.readbyqxmd.com/read/28101134/single-cell-isolation-process-with-laser-induced-forward-transfer
#19
Yu Deng, Philippe Renaud, Zhongning Guo, Zhigang Huang, Ying Chen
BACKGROUND: A viable single cell is crucial for studies of single cell biology. In this paper, laser-induced forward transfer (LIFT) was used to isolate individual cell with a closed chamber designed to avoid contamination and maintain humidity. Hela cells were used to study the impact of laser pulse energy, laser spot size, sacrificed layer thickness and working distance. The size distribution, number and proliferation ratio of separated cells were statistically evaluated. Glycerol was used to increase the viscosity of the medium and alginate were introduced to soften the landing process...
2017: Journal of Biological Engineering
https://www.readbyqxmd.com/read/28100889/cotransfer-of-regulatory-t-cells-improve-the-therapeutic-effectiveness-of-mesenchymal-stem-cells-in-treating-a-colitis-mouse-model
#20
Yang Yu, Tianyu Zhao, Deqin Yang
Inflammatory bowel disease (IBD) is a severe inflammatory condition in the colon. To date, clinical solutions for this disease have been limited. Mesenchymal stem cells (MSCs), multipotential cells with immune regulation and anti-inflammatory functions, have been applied to treatment of IBD. However, the therapeutic effectiveness of MSCs still needs to be improved. Here, we were interested in whether regulatory T cells (Tregs) could enhance the immune regulation function of MSCs in treatment of mouse colitis...
January 19, 2017: Experimental Animals
keyword
keyword
13275
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"