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Evaluation and comparison of diffusion MR methods for measuring apparent transcytolemmal water exchange rate constant.
Tian X, Li H, Jiang X, Xie J, Gore JC, Xu J
(2017) J Magn Reson 275: 29-37
MeSH Terms: Algorithms, Cell Biology, Cell Membrane Permeability, Cell Size, Cells, Computer Simulation, Diffusion Magnetic Resonance Imaging, Electromagnetic Fields, Humans, K562 Cells, Kinetics, Saponins, Signal-To-Noise Ratio, Water
Show Abstract · Added April 10, 2017
Two diffusion-based approaches, CG (constant gradient) and FEXI (filtered exchange imaging) methods, have been previously proposed for measuring transcytolemmal water exchange rate constant k, but their accuracy and feasibility have not been comprehensively evaluated and compared. In this work, both computer simulations and cell experiments in vitro were performed to evaluate these two methods. Simulations were done with different cell diameters (5, 10, 20μm), a broad range of k values (0.02-30s) and different SNR's, and simulated k's were directly compared with the ground truth values. Human leukemia K562 cells were cultured and treated with saponin to selectively change cell transmembrane permeability. The agreement between measured k's of both methods was also evaluated. The results suggest that, without noise, the CG method provides reasonably accurate estimation of k especially when it is smaller than 10s, which is in the typical physiological range of many biological tissues. However, although the FEXI method overestimates k even with corrections for the effects of extracellular water fraction, it provides reasonable estimates with practical SNR's and more importantly, the fitted apparent exchange rate AXR showed approximately linear dependence on the ground truth k. In conclusion, either CG or FEXI method provides a sensitive means to characterize the variations in transcytolemmal water exchange rate constant k, although the accuracy and specificity is usually compromised. The non-imaging CG method provides more accurate estimation of k, but limited to large volume-of-interest. Although the accuracy of FEXI is compromised with extracellular volume fraction, it is capable of spatially mapping k in practice.
Copyright © 2016 Elsevier Inc. All rights reserved.
0 Communities
2 Members
0 Resources
14 MeSH Terms
Biophysical Journal special issue: focus on quantitative cell biology.
Piston DW
(2014) Biophys J 107: E01
MeSH Terms: Biophysical Phenomena, Cell Biology, Periodicals as Topic, Signal Transduction
Added May 5, 2017
0 Communities
1 Members
0 Resources
4 MeSH Terms
Clinical evaluation, imaging studies, indications for cytologic study, and preprocedural requirements for duct brushing studies and pancreatic FNA: the Papanicolaou Society of Cytopathology recommendations for pancreatic and biliary cytology.
Adler D, Max Schmidt C, Al-Haddad M, Barthel JS, Ljung BM, Merchant NB, Romagnuolo J, Shaaban AM, Simeone D, Bishop Pitman M, Field A, Layfield LJ, Papanicolaou Society of Cytopathology
(2014) Diagn Cytopathol 42: 325-32
MeSH Terms: Biliary Tract, Biopsy, Fine-Needle, Cell Biology, Diagnostic Imaging, Humans, Pancreas, Societies, Medical, Ultrasonography
Show Abstract · Added March 10, 2014
The Papanicolaou Society of Cytopathology has developed a set of guidelines for pancreaticobiliary cytology including indications for endoscopic ultrasound (EUS) and fine-needle aspiration (FNA) biopsy, techniques for EUS-FNA, terminology and nomenclature to be used for pancreaticobiliary disease, ancillary testing, and post-biopsy management. All documents are based on expertise of the authors, literature review, discussions of the draft document at national and international meetings, and synthesis of online comments of the draft document. This document selectively presents the results of these discussions. This document summarizes recommendations for the clinical and imaging work-up of pancreatic and biliary tract lesions along with indications for cytologic study of these lesions. Prebrushing and FNA requirements are also discussed.
Copyright © 2014 Wiley Periodicals, Inc.
0 Communities
1 Members
0 Resources
8 MeSH Terms
In vivo cell biology in zebrafish - providing insights into vertebrate development and disease.
Vacaru AM, Unlu G, Spitzner M, Mione M, Knapik EW, Sadler KC
(2014) J Cell Sci 127: 485-95
MeSH Terms: Animals, Cell Biology, Cell Movement, Embryonic Development, Humans, Microtubules, Phenotype, Vertebrates, Vesicular Transport Proteins, Zebrafish
Show Abstract · Added April 26, 2017
Over the past decades, studies using zebrafish have significantly advanced our understanding of the cellular basis for development and human diseases. Zebrafish have rapidly developing transparent embryos that allow comprehensive imaging of embryogenesis combined with powerful genetic approaches. However, forward genetic screens in zebrafish have generated unanticipated findings that are mirrored by human genetic studies: disruption of genes implicated in basic cellular processes, such as protein secretion or cytoskeletal dynamics, causes discrete developmental or disease phenotypes. This is surprising because many processes that were assumed to be fundamental to the function and survival of all cell types appear instead to be regulated by cell-specific mechanisms. Such discoveries are facilitated by experiments in whole animals, where zebrafish provides an ideal model for visualization and manipulation of organelles and cellular processes in a live vertebrate. Here, we review well-characterized mutants and newly developed tools that underscore this notion. We focus on the secretory pathway and microtubule-based trafficking as illustrative examples of how studying cell biology in vivo using zebrafish has broadened our understanding of the role fundamental cellular processes play in embryogenesis and disease.
1 Communities
1 Members
0 Resources
10 MeSH Terms
Analysis of protein and lipid dynamics using confocal fluorescence recovery after photobleaching (FRAP).
Day CA, Kraft LJ, Kang M, Kenworthy AK
(2012) Curr Protoc Cytom Chapter 2: Unit2.19
MeSH Terms: Animals, COS Cells, Cell Biology, Cell Membrane, Chlorocebus aethiops, DNA, Complementary, Diffusion, Fluorescence Recovery After Photobleaching, Image Processing, Computer-Assisted, Kinetics, Lipids, Microscopy, Confocal, Models, Statistical, Plasmids, Proteins, Software
Show Abstract · Added December 10, 2013
Fluorescence recovery after photobleaching (FRAP) is a powerful, versatile, and widely accessible tool to monitor molecular dynamics in living cells that can be performed using modern confocal microscopes. Although the basic principles of FRAP are simple, quantitative FRAP analysis requires careful experimental design, data collection, and analysis. In this unit, we discuss the theoretical basis for confocal FRAP, followed by step-by-step protocols for FRAP data acquisition using a laser-scanning confocal microscope for (1) measuring the diffusion of a membrane protein, (2) measuring the diffusion of a soluble protein, and (3) analysis of intracellular trafficking. Finally, data analysis procedures are discussed, and an equation for determining the diffusion coefficient of a molecular species undergoing pure diffusion is presented.
© 2012 by John Wiley & Sons, Inc.
0 Communities
1 Members
0 Resources
16 MeSH Terms
Spatial and temporal impacts on a career in science.
Wente SR
(2011) Mol Biol Cell 22: 3923-5
MeSH Terms: Animals, Awards and Prizes, California, Cell Biology, History, 20th Century, History, 21st Century, Humans, Missouri, Nuclear Pore, Tennessee
Show Abstract · Added March 21, 2014
In cell biology, subcellular locale is critical for the action of signaling molecules, for regulation of gene expression, and for proper cell division. In simple terms, everything must be in the right place at the right time. For my research, I have focused on understanding the role the nuclear pore complex (NPC) plays in maintaining this balance. With eukaryotic transcription in the nucleus and translation in the cytoplasm, highly selective import and export events at the NPC connect these spatially separated processes to allow gene expression. In a similar way, spatial and temporal events have repeatedly impacted my scientific career. In different places and times, interactions with mentors, collaborators, colleagues, and trainees have shaped my research and mentoring philosophies: aim high, fuel your passions, collaborate, and take risks to find supportive environments and challenging projects that impact scientific discovery.
0 Communities
1 Members
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10 MeSH Terms
Towards monitoring real-time cellular response using an integrated microfluidics-matrix assisted laser desorption ionisation/nanoelectrospray ionisation-ion mobility-mass spectrometry platform.
Enders JR, Marasco CC, Kole A, Nguyen B, Sevugarajan S, Seale KT, Wikswo JP, McLean JA
(2010) IET Syst Biol 4: 416-27
MeSH Terms: Cell Biology, Cell Physiological Phenomena, Cell Separation, Cells, Humans, Jurkat Cells, Microfluidic Analytical Techniques, Saccharomyces cerevisiae, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Systems Biology
Show Abstract · Added March 7, 2014
The combination of microfluidic cell trapping devices with ion mobility-mass spectrometry offers the potential for elucidating in real time the dynamic responses of small populations of cells to paracrine signals, changes in metabolite levels and delivery of drugs and toxins. Preliminary experiments examining peptides in methanol and recording the interactions of yeast and Jurkat cells with their superfusate have identified instrumental set-up and control parameters and online desalting procedures. Numerous initial experiments demonstrate and validate this new instrumental platform. Future outlooks and potential applications are addressed, specifically how this instrumentation may be used for fully automated systems biology studies of the significantly interdependent, dynamic internal workings of cellular metabolic and signalling pathways.
1 Communities
2 Members
0 Resources
10 MeSH Terms