Abstract
The production of recombinant proteins usually involves the exploration of a wide variety of expression and purification methodologies in the pursuit of a strategy tailored to a particular protein. The methods applied are reliant on exploiting individual differences between expression systems or the...
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PMID: 18988024
PDF is available here.
Abstract
We highlight recent advances in understanding the molecular mechanism of actin nucleation by both well-characterized and newly identified nucleators, and explore current insights into their cellular functions in membrane trafficking, cell migration and division. The mechanisms and functions of actin...
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PMID: 21093244
PDF is available here.
Abstract
We examined the specificity of several commercially available anti-phosphorylated GSK-3 antibodies. We show that antibodies raised to peptides containing the phosphorylated Ser21/9 epitope crossreact with unidentified antigens that are highly expressed by mitotic cells and that mainly localise to sp...
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PMID: 21261990
PDF is available here.
Abstract
We show that matrix degradation at the cell material interface depends on surface chemistry in MMP-dependent way.
This work provides a broad overview of matrix remodeling at the cell-material interface, establishing correlations between surface chemistry, FN adsorption, cell adhesion...
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PMID: 21573010
PDF is available here.
Abstract
We reported here that safingol-induced primarily accidental necrotic cell death in MDA-MB-231 and HT-29 cells, as shown by the increase in the percentage of cells stained positive for 7-aminoactinomycin D, collapse of mitochondria membrane potential and depletion of intracellular ATP. Importantly, s...
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PMID: 21390063
PDF is available here.
Abstract
We report the implementation of a fully on-chip, lensless, sub-pixel resolving optofluidic microscope (SROFM). The device utilizes microfluidic flow to deliver specimens directly across a complementary metal oxide semiconductor (CMOS) sensor to generate a sequence of low-resolution (LR) projection i...
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PMID: 20877904
PDF is available here.
Abstract
Mitogen-activated protein kinase (MAPK) signalling occurs in response to almost any change in the extracellular or intracellular milieu that affects the metabolism of the cell, organ or the entire organism. MAPK-dependent signal transduction is required for physiological metabolic adaptation, but in...
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PMID: 20930846
PDF is available here.
Abstract
One of the biggest gaps in our knowledge about epigenomes is how their interplay with cellular signaling influences development, adult cellular differentiation and disease.
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PMID: 20944593
PDF is available here.
Abstract
We describe recent work that highlights a new phosphatase from an intestinal and wound-invading pathogen that manipulates host cell phosphoinositide circuits. Despite the active-site homology between bacterial inositol phosphatases and mammalian phosphatases, sequence differences between them sugges...
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PMID: 20881278
PDF is available here.
Abstract
We propose a new and simple method to quantify the signal-dependent and the non-signal-dependent components of the noise from a single fluorescence microscopy image. No reference image is required and the computation time allows on line quantification of the noise. The estimation is realized in two...
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PMID: 20462738
PDF is available here.
Abstract
We showed that pam-1 mutants fail to polarize the A-P axis. Here we show that PAM-1 can be found in mature sperm and in cytoplasm throughout early embryogenesis where it concentrates around mitotic centrosomes and chromosomes. We provide further evidence that PAM-1 acts early in the polarization pro...
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PMID: 20599902
PDF is available here.
Abstract
The HGF/c-Met pathway is an important regulator of signaling pathways responsible for invasion and metastasis of most human cancers, including prostate cancer. Exposure of DU145 prostate tumor cells to HGF stimulates the PI3-kinase and MAPK pathways, leading to increased scattering, motility, and in...
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PMID: 20623641
PDF is available here.
Abstract
We previously showed the feasibility of using locked nucleic acid (LNA) for flow cytometric-fluorescence in situ hybridization (LNA flow-FISH) detection of a target cellular mRNA. Here we demonstrate how the method can be used to monitor viral RNA in infected cells. We compared the results of the LN...
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PMID: 20584898
PDF is available here.
Guorong Xu,
Claire Fewell,
Christopher Taylor,
Nan Deng,
Dale Hedges,
Xia Wang,
Kun Zhang,
Michelle Lacey,
Haitao Zhang,
Qinyan Yin,
Jennifer Cameron,
Zhen Lin,
Dongxiao Zhu and
Erik K Flemington
Abstract
We used Illumina NGS to analyze transcriptome changes induced by the human microRNA MIR155. This analysis resulted in a larger inferred targetome than similar studies carried out using microarray platforms. A comparison with 3' UTR reporter data demonstrated general concordance between NGS and corre...
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PMID: 20584899
PDF is available here.
Abstract
We review recent progress made in understanding the molecular mechanisms of copper transport in cells by analyzing structural features of copper proteins, their mode of interaction, and their thermodynamic and kinetic parameters, thus contributing to systems biology of copper within the cell....
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PMID: 20333435
PDF is available here.
Abstract
We discuss four different types of cellular shellizations: man-made hydrogels, sol-gels, polyelectrolytes, and mineral shells. We also explore potential applications, such as cell storage, protection, delivery, and therapy. We suggest that shellization could provide another means to regulate and fun...
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PMID: 20658708
PDF is available here.
Abstract
Accumulating lines of experimental evidence have revealed that the malignant transformation of multipotent tissue-resident adult stem/progenitor cells into cancer stem/progenitor cells endowed with a high self-renewal capacity and aberrant multilineage differentiation potential may be at origin of t...
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PMID: 20552555
PDF is available here.
Abstract
Minimal cells comprise only the genes and biomolecular machinery necessary for basic life. Synthesizing minimal and minimized cells will improve understanding of core biology, enhance development of biotechnology strains of bacteria, and enable evolutionary optimization of natural and unnatural biop...
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PMID: 20638265
PDF is available here.
Abstract
Recent advances in defining the molecular signaling pathways that regulate the phagocytosis of apoptotic cells have improved our understanding of this complex and evolutionarily conserved process. Studies in mice and humans suggest that the prompt removal of dying cells is crucial fo...
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PMID: 20584912
PDF is available here.
Abstract
We include several successful examples of microfluidics solving these high-throughput problems. The paper also highlights other applications that can be developed in the future....
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PMID: 20383347
PDF is available here.
Abstract
The plasma membrane of a eukaryotic cell is impermeable to most hydrophilic substances, yet the insertion of these materials into cells is an extremely important and universal requirement for the cell biologist. To address this need, many transfection techniques have been developed i...
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PMID: 20064901
PDF is available here.
Abstract
Perfluorocarbons (PFCs) are inert solutions that have a high capacity for dissolving oxygen. There has been a continuing level of research into the delivery of oxygen during solid organ preservation with the use of PFCs. The one- and two-layer methods have been used as static storage techniques, pro...
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PMID: 20393403
PDF is available here.
Abstract
We describe methods for computer-based analysis of multidimensional live cell microscopy images and their application to study the dynamics of cells and particles. First, we sketch a general workflow for quantitative analysis of live cell images. Then, we detail computational methods for automatic i...
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PMID: 20516188
PDF is available here.
Abstract
We describe two approaches for creating aligned three-dimensional collagen matrices, both dependent and independent of cell-mediated alignment. Approaches to quantify alignment and visualize the collagen matrix relative to the cells by second-harmonic generation are included. These assays are readil...
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PMID: 20521230
PDF is available here.
Abstract
We applied SCNP to a panel of compounds with reported inhibitory effects on Jak/Stat signaling using a novel system where modulation of multiple signaling cascades are simultaneously measured in discrete cell subsets in whole (ie, unfractionated) blood. Jak2 vs. Jak3 selectivity as well as "off-targ...
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PMID: 20158439
PDF is available here.
Abstract
We present a novel flow-through electroporation method for delivery of genes into cells at high flow rates (up to approximately 20 mL/min) based on disposable microfluidic chips, a syringe pump, and a low-cost direct current (DC) power supply that provides a constant voltage. By eliminating pulse ge...
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PMID: 20117155
PDF is available here.
Tao Zhao,
Hiroshi Harada,
Yuji Teramura,
Shotaro Tanaka,
Satoshi Itasaka,
Akiyo Morinibu,
Kazumi Shinomiya,
Yuxi Zhu,
Hirofumi Hanaoka,
Hiroo Iwata,
Hideo Saji and
Masahiro Hiraoka
Abstract
We established a novel method of specifically tagging the surface of MMP2- and MT1-MMP-positive cells, and applied it to the development of an optical imaging probe. We constructed a protein-based probe composed of a glutathione-S-transferase (GST)-tag (Inhibitory [I]-domain), a polypeptide as a spe...
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PMID: 20096316
PDF is available here.
Abstract
An overview is presented which describes the development of fluorescence spectroscopy at the cellular level from its beginning as a quantitative tool to determine the content of cellular components to its present use. Analysis of individual biomolecules, their transport and kinetics within a single...
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PMID: 20494133
PDF is available here.
Abstract
We describe here the new copper-selective fluorescent probes FluTPA1 and FluTPA2, in which the tetradentate ligand tris[(2-pyridyl)methyl]amine (TPA) is connected to a reduced form of a fluorescein platform through a benzyl ether linkage. These probes selectively react with copper ions in the presen...
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PMID: 20377254
PDF is available here.
Abstract
BACKGROUND: Cell-free DNA is observed to be more in exudative pleural effusions. Based on this fact development of a clinical chemistry test for classification of pleural effusion will require DNA extraction followed by PCR amplification and electrophoresis. These procedures may not be cost effectiv...
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PMID: 20138858
PDF is available here.
Abstract
We apply several different methodologies, in a time-resolved manner, to follow the lifetime of such biomolecular "coronas" both in situ and isolated from the excess plasma. We find that such particle-biomolecule complexes can be physically isolated from the surrounding medium and studied in some det...
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PMID: 20356039
PDF is available here.
Abstract
The CS-treated animals showed significant increases in epididymal sperm count and absolute testes weights compared to the control group. CS also increased the expression of GDNF at both the mRNA and protein levels. These results suggest that CS may improve male fertility by enhancing spermatogenesis...
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PMID: 20219665
PDF is available here.
Abstract
We have computationally studied the effect of crowding upon protein folding for 12 small domains in a simulated cell using a coarse-grained protein model, which is based upon Langevin dynamics, designed to unify the often disjoint goals of protein folding simulation and structure prediction. The mod...
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PMID: 20149797
PDF is available here.
Abstract
We know about the cell concerns its constituent parts, but to a great extent we have yet to decode how these parts are organized to yield complex physiological function. Classically, we have learned about the organization of cellular networks by disrupting them through genetic or chemical means. The...
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PMID: 20192780
PDF is available here.
Abstract
We present a novel device based on elastomeric materials that allowed us to stimulate NIH 3T3 fibroblasts through uniaxial strip stretching or shear fluid flow. Cell shape and structural response was observed using conventional approaches such as fluorescent microscopy. Cell orientation and actin cy...
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PMID: 20033625
PDF is available here.
Abstract
We demonstrate an on-chip fluorescent detection platform that can simultaneously image fluorescent micro-objects or labeled cells over an ultra-large field-of-view of 2.5 cm x 3.5 cm without the use of any lenses, thin-film filters and mechanical scanners. Such a wide field-of-view lensless fluoresce...
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PMID: 20379564
PDF is available here.
Abstract
We have therefore implemented a robotic high-throughput structure-function experimental system based on the automatic generation and assaying of hundreds of site-directed mutants in the archaeal RNAP from Methanocaldococcus jannaschii. In the present paper, I focus on recent insights obtained from a...
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PMID: 20298196
PDF is available here.
Abstract
Between 21 and 25 September 2009, Krakow hosted the 4th Conference of the Polish Society of Experimental Plant Biology, co-organized with the Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Krakow, and supported by the Biochemical Society. The aim of the conference wa...
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PMID: 20298236
PDF is available here.
Abstract
We have shown that PLDs (phospholipases D) and their product, PA (phosphatidic acid), belong to the regulators of the secretory pathway in plants. We have also shown that specific NOXs (NADPH oxidases) producing ROS (reactive oxygen species) are involved in cell growth as exemplified by pollen tubes...
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PMID: 20298250
PDF is available here.
Abstract
The diversity and impact of label-free technologies continues to expand in drug discovery. Two classes of label-free instruments, using either an electrical impedance-based or an optical-based biosensor, are now available for investigating the effects of ligands on cellular targets....
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PMID: 20085460
PDF is available here.
Abstract
We found that this involves interaction of Tbeta4 with Ku80, which has recently been described by us to mediate Tbeta4 intracellular activity....
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PMID: 20536451
PDF is available here.
Abstract
We collected the cells, extracted mRNA and measured the expressions of TLR7, MyD88, IRAK4, TRAF6 and NF-kappaB p65 respectively by RT-PCR. RESULT: Dureping injection down-regulated the expression of TLR7, MyD88, IRAK4, TRAF6 and NF-kappaB p65 mRNA in Ana-1 cell line infected by influenza virus, in a...
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PMID: 20545200
PDF is available here.
Abstract
We report the results of the first experiments with TK6 cells that were exposed at a constant dose rate, at an increasing dose rate, or at a decreasing dose rate. The average dose rate and the total dose were same for all samples. Micronuclei were scored as the end point. The results show that the l...
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PMID: 20199213
PDF is available here.
Abstract
We describe detailed protocols for the application of three biosensors exemplifying different designs-first, a design in which an environmentally sensitive dye is used to report the activation of endogenous Cdc42, followed by two biosensors based on FRET, one using intramolecular and the other inter...
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PMID: 20235099
PDF is available here.
Abstract
We manufactured HA scaffolds with adjustable pore sizes and pore geometry by dispense-plotting. In addition, we attached peptides covalently onto the HA surface and are able to simultaneously quantify the amount of covalently attached and adsorbed peptide down to the picomolar range with a novel flu...
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PMID: 19213057
PDF is available here.
Abstract
By using array-CGH technique, all the four cases were diagnosed precisely through identifying two duplications and two complex derivative chromosomes. CONCLUSION: Array-CGH is an effective method for whole-genome identification of unbalanced chromosomal aberrations with high sensitivity and specific...
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PMID: 20140867
PDF is available here.
Abstract
The nonspecific product of negative control presented an average call rate of 3.2%. The genome coverage of the MDA product increased from 86.4% to 96.4% with the increasing number of template from 1 to 10 cells, while the LOH rate and ADO rate decreased significantly (P<0.05). CONCLUSION: MDA is a h...
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PMID: 20140866
PDF is available here.
Abstract
We have used an inducible cell model to study the expression of Tau variants, the buildup of aggregates, and their removal by the autophagy-lysosomal system. Incomplete chaperone-mediated autophagy of Tau generates amyloidogenic fragments that promote aggregation. The Tau aggregates are removed from...
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PMID: 20023429
PDF is available here.
Abstract
Accurately imaging endogenous or non-engineered RNA in live cells is not an easy task. Ideally, a probe and imaging strategy will have the following properties: (1) functional probes will be delivered to the desired cellular compartment, (2) they will achieve the correct level of affinity to bind ta...
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PMID: 20049827
PDF is available here.
Abstract
We reported that VacA induces autophagy. Multilamellar autophagosomes are detected in gastric epithelial cells that are distinct from the large vacuoles formed by VacA. Furthermore, inhibition of autophagy stabilizes VacA and reduces vacuolation in the cells indicating that the toxin is being degrad...
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PMID: 19875940
PDF is available here.
Abstract
We describe basic protocols to analyze endogenous LC3-II, p62, and autophagy-related proteins by immunoblotting, immunofluorescence, and electron microscopy....
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PMID: 20700714
PDF is available here.
Abstract
We describe here the steps required to retrieve the molecular information from tissue sections using matrix-enhanced (ME) and metal-assisted (MetA) secondary ion mass spectrometry (SIMS). Surface metallization by plasma coating enhances desorption/ionization of membrane components such as lipids and...
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PMID: 20680592
PDF is available here.
Abstract
In vitro photodynamic therapy experiments are usually performed by irradiating cells in confluent or nearly confluent monolayer cultures. Oxygen is consumed in the monolayer by photodynamic reactions and cellular respiration and is supplied by diffusion from the overlying medium. Calculations of oxy...
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PMID: 20552349
PDF is available here.