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https://www.readbyqxmd.com/read/28336542/seten-a-tool-for-systematic-identification-and-comparison-of-processes-phenotypes-and-diseases-associated-with-rna-binding-proteins-from-condition-specific-clip-seq-profiles
#1
Gungor Budak, Rajneesh Srivastava, Sarath Chandra Janga
RNA-binding proteins (RBPs) control the regulation of gene expression in eukaryotic genomes at post-transcriptional level by binding to their cognate RNAs. Although several variants of CLIP (crosslinking and immunoprecipitation) protocols are currently available to study the global protein-RNA interaction landscape at single nucleotide resolution in a cell, currently there are very few tools which can facilitate understanding and dissecting the functional associations of RBPs from the resulting binding maps...
March 23, 2017: RNA
https://www.readbyqxmd.com/read/28335993/biomaterials-innovation-for-next-generation-ex%C3%A2-vivo-immune-tissue-engineering
#2
REVIEW
Ankur Singh
Primary and secondary lymphoid organs are tissues that facilitate differentiation of B and T cells, leading to the induction of adaptive immune responses. These organs are present in the body from birth and are also recognized as locations where self-reactive B and T cells can be eliminated during the natural selection process. Many insights into the mechanisms that control the process of immune cell development and maturation in response to infection come from the analysis of various gene-deficient mice that lack some or all hallmark features of lymphoid tissues...
March 15, 2017: Biomaterials
https://www.readbyqxmd.com/read/28327356/type-2-inositol-trisphosphate-receptor-gene-expression-in-hepatocytes-is-regulated-by-cyclic-amp
#3
Emma Kruglov, M Ananthanarayanan, Pedro Sousa, Jittima Weerachayaphorn, Mateus T Guerra, Michael H Nathanson
The type 2 inositol 1,4,5-trisphosphate receptor (IP3R2) is the principal intracellular Ca(2+) release channel in hepatocytes, and so is important for bile secretion and other functions. IP3R2 activity is regulated in part by post-translational modifications but little is known about transcriptional regulation of its expression. We found that both IP3R2 mRNA and protein levels in liver were increased during fasting. Treatment of hepatocytes with forskolin or 8-CPT-cAMP also increased IP3R2, and this was reduced by actinomycin D...
March 18, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28325912/lysosomal-activity-maintains-glycolysis-and-cyclin-e1-expression-by-mediating-ad4bp-sf-1-stability-for-proper-steroidogenic-cell-growth
#4
Jhih-Siang Syu, Takashi Baba, Jyun-Yuan Huang, Hidesato Ogawa, Chi-Han Hsieh, Jin-Xian Hu, Ting-Yu Chen, Tzu-Chien Lin, Megumi Tsuchiya, Ken-Ichirou Morohashi, Bu-Miin Huang, Fu-L Lu, Chia-Yih Wang
The development and differentiation of steroidogenic organs are controlled by Ad4BP/SF-1 (adrenal 4 binding protein/steroidogenic factor 1). Besides, lysosomal activity is required for steroidogenesis and also enables adrenocortical cell to survive during stress. However, the role of lysosomal activity on steroidogenic cell growth is as yet unknown. Here, we showed that lysosomal activity maintained Ad4BP/SF-1 protein stability for proper steroidogenic cell growth. Treatment of cells with lysosomal inhibitors reduced steroidogenic cell growth in vitro...
March 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28322404/device-and-programming-abstractions-for-spatiotemporal-control-of-active-micro-particle-swarms
#5
Amy T Lam, Karina G Samuel-Gama, Jonathan Griffin, Matthew Loeun, Lukas C Gerber, Zahid Hossain, Nate J Cira, Seung Ah Lee, Ingmar H Riedel-Kruse
We present a hardware setup and a set of executable commands for spatiotemporal programming and interactive control of a swarm of self-propelled microscopic agents inside a microfluidic chip. In particular, local and global spatiotemporal light stimuli are used to direct the motion of ensembles of Euglena gracilis, a unicellular phototactic organism. We develop three levels of programming abstractions (stimulus space, swarm space, and system space) to create a scripting language for directing swarms. We then implement a multi-level proof-of-concept biotic game using these commands to demonstrate their utility...
March 21, 2017: Lab on a Chip
https://www.readbyqxmd.com/read/28319898/immunodetection-of-salivary-biomarkers-by-an-optical-microfluidic-biosensor-with-polyethylenimine-modified-polythiophene-c70-organic-photodetectors
#6
Tao Dong, Nuno Miguel Matos Pires
This work reports a novel optical microfluidic biosensor with highly sensitive organic photodetectors (OPDs) for absorbance-based detection of salivary protein biomarkers at the point of care. The compact and miniaturized biosensor has comprised OPDs made of polythiophene-C70 bulk heterojunction for the photoactive layer; whilst a calcium-free cathode interfacial layer, made of linear polyethylenimine, was incorporated to the photodetectors to enhance the low cost. The OPDs realized onto a glass chip were aligned to antibody-functionalized chambers of a poly(methyl methacrylate) microfluidic chip, in where immunogold-silver assays were conducted...
March 6, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28318376/advances-in-on-chip-vascularization
#7
Kristina Haase, Roger D Kamm
Microfluidics is invaluable for studying microvasculature, development of organ-on-chip models and engineering microtissues. Microfluidic design can cleverly control geometry, biochemical gradients and mechanical stimuli, such as shear and interstitial flow, to more closely mimic in vivo conditions. In vitro vascular networks are generated by two distinct approaches: via endothelial-lined patterned channels, or by self-assembled networks. Each system has its own benefits and is amenable to the study of angiogenesis, vasculogenesis and cancer metastasis...
March 20, 2017: Regenerative Medicine
https://www.readbyqxmd.com/read/28317887/nmr-spectroscopy-of-single-sub-nl-ova-with-inductive-ultra-compact-single-chip-probes
#8
Marco Grisi, Franck Vincent, Beatrice Volpe, Roberto Guidetti, Nicola Harris, Armin Beck, Giovanni Boero
Nuclear magnetic resonance (NMR) spectroscopy enables non-invasive chemical studies of intact living matter. However, the use of NMR at the volume scale typical of microorganisms is hindered by sensitivity limitations, and experiments on single intact organisms have so far been limited to entities having volumes larger than 5 nL. Here we show NMR spectroscopy experiments conducted on single intact ova of 0.1 and 0.5 nL (i.e. 10 to 50 times smaller than previously achieved), thereby reaching the relevant volume scale where life development begins for a broad variety of organisms, humans included...
March 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28317005/a-cost-effective-micromilling-platform-for-rapid-prototyping-of-microdevices
#9
Daniel P Yen, Yuta Ando, Keyue Shen
Micromilling has great potential in producing microdevices for lab-on-a-chip and organ-on-a-chip applications, but has remained under-utilized due to the high machinery costs and limited accessibility. In this paper, we assessed the machining capabilities of a low-cost 3-D mill in polycarbonate material, which were showcased by the production of microfluidic devices. The study demonstrates that this particular mill is well suited for the fabrication of multi-scale microdevices with feature sizes from micrometers to centimeters...
December 2016: Technology
https://www.readbyqxmd.com/read/28314117/three-dimensional-cell-cultures-in-drug-discovery-and-development
#10
Ye Fang, Richard M Eglen
The past decades have witnessed significant efforts toward the development of three-dimensional (3D) cell cultures as systems that better mimic in vivo physiology. Today, 3D cell cultures are emerging, not only as a new tool in early drug discovery but also as potential therapeutics to treat disease. In this review, we assess leading 3D cell culture technologies and their impact on drug discovery, including spheroids, organoids, scaffolds, hydrogels, organs-on-chips, and 3D bioprinting. We also discuss the implementation of these technologies in compound identification, screening, and development, ranging from disease modeling to assessment of efficacy and safety profiles...
March 1, 2017: SLAS Discov
https://www.readbyqxmd.com/read/28299690/highly-sensitive-glucose-sensor-based-on-organic-electrochemical-transistor-with-modified-gate-electrode
#11
Xudong Ji, Paddy K L Chan
An organic electrochemical transistor (OECT) with a glucose oxidase (GOx) and poly(n-vinyl-2-pyrrolidone)-capped platinum nanoparticles (Pt NPs) gate electrode was successfully integrated with a microfluidic channel to act as a highly sensitive chip-based glucose sensor. The sensing mechanism relies on the enzymatic reaction between glucose and GOx followed by electrochemical oxidation of hydrogen peroxide (H2O2) produced in the enzymatic reaction. This process largely increases the electrolyte potential that applies on PEDOT:PSS channel and causes more cations penetrate into PEDOT:PSS film to reduce it to semi-conducting state resulting in lower electric current between the source and the drain...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28298175/cells-in-the-third-dimension
#12
Sarah Webb
Sarah Webb explores the expanding tools and technologies for 3-D cell culture-from hydrogels to organs-on-a-chip.
March 1, 2017: BioTechniques
https://www.readbyqxmd.com/read/28291785/transcriptome-difference-and-potential-crosstalk-between-liver-and-mammary-tissue-in-mid-lactation-primiparous-dairy-cows
#13
Dengpan Bu, Massimo Bionaz, Mengzhi Wang, Xuemei Nan, Lu Ma, Jiaqi Wang
Liver and mammary gland are among the most important organs during lactation in dairy cows. With the purpose of understanding both the different and the complementary roles and the crosstalk of those two organs during lactation, a transcriptome analysis was performed on liver and mammary tissues of 10 primiparous dairy cows in mid-lactation. The analysis was performed using a 4×44K Bovine Agilent microarray chip. The transcriptome difference between the two tissues was analyzed using SAS JMP Genomics using ANOVA with a false discovery rate correction (FDR)...
2017: PloS One
https://www.readbyqxmd.com/read/28282850/fully-printed-flexible-single-chip-rfid-tag-with-light-detection-capabilities
#14
Aniello Falco, Jose F Salmerón, Florin C Loghin, Paolo Lugli, Almudena Rivadeneyra
A printed passive radiofrequency identification (RFID) tag in the ultra-high frequency band for light and temperature monitoring is presented. The whole tag has been manufactured by printing techniques on a flexible substrate. Antenna and interconnects are realized with silver nanoparticles via inkjet printing. A sprayed photodetector performs the light monitoring, whereas temperature measurement comes from an in-built sensor in the silicon RFID chip. One of the advantages of this system is the digital read-out and transmission of the sensors information on the RFID tag that ensures reliability...
March 8, 2017: Sensors
https://www.readbyqxmd.com/read/28272455/colour-crafted-phosphor-free-white-light-emitters-via-in-situ-nanostructure-engineering
#15
Daehong Min, Donghwy Park, Kyuseung Lee, Okhyun Nam
Colour-temperature (Tc) is a crucial specification of white light-emitting diodes (WLEDs) used in a variety of smart-lighting applications. Commonly, Tc is controlled by distributing various phosphors on top of the blue or ultra violet LED chip in conventional phosphor-conversion WLEDs (PC-WLEDs). Unfortunately, the high cost of phosphors, additional packaging processes required, and phosphor degradation by internal thermal damage must be resolved to obtain higher-quality PC-WLEDs. Here, we suggest a practical in-situ nanostructure engineering strategy for fabricating Tc-controlled phosphor-free white light-emitting diodes (PF-WLEDs) using metal-organic chemical vapour deposition...
March 8, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28270994/optical-sorting-and-cultivation-of-denitrifying-anaerobic-methane-oxidation-archaea
#16
Xiaoqiong Qi, David M Carberry, Chen Cai, Shihu Hu, Zhiguo Yuan, Halin Rubinsztein Dunlop, Jianhua Guo
Denitrifying anaerobic methane oxidizing (DAMO) microorganisms play an important role in the global carbon and nitrogen cycles as they are able to mediate methane oxidation using nitrite/nitrate under anoxic conditions. However, the physiological properties of DAMO microorganisms remain poorly understood, partially since the organisms are difficult to isolate or cultivate in pure culture and partially because of their long cultivation time. In this study, DAMO cell sorting has been conducted by integrating optical tweezers within enclosed microfluidic chips...
February 1, 2017: Biomedical Optics Express
https://www.readbyqxmd.com/read/28269560/lab-on-chips-for-manipulation-of-small-scale-organisms-to-facilitate-imaging-of-neurons-and-organs
#17
Ramtin Ardeshiri, Pouya Rezai
Caenorhabditis elegans (C. elegans) and Drosophila melanogaster (D. melanogaster) are widely-used model organisms for neurological and cardiac studies due to their simple neuronal (302 neurons in C. elegans) and cardiac (simple tubular organ in D. melanogaster) systems. However, their small sizes and continuous mobility impede their precise and timely manipulation, hence, limiting the assays that can be done using conventional manual methods. This has resulted in a need for technologies that allow multidirectional manipulation of model organisms to enable studies on target neurons and organs throughout the body...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28268944/integration-of-optical-and-electrochemical-sensors-on-a-microfluidic-platform-using-organic-optoelectronic-components-and-silver-nanowires
#18
Sujittra Poorahong, Florent Lefevre, Marie-Claude Perron, Philippe Juneau, Ricardo Izquierdo
Since the emergence of microfluidic platforms sensors integration has been a major challenge. With the advances in miniaturization of these platforms, there is a need for solutions to integrate various optical components in order to build sensors, which will offer different detection characteristics such as several emission and sensing wavelengths. Moreover, the integration of an electrochemical sensor including a transparent electrode that will be compatible with the optical sensor represents an additional challenge...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28268742/highly-sensitive-detection-of-human-cancer-antigens-by-an-immunogold-silver-assay-chip-coupled-with-a-polythiophene-based-optical-sensor
#19
Nuno M M Pires, Tao Dong
This work presents a novel method for protein or cancer antigen detection in clinical samples by an immunogold-silver assay microfluidic biochip coupled with a polythiophene-based organic photodetector. The method has showed a detection limit below 1ng/mL and the low cost and high sensitivity of both organic photodetector and immunogold-silver assay make this method amenable for realization in a portable handheld probe tip biosensor.
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28268727/miniaturized-force-torque-sensor-for-in-vivo-measurements-of-tissue-characteristics
#20
M Hessinger, T Pilic, R Werthschutzky, P P Pott
This paper presents the development of a surgical instrument to measure interaction forces/torques with organic tissue during operation. The focus is on the design progress of the sensor element, consisting of a spoke wheel deformation element with a diameter of 12 mm and eight inhomogeneous doped piezoresistive silicon strain gauges on an integrated full-bridge assembly with an edge length of 500 μm. The silicon chips are contacted to flex-circuits via flip chip and bonded on the substrate with a single component adhesive...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
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