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https://www.readbyqxmd.com/read/29331425/low-picomolar-label-free-procalcitonin-analytical-detection-with-an-electrolyte-gated-organic-field-effect-transistor-based-electronic-immunosensor
#1
Preethi Seshadri, Kyriaki Manoli, Nicole Schneiderhan-Marra, Uwe Anthes, Piotr Wierzchowiec, Klaus Bonrad, Cinzia Di Franco, Luisa Torsi
Herein a label-free immunosensor based on electrolyte-gated organic field-effect transistor (EGOFET) was developed for the detection of procalcitonin (PCT), a sepsis marker. Antibodies specific to PCT were immobilized on the poly-3-hexylthiophene (P3HT) organic semiconductor surface through direct physical adsorption followed by a post-treatment with bovine serum albumin (BSA) which served as the blocking agent to prevent non-specific adsorption. Antibodies together with BSA (forming the whole biorecognition layer) served to selectively capture the procalcitonin target analyte...
December 26, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/29331085/verification-of-dna-motifs-in-arabidopsis-using-crispr-cas9-mediated-mutagenesis
#2
Chenlong Li, Chen Chen, Huhui Chen, Suikang Wang, Xuemei Chen, Yuhai Cui
Transcription factors (TFs) and chromatin-modifying factors (CMFs) access chromatin by recognizing specific DNA motifs in their target genes. Chromatin Immunoprecipitation followed by next generation sequencing (ChIP-seq) has been widely used to discover the potential DNA binding motifs for both TFs and CMFs. Yet, an in vivo method for verifying DNA motifs captured by ChIP-seq is lacking in plants. Here, we describe the use of clustered regularly interspaced short palindromic repeat (CRISPR)/CRISPR-associated 9 (Cas9) to verify DNA motifs in their native genomic context in Arabidopsis...
January 13, 2018: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/29331026/the-asthma-rhinitis-multimorbidity-is-associated-with-ige-polysensitization-in-adolescents-and-adults
#3
Valérie Siroux, Natalia Ballardini, Marion Soler, Christian Lupinek, Anne Boudier, Isabelle Pin, Jocelyne Just, Rachel Nadif, Josep M Anto, Erik Melen, Rudolf Valenta, Magnus Wickman, Jean Bousquet
BACKGROUND: Children with multimorbid asthma and rhinitis show IgE polysensitization to several allergen sources. This association remain poorly studied in adolescents and adults using defined allergen molecules. We investigated IgE sensitization patterns towards a broad panel of aeroallergen components in adults and adolescents with a focus on individuals with asthma and rhinitis multimorbidity. METHODS: IgE reactivity to 64 microarrayed aeroallergen molecules was determined with the MeDALL-chip in samples from the French EGEA study (n=840, age=40...
January 13, 2018: Allergy
https://www.readbyqxmd.com/read/29330791/chromatin-immunoprecipitation-of-hif-%C3%AE-in-breast-tumor-cells-using-wild-type-and-loss-of-function-models
#4
Danielle L Brooks, Tiffany N Seagroves
Chromatin immunoprecipitation (ChIP) is a powerful method to determine whether a protein of interest binds to specific regulatory elements of the genome. Herein, we outline protocols optimized to detect binding of Hypoxia-Inducible Factor (HIF)-1α or HIF-2α to putative hypoxia response elements (HREs) within HIF target genes expressed in breast tumor epithelial cells.
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29330744/c-fos-downregulation-positively-regulates-epha5-expression-in-a-congenital-hypothyroidism-rat-model
#5
Honghua Song, Yuqin Zheng, Fuying Cai, Yanyan Ma, Jingyue Yang, Youjia Wu
The EphA5 receptor is well established as an axon guidance molecule during neural system development and plays an important role in dendritic spine formation and synaptogenesis. Our previous study has showed that EphA5 is decreased in the developing brain of congenital hypothyroidism (CH) and the EphA5 promoter methylation modification participates in its decrease. c-Fos, a well-kown transcription factor, has been considered in association with brain development. Bioinformatics analysis showed that the EphA5 promoter region contained five putative c-fos binding sites...
January 12, 2018: Journal of Molecular Histology
https://www.readbyqxmd.com/read/29330416/virtual-genome-walking-across-the-32%C3%A2-gb-ambystoma-mexicanum-genome-assembling-gene-models-and-intronic-sequence
#6
Teri Evans, Andrew D Johnson, Matthew Loose
Large repeat rich genomes present challenges for assembly using short read technologies. The 32 Gb axolotl genome is estimated to contain ~19 Gb of repetitive DNA making an assembly from short reads alone effectively impossible. Indeed, this model species has been sequenced to 20× coverage but the reads could not be conventionally assembled. Using an alternative strategy, we have assembled subsets of these reads into scaffolds describing over 19,000 gene models. We call this method Virtual Genome Walking as it locally assembles whole genome reads based on a reference transcriptome, identifying exons and iteratively extending them into surrounding genomic sequence...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29330365/engineered-nanointerfaces-for-microfluidic-isolation-and-molecular-profiling-of-tumor-specific-extracellular-vesicles
#7
Eduardo Reátegui, Kristan E van der Vos, Charles P Lai, Mahnaz Zeinali, Nadia A Atai, Berent Aldikacti, Frederick P Floyd, Aimal H Khankhel, Vishal Thapar, Fred H Hochberg, Lecia V Sequist, Brian V Nahed, Bob S Carter, Mehmet Toner, Leonora Balaj, David T Ting, Xandra O Breakefield, Shannon L Stott
Extracellular vesicles (EVs) carry RNA, DNA, proteins, and lipids. Specifically, tumor-derived EVs have the potential to be utilized as disease-specific biomarkers. However, a lack of methods to isolate tumor-specific EVs has limited their use in clinical settings. Here we report a sensitive analytical microfluidic platform (EVHB-Chip) that enables tumor-specific EV-RNA isolation within 3 h. Using the EVHB-Chip, we achieve 94% tumor-EV specificity, a limit of detection of 100 EVs per μL, and a 10-fold increase in tumor RNA enrichment in comparison to other methods...
January 12, 2018: Nature Communications
https://www.readbyqxmd.com/read/29330306/an-rb-family-independent-e2f3-transcription-factor-variant-impairs-stat5-signaling-and-mammary-gland-remodeling-during-pregnancy-in-mice
#8
Yang Liao, Wei Du
E2F transcription factors are regulated by binding to the retinoblastoma (Rb) tumor suppressor family of proteins. Previously, we reported an E2FLQ mutation that disrupts the binding with Rb proteins without affecting E2F's transcriptional activity. We also showed that mouse embryonic fibroblasts (MEFs) with an E2F3LQ mutation exhibit increased E2F activity and more rapid cell proliferation. In this report, we analyzed E2F3LQ mice to further characterize the in vivo consequences of Rb family-independent E2F3 activity...
January 12, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29329874/a-survey-of-free-glutamic-acid-in-foods-using-a-robust-lc-ms-ms-method
#9
Nur Cebi, Canan Ekinci Dogan, Elmas Oktem Olgun, Osman Sagdic
An effective and simultaneous liquid chromatography-tandem mass spectrometry (LC-MS/MS) method was used with the aim of quantifying monosodium glutamate (MSG) in foodstuffs, such as chips, taste cubes, sauces and soups. The results were linear (R2 = 1), with very low LOD and LOQ values, 1.0 µg/kg, 5.0 µg/kg, respectively. Excellent repeatability and reproducibility were also achieved. This highly sensitive and robust LC-MS/MS technique was applied successfully for the detection and quantification of MSG in a wide variety of foodstuffs...
May 15, 2018: Food Chemistry
https://www.readbyqxmd.com/read/29329517/genome-wide-analyses-of-direct-target-genes-of-four-rice-nac-domain-transcription-factors-involved-in-drought-tolerance
#10
Pil Joong Chung, Harin Jung, Yang Do Choi, Ju-Kon Kim
BACKGROUND: Plant stress responses and mechanisms determining tolerance are controlled by diverse sets of genes. Transcription factors (TFs) have been implicated in conferring drought tolerance under drought stress conditions, and the identification of their target genes can elucidate molecular regulatory networks that orchestrate tolerance mechanisms. RESULTS: We generated transgenic rice plants overexpressing the 4 rice TFs, OsNAC5, 6, 9, and 10, under the control of the root-specific RCc3 promoter...
January 12, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29329226/plils-a-practical-indoor-localization-system-through-less-expensive-wireless-chips-via-subregion-clustering
#11
Xiaolong Li, Yifu Yang, Jun Cai, Yun Deng, Junfeng Yang, Xinmin Zhou, Lina Tan
Reducing costs is a pragmatic method for promoting the widespread usage of indoor localization technology. Conventional indoor localization systems (ILSs) exploit relatively expensive wireless chips to measure received signal strength for positioning. Our work is based on a cheap and widely-used commercial off-the-shelf (COTS) wireless chip, i.e., the Nordic Semiconductor nRF24LE1, which has only several output power levels, and proposes a new power level based-ILS, called Plils. The localization procedure incorporates two phases: an offline training phase and an online localization phase...
January 12, 2018: Sensors
https://www.readbyqxmd.com/read/29329210/an-over-90-db-intra-scene-single-exposure-dynamic-range-cmos-image-sensor-using-a-3-0-%C3%AE-m-triple-gain-pixel-fabricated-in-a-standard-bsi-process
#12
Isao Takayanagi, Norio Yoshimura, Kazuya Mori, Shinichiro Matsuo, Shunsuke Tanaka, Hirofumi Abe, Naoto Yasuda, Kenichiro Ishikawa, Shunsuke Okura, Shinji Ohsawa, Toshinori Otaka
To respond to the high demand for high dynamic range imaging suitable for moving objects with few artifacts, we have developed a single-exposure dynamic range image sensor by introducing a triple-gain pixel and a low noise dual-gain readout circuit. The developed 3 μm pixel is capable of having three conversion gains. Introducing a new split-pinned photodiode structure, linear full well reaches 40 ke-. Readout noise under the highest pixel gain condition is 1 e- with a low noise readout circuit. Merging two signals, one with high pixel gain and high analog gain, and the other with low pixel gain and low analog gain, a single exposure dynamic rage (SEHDR) signal is obtained...
January 12, 2018: Sensors
https://www.readbyqxmd.com/read/29328444/sp1-reduces-autophagic-flux-through-activating-p62-in-gastric-cancer-cells
#13
Xiao-Wu Xu, Chen-Wei Pan, Xiao-Min Yang, Lei Zhou, Zhi-Qiang Zheng, De-Chun Li
Gastric cancer is the most common type of gastrointestinal cancer, causing mortality worldwide. However, the underlying molecular mechanism in gastric cancer progression remains unclear. The autophagic flux was determined in gastric cancer cells overexpressing or inhibiting Sp1 transcription factor (SP1) using western blotting, reverse transcription‑polymerase chain reaction and immunofluorescence staining. Luciferase and ChIP assays were performed to detect the potential underlying mechanism of SP1 in gastric cancer cells...
January 9, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29328317/planar-polarization-routing-optical-cross-connects-using-nematic-liquid-crystal-waveguides
#14
Tenghao Li, Qingming Chen, Weixing Yu, Xuming Zhang
This paper presents the device design and performance analysis of a novel design of planar optical cross-connect (OXC) using nematic liquid crystal (NLC) waveguides. It employs N × N switching matrix in cross-bar fabric. In each unit cell, the input light is set in either the transverse electric (TE) mode or the transverse magnetic (TM) mode by electrically reorienting the NLC in the waveguide. The light then enters a passive waveguide and is routed to different paths depending on the polarization state (TE/TM mode)...
January 8, 2018: Optics Express
https://www.readbyqxmd.com/read/29328261/improved-2%C3%A2-%C3%A3-%C3%A2-2-mach-zehnder-switching-using-coupled-resonator-photonic-crystal-nanobeams
#15
Joshua R Hendrickson, Richard Soref, Ricky Gibson
Design and simulation results are presented for an on-chip 2×2 Mach-Zehnder-based optical switch where each arm of the interferometer is composed of a coupled-resonator optical waveguide. The individual resonators are one-dimensional photonic crystal nanobeam cavities, and switching occurs through thermally induced changes in the refractive index of the silicon structure using integrated heating pads. The performance of the coupled-resonator device is directly compared to its single resonator counterpart, and significant improvement is found in the bar-state CT metric...
January 15, 2018: Optics Letters
https://www.readbyqxmd.com/read/29328204/broadband-nonvolatile-photonic-switching-based-on-optical-phase-change-materials-beyond-the-classical-figure-of-merit
#16
Qihang Zhang, Yifei Zhang, Junying Li, Richard Soref, Tian Gu, Juejun Hu
In this Letter, we propose a broadband, nonvolatile on-chip switch design in the telecommunication C-band with record low loss and crosstalk. The unprecedented device performance builds on: 1) a new optical phase change material (O-PCM) Ge2Sb2Se4Te1 (GSST), which exhibits significantly reduced optical attenuation compared to traditional O-PCMs, and 2) a nonperturbative design that enables low-loss device operation beyond the classical figure-of-merit (FOM) limit. We further demonstrate that the 1-by-2 and 2-by-2 switches can serve as basic building blocks to construct nonblocking and nonvolatile on-chip switching fabric supporting arbitrary numbers of input and output ports...
January 1, 2018: Optics Letters
https://www.readbyqxmd.com/read/29328202/inclined-emitting-slotted-single-mode-laser-with-1-7%C3%A2-vertical-divergence-angle-for-pic-applications
#17
Yejin Zhang, Yanmei Su, Yu Bi, Jiaoqing Pan, Hongyan Yu, Yang Zhang, Jie Sun, Xiuyan Sun, Ming Chong
In this Letter, a new type of single-mode slotted laser used for an on-chip light source in photonic integrated circuits is proposed. An inclined light beam with a low vertical divergence angle can be directly coupled into the surface grating of the silicon to form an integrated light source. Experimentally, a III-V laser with a 54.6° inclined angle and a vertical divergence angle of 1.7° is achieved by introducing a kind of specially distributed microstructure. The side mode suppression ratio is better than 45 dB, and the continuous wave output power reaches 6...
January 1, 2018: Optics Letters
https://www.readbyqxmd.com/read/29328194/subwavelength-wave-manipulation-in-a-thin-surface-wave-bandgap-crystal
#18
Zhen Gao, Zhuoyuan Wang, Baile Zhang
It has been recently reported that the unit cell of wire media metamaterials can be tailored locally to shape the flow of electromagnetic waves at deep-subwavelength scales [Nat. Phys.9, 55 (2013)NPAHAX1745-247310.1038/nphys2480]. However, such bulk structures have a thickness of at least the order of wavelength, thus hindering their applications in the on-chip compact plasmonic integrated circuits. Here, based upon a Sievenpiper "mushroom" array [IEEE Trans. Microwave Theory Tech.47, 2059 (1999)IETMAB0018-948010...
January 1, 2018: Optics Letters
https://www.readbyqxmd.com/read/29328079/high-resolution-coherent-x-ray-diffraction-imaging-of-metal-coated-polymer-microspheres
#19
Eirik T B Skjønsfjell, David Kleiven, Nilesh Patil, Yuriy Chushkin, Federico Zontone, Alain Gibaud, Dag W Breiby
Coherent x-ray diffraction imaging (CXDI) is becoming an important 3D quantitative microscopy technique, allowing structural investigation of a wide range of delicate mesoscale samples that cannot be imaged by other techniques like electron microscopy. Here we report high-resolution 3D CXDI performed on spherical microcomposites consisting of a polymer core coated with a triple layer of nickel-gold-silica. These composites are of high interest to the microelectronics industry, where they are applied in conducting adhesives as fine-pitch electrical contacts-which requires an exceptional degree of uniformity and reproducibility...
January 1, 2018: Journal of the Optical Society of America. A, Optics, Image Science, and Vision
https://www.readbyqxmd.com/read/29328002/dexamethasone-mediated-oncogenicity-in-vitro-and-in-an-animal-model-of-glioblastoma
#20
Markus M Luedi, Sanjay K Singh, Jennifer C Mosley, Islam S A Hassan, Masumeh Hatami, Joy Gumin, Lukas Andereggen, Erik P Sulman, Frederick F Lang, Frank Stueber, Gregory N Fuller, Rivka R Colen, Pascal O Zinn
OBJECTIVE Dexamethasone, a known regulator of mesenchymal programming in glioblastoma (GBM), is routinely used to manage edema in GBM patients. Dexamethasone also activates the expression of genes, such as CEBPB, in GBM stem cells (GSCs). However, the drug's impact on invasion, proliferation, and angiogenesis in GBM remains unclear. To determine whether dexamethasone induces invasion, proliferation, and angiogenesis in GBM, the authors investigated the drug's impact in vitro, in vivo, and in clinical information derived from The Cancer Genome Atlas (TCGA) cohort...
January 12, 2018: Journal of Neurosurgery
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