gebhart/patrepeval huggingface dataset:
Use of transmembrane pH gradients and A 23187 to produce dense iron liposomes (1990)

Conference Article| October 01 1990 Use of transmembrane pH gradients and A 23187 to produce dense iron liposomes AJOY C. CHAKRABARTI; AJOY C. CHAKRABARTI ‡ *Department of Biochemistry, University of British Columbia, Vancouver, B.C., V6T 1W5, Canada ‡To whom correspondence should be addressed Search for other works by this author on: This Site PubMed Google Scholar JEFFREY A. VEIRO; JEFFREY A. VEIRO *Department of Biochemistry, University of British Columbia, Vancouver, B.C., V6T 1W5, Canada Search for other works by this author on: This Site PubMed Google Scholar NELLIE WONG; NELLIE WONG *Department of Biochemistry, University of British Columbia, Vancouver, B.C., V6T 1W5, Canada Search for other works by this author on: This Site PubMed Google Scholar PIETER R. CULLIS PIETER R. CULLIS *Department of Biochemistry, University of British Columbia, Vancouver, B.C., V6T 1W5, Canada†The Canadian Liposome Co. Ltd., North Vancouver, B.C., V7M 1A5, Canada Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1990) 18 (5): 946–947. https://doi.org/10.1042/bst0180946 Article history Received: February 26 1990 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn MailTo Cite Icon Cite Get Permissions Citation AJOY C. CHAKRABARTI, JEFFREY A. VEIRO, NELLIE WONG, PIETER R. CULLIS; Use of transmembrane pH gradients and A 23187 to produce dense iron liposomes. Biochem Soc Trans 1 October 1990; 18 (5): 946–947. doi: https://doi.org/10.1042/bst0180946 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Society Transactions Search Advanced Search Keywords: LUV, large unilamellar vesicles, EPC, egg phosphatidylcholine, DSPC, distearoylphosphatidylcholine This content is only available as a PDF. © 1990 Biochemical Society1990 Article PDF first page preview Close Modal You do not currently have access to this content.
Power allocation for device-to-device communication underlaying massive MIMO multicasting networks (2015)

Device-to-device communication (D2D) is an emerging technology aiming at enhancing the performance of next generation wireless communication systems. D2D communication enables two mobile stations to communicate directly without traversing the Base Station (BS). Smart techniques should be applied to manage the interference between the BS and the D2D communicating devices. In this paper, we investigate the problem of BS precoder design and Power Allocation (PA) to deploy D2D communication in a single-cell network. We assume that the BS uses a very large number of antennas, referred to as Massive Multiple-Input-Multiple-Output (MIMO). We propose solution algorithms to maximize the sum of the achievable data rates of the D2D pairs, or their minimum, while maintaining some Quality of Service (QoS) constraints on the Cellular User Equipments (CUEs) which communicate with the BS. Simulation results show that the proposed solutions are superior to the conventional power allocation schemes.
The 1.4-Mb CMT1A Duplication/HNPP Deletion Genomic Region Reveals Unique Genome Architectural Features and Provides Insights into the Recent Evolution of New Genes (2001)

Duplication and deletion of the 1.4-Mb region in 17p12 that is delimited by two 24-kb low copy number repeats (CMT1A-REPs) represent frequent genomic rearrangements resulting in two common inherited peripheral neuropathies, Charcot-Marie-Tooth disease type 1A (CMT1A) and hereditary neuropathy with liability to pressure palsy (HNPP). CMT1A and HNPP exemplify a paradigm for genomic disorders wherein unique genome architectural features result in susceptibility to DNA rearrangements that cause disease. A gene within the 1.4-Mb region, PMP22, is responsible for these disorders through a gene-dosage effect in the heterozygous duplication or deletion. However, the genomic structure of the 1.4-Mb region, including other genes contained within the rearranged genomic segment, remains essentially uncharacterized. To delineate genomic structural features, investigate higher-order genomic architecture, and identify genes in this region, we constructed PAC and BAC contigs and determined the complete nucleotide sequence. This CMT1A/HNPP genomic segment contains 1,421,129 bp of DNA. A low copy number repeat (LCR) was identified, with one copy inside and two copies outside of the 1.4-Mb region. Comparison between physical and genetic maps revealed a striking difference in recombination rates between the sexes with a lower recombination frequency in males (0.67 cM/Mb) versus females (5.5 cM/Mb). Hypothetically, this low recombination frequency in males may enable a chromosomal misalignment at proximal and distal CMT1A-REPs and promote unequal crossing over, which occurs 10 times more frequently in male meiosis. In addition to three previously described genes, five new genes (TEKT3, HS3ST3B1, NPD008/CGI-148, CDRT1, and CDRT15) and 13 predicted genes were identified. Most of these predicted genes are expressed only in embryonic stages. Analyses of the genomic region adjacent to proximal CMT1A-REP indicated an evolutionary mechanism for the formation of proximal CMT1A-REP and the creation of novel genes by DNA rearrangement during primate speciation.
Ultra-wideband frequency chirp signal generation by using high-speed optical frequency control with optical single-sideband modulation technique (2006)

By using rapid optical frequency sweep technique, we demonstrated ultra-wideband frequency chirp millimeter-wave signal generation whose bandwidth was 6.4 GHz. Ultra fast and precise optical frequency sweep was achieved by using single-sideband modulation, where the theoretical limit of resolution due to the uncertainty between time and frequency was almost obtained, ultra-wideband frequency chirp signals from 9.6 GHz to 16 GHz, which were generated by using a computer controlled arbitrary waveform generator and a wideband frequency multiplier, were fed to an optical single-single sideband modulator consisting of two sub Mach-Zehnder interferometers
Synthesis of the Core Ring System of the Antiosteoporotic Citrofulvicin (2021)

Synthesis of the octacyclic ring system of citrofulvicin is described in nine steps from readily available starting materials. Blocking undesired intramolecular cyclization of a reactive β-diketone intermediate by transient incorporation of a dithiolane ring led to the formation of the requisite 1-hydroxy-2,4,6-trioxaadamantane ring system of citrofulvicin.
Letter: gluten digestion in the stomach and duodenum by Aspergillus niger‐derived enzyme – things to ponder. Authors’ reply (2015)

We thank Dr Srinivas for his interest in our recent publication.1, 2 In our study, we investigated the efficacy of Aspergillus niger prolyl endoprotease (AN-PEP) on gluten degradation in healthy volunteers. We administered a gluten meal with AN-PEP intragastrically via a nasoduodenal catheter. This does not represent a fully physiological meal setting, in which a solid meal and AN-PEP would be ingested separately and undergo the normal physiological digestion processes in the stomach. AN-PEP has been developed as a dietary supplement that supports the digestion of incidental and/or inadvertent gluten in gluten-sensitive individuals. Thus, to optimise AN-PEP for clinical application we believe it is important that future studies investigate the efficacy in an actual meal setting, in which participants consume a meal containing a specified amount of gluten, together with an AN-PEP supplement. We propose ingestion of AN-PEP just prior to, or at start of, the meal and not too long before, in order to guarantee optimal efficacy. Future studies will have to focus on AN-PEP efficacy in gluten-sensitive individuals. Dr Srinivas noted that there is almost instantaneous gluten digestion with AN-PEP, regardless of meal type. This raises the question whether the ratio between enzyme concentration and gluten content was disproportionate. Montserrat and colleagues have shown that the efficacy of gluten degradation by AN-PEP is dependent on the ratio of AN-PEP activity to gluten, showing a more pronounced and more rapid gluten degradation effect at a higher enzyme activity to gluten ratio.3 Dietary fat had no impact on the gluten degradation rate. One may assume that at a lower enzyme activity to gluten ratios, a difference in gluten degradation would have been observed between low- and high-calorie meals, related to the difference in gastric emptying. In our trial, we administered an AN-PEP dose that is considered the optimal ratio to gluten.3 The authors’ declarations of personal and financial interests are unchanged from those in the original article.2
Relationship between Heart Rate Recovery and Disease Severity in Chronic Obstructive Pulmonary Disease Patients (2020)

Chronic obstructive pulmonary disease (COPD) patients exhibit impaired autonomic control which can be assessed by heart rate variability analysis. The study aims to evaluate the cardiac autonomic responses of COPD patients after completing a conventional six-minute walk test (6MWT). Fifty COPD patients were included in the study, for which an ECG signal (lead II) was acquired by a wearable device, before, during, and after the test. We used the heart rate (HR) time-series to assess the heart rate dynamic during recovery. The heart rate recovery (HRR) marker was evaluated every 5 s after the 6MWT and showed different dynamic trends among severity groups. We compared the HRR among patient groups classified according to the GOLD standard. Significantly larger normalized HRR values (nHRR) were found in mild COPD patients (n=23, GOLD={1,2}; nHRR1=14.8±7.5 %, nHRR2=18.6±8.1 %) compared to those with more disease severity (n=23, GOLD={3,4}; nHRR1=9.3±5.8 %, p=0.002; and nHRR2= 13.7±6.7 %, p=0.041). The largest differences were observed around the first 30 s of the recovery phase (nHRR=10.8±6.6 % vs. nHRR=5.6±4 % p=0.001). Our results showed a slower recovery for the severest patients, suggesting that cardiac parameters like the ones we propose here, may provide valuable information for a better characterization of COPD severity.
P1‐328: NEUROIMAGING AND NEUROPATHOLOGY IN AN AGED NON‐HUMAN PRIMATE MODEL OF SPORADIC CAA (2019)

Current animal and human data suggest that CAA is more resistant to clearance compared to parenchymal amyloid and its removal may be associated with microhemorrhages. CAA may be involved in the amyloid related imaging abnormalities (ARIA-E and/or H) of some patients receiving Aβ-immunotherapy, complications that were not anticipated by numerous studies in transgenic mouse models. Developing a therapy that is effective against CAA without inducing adverse reactions is of critical importance. Therefore, we advanced our study to determine whether stimulation of TLR9 signaling with CpG ODN can have beneficial effects in a well-established non-human primate model of sporadic CAA, squirrel monkey (Saimiri Boliviensis). Our novel MRI methodology using bi-functional nanoparticles (USPIO-PEG-Aβ), will allow for the longitudinal monitoring of CpG ODN effects on amyloid burden and enhance the evaluation of CpG ODN efficacy and safety. Pre- and post-Aβ nanoprobe injection multi-gradient echo MR images were acquired in aged monkeys at selected timepoints to ensure maximum Aβ deposit detection and to visualize the presence of microhemorrhages. T2-FLAIR images were acquired in a separate cohort of elderly monkeys to evaluate the presence of naturally occurring ARIA-E like pathologies. The R2* brain maps of the pre- and post- contrast injection MRI scans were generated and subsequent region of interest (ROI)-based quantitative R2* analysis was performed. Significant increases of R2* counts were seen 36 hours post-contrast injection in specific brain regions. Subsequent analysis revealed decreases in R2* values 6 weeks post-contrast injection compared to 36-hour post-contrast injection in all analyzed brain regions, indicating contrast clearance. In addition, no significant differences were observed between the pre-contrast and clearance scans. No detrimental effects were observed during the scans in old primates, demonstrating the safety of our Aβ nanoprobe. ARIA-E like T2-weighted signal hyper intensities were detected in the parieto-occipital white matter in the 25 year old squirrel monkey. ARIA-E abnormalities will be characterized by histological examination. Additionally, ARIA evaluation is underway at specific times throughout our chronic CpG ODN treatment study. The present evidence makes our novel MRI methodologies suitable for enhanced monitoring of CpG ODN therapeutic efficacy and safety.
Analysis of 3D Acquisition Geometries with Focal Beams (2001)

A-16 ANALYSIS OF 3-D ACQUISITION GEOMETRIES WITH FOCAL BEAMS A.W.F. VOLKER G. BLACQUIÈRE and A.J. BERKHOUT Abstract 1 The amplitude accuracy of a seismic acquisition geometry is strongly dependent on the source and detector configuration. The concept of focal beam analysis is an ideal starting point to understand the relation between the source-detector geometry and the amplitude accuracy observed in a 3-D image. In this paper the emphasis is on the study of the dependency of the focal beams on the subsurface location. The continuity of the target point ‘illumination’ plays a vital role in achieving a small acquisition footprint.
Changing Prevalence of Lower Airway Infections in Young Children with Cystic Fibrosis (2019)

<b>Rationale:</b> Historical studies suggest that airway infection in cystic fibrosis initiates with <i>Staphylococcus aureus</i> and <i>Haemophilus influenzae</i>, with later emergence of <i>Pseudomonas aeruginosa</i>. <i>Aspergillus</i> species are regarded as relatively infrequent, late-occurring infections.<b>Objectives:</b> To assess the prevalence and change in prevalence of early lower airway infections in a modern cohort of children with cystic fibrosis.<b>Methods:</b> All infants diagnosed with cystic fibrosis after newborn screening participating in the Australian Respiratory Early Surveillance Team for Cystic Fibrosis (AREST CF) cohort study between 2000 and 2018 were included. Participants prospectively underwent BAL at 3-6 months, 1 year, and annually up to 6 years of age. Lower airway infection prevalence was described. Changes in prevalence patterns were assessed longitudinally using generalized estimating equations controlling for age and repeated visits.<b>Measurements and Main Results:</b> A total of 380 infants underwent 1,759 BALs. The overall prevalence and median age of first acquisition of the most common infections were as follows: <i>S. aureus</i>, 11%, 2.5 years; <i>P. aeruginosa</i>, 8%, 2.4 years; <i>Aspergillus</i> species, 11%, 3.2 years; and <i>H. influenzae</i>, 9%, 3.1 years. During the study, a significant decrease in prevalence of <i>P. aeruginosa</i> (<i>P</i> < 0.001) and <i>S. aureus</i> (<i>P</i> < 0.001) was observed with a significant change toward more aggressive treatment. Prevalence of <i>Aspergillus</i> infections did not significantly change (<i>P</i> = 0.669).<b>Conclusions:</b><i>Aspergillus</i> species and <i>P. aeruginosa</i> are commonly present in the lower airways from infancy. The decrease in prevalence of <i>P. aeruginosa</i> and <i>S. aureus</i> since 2000, coinciding with a more aggressive therapeutic approach, has resulted in <i>Aspergillus</i> becoming the most commonly isolated pathogen in young children. Further research is warranted to understand the implication of these findings.
Glutamate imaging (GluCEST) lateralizes epileptic foci in nonlesional temporal lobe epilepsy (2015)

When neuroimaging reveals a brain lesion, drug-resistant epilepsy patients show better outcomes after resective surgery than do the one-third of drug-resistant epilepsy patients who have normal brain magnetic resonance imaging (MRI). We applied a glutamate imaging method, GluCEST (glutamate chemical exchange saturation transfer), to patients with nonlesional temporal lobe epilepsy based on conventional MRI. GluCEST correctly lateralized the temporal lobe seizure focus on visual and quantitative analyses in all patients. MR spectra, available for a subset of patients and controls, corroborated the GluCEST findings. Hippocampal volumes were not significantly different between hemispheres. GluCEST allowed high-resolution functional imaging of brain glutamate and has potential to identify the epileptic focus in patients previously deemed nonlesional. This method may lead to improved clinical outcomes for temporal lobe epilepsy as well as other localization-related epilepsies.
New opportunities for nanoparticles in cancer immunotherapy (2018)

Recently developed approaches for using nanoparticles in cancer immunotherapy have enormous potential for improving cancer treatment. Cancer immunotherapy based on nanoparticles is anticipated not only to overcome the limitations of existing immunotherapy, but also to generate synergistic effects via cooperation between nanoparticles and immune cells.
<title>Graded index polymer waveguide amplifier working at lambda=1.06um</title> (1993)

In this paper, we report the first graded index (GRIN) polymer waveguide amplifier working at 1.06 micrometers wavelength using Nd:photolime gel material combination. 8.5 dB gain was observed using a 2.2 cm waveguide length with Nd+++ concentration of 1.03 (DOT) 10<SUP>20</SUP>/cm<SUP>3</SUP>. A tunable Ti:Sapphire laser was used as a pumping source. The success of this demonstration together with the previously reported results on GRIN polymer passive and active devices, provide us the full capability of integrating a monolithic polymer- based integrated optical circuit.
Frequency Estimation for Resonant MEMS Sensors (2020)

Resonant MEMS sensors have potential of providing highly precise measurements. The accurate processing of the output relies on precise frequency estimation techniques especially in the context of portable sensors for particulate matter. This paper investigates five commonly used single-tone frequency estimation techniques (3-point DFT interpolation, parabolic interpolation of periodogram peak, Prony's method, modified Pisarenko and zero crossing method) with respect to the estimation accuracy, memory requirement and computational complexity. The effect of noise and harmonics on estimation accuracy of these five techniques are analyzed and validated through simulation. The experimental data is acquired from a resonant MEMS sensor with a center frequency of 3.15 MHz. The output is sampled at 100MS/s using a 12-bit ADC. These five techniques are applied to the various data sets acquired from an experimental setup. The comparison results along with the analysis are presented.
Abstract 238: Comprehensive study of gene expression outliers and their regulation mechanisms in pan-cancer (2023)

Abstract Cancer is a disease characterized by remarkable heterogeneity, with many molecular features significantly associated with tumor progression in specific subsets of patients. Gene expression varies drastically between tumors and within cells of a single tumor. This variability in gene expression can be caused by gene-regulatory mechanisms such as DNA copy number changes, extrachromosomal DNA, or aberrant methylation, amongst many others. These mechanisms sometimes generate extreme outliers: transcripts that show atypically high or low gene expression in a small percentage of cancers. These outliers increase the molecular and phenotypic diversity between individuals, contributing to tumor heterogeneity. Gene expression in cancer has been well studied with many reports of differential gene expression patterns between specific cancer types or subtypes. Importantly, many of these differences were strongly associated with tumorigenesis and tumor progression. For example, the BCR-ABL fusion was discovered in chronic myeloid leukemia with drugs targeting this fusion gene dramatically increasing the survival rate. The EML-ALK fusion gene is another example of a gene-expression outlier and drug target. It occurs in about 4% of non-small-cell lung carcinomas and has been routinely screened for. These examples demonstrate the critical role gene expression outliers play in cancer progression and highlight their potential as biomarkers for diagnostics and identifying novel drug targets. Despite their importance, there has not yet been a comprehensive pan-cancer study of gene expression outliers and their general properties. We lack the answers to fundamental questions such as how many outliers exist in a typical tumor, whether this differs across cancer types, what mechanisms generate the most outliers, whether specific clinical or somatic mutational features correlate with the number or type of outliers, and how many recurrent outliers exist. To answer these questions, we performed a comprehensive and systematic analysis of cancer gene-expression outliers using molecular data from multiple cancer genomics projects. We have created a new statistical outlier detection method and applied it to transcriptomics and proteomics data across 33 cancer types. We used this resource to describe the fundamental landscape of gene-expression outliers, including the most likely genetic and epigenetic mechanisms driving them. The resulting outliers will be further studied for their impact on cancer progression and validated hits will serve as clinically relevant biomarkers and targets for future functional and therapeutic investigations. Citation Format: Jee Yun Han, Stefan Eng, Jaron Arbet, Paul Boutros. Comprehensive study of gene expression outliers and their regulation mechanisms in pan-cancer [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr 238.
Simultaneous radiofrequency (RF) heating and magnetic resonance (MR) thermal mapping using an intravascular MR imaging/RF heating system (2005)

Previous studies have confirmed the possibility of using an intravascular MR imaging guidewire (MRIG) as a heating source to enhance vascular gene transfection/expression. This motivated us to develop a new intravascular system that can perform MR imaging, radiofrequncy (RF) heating, and MR temperature monitoring simultaneously in an MR scanner. To validate this concept, a series of mathematical simulations of RF power loss along a 0.032-inch MRIG and RF energy spatial distribution were performed to determine the optimum RF heating frequency. Then, an RF generator/amplifier and a filter box were built. The possibility for simultaneous RF heating and MR thermal mapping of the system was confirmed in vitro using a phantom, and the obtained thermal mapping profile was compared with the simulated RF power distribution. Subsequently, the feasibility of simultaneous RF heating and temperature monitoring was successfully validated in vivo in the aorta of living rabbits. This MR imaging/RF heating system offers a potential tool for intravascular MR-mediated, RF-enhanced vascular gene therapy.