gebhart/patrepeval huggingface dataset:
Magneto/Optical Annexin V, a Multimodal Protein (2004)

Multimodal proteins, or proteins labeled with both fluorescent and magnetic reporter groups, can be used in a wide range of applications including FACS or fluorescence microscopy, MRI and or near-infrared based optical imaging, or to fractionate cells by magnetic cell sorting. A problem with multimodal proteins, however, is the need to maximize bioactivity, often achieved by minimizing the number of modification points of the protein, while attaching fluorescent and magnetic labels. Here we describe the synthesis of a magneto/optical form of annexin V, achieved by reacting the amino-CLIO nanoparticle with Cy5.5 and SPDP, to produce a fluorescent, sulfhydryl reactive nanoparticle. A single reactive sulfhydryl group was added to annexin V by reaction with SATA that preserved the protein's ability to bind apoptotic Jurkat T cells. Reacting SATAylated annexin V with an SPDP activated nanoparticle yielded Anx-CLIO-Cy5.5, a magneto/optical form of annexin V. The binding of Anx-CLIO-Cy5.5 was specific for apoptotic Jurkat T cells and had an EC(50) of 3.66 nM. This was comparable to the strength of the interaction of unmodified annexin V with apoptotic cells, measured as the displacement of FITC-annexin by annexin V (2.4 nM). Our conjugation strategy preserves the strength of the interaction between annexin V and apoptotic cells, while yielding a probe, Anx-CLIO-Cy5.5, that is readily detectable by standard MR imaging or NIRF optical methods.
Learning from the genetics of enteric tuberculosis (2011)

See article in J. Gastroenterol. Hepatol. 2011; 26: 1145–1150.
p53 interferes with microtubule-stabilizing agent-induced apoptosis in prostate and colorectal cancer cells (2013)

Taxanes are microtubule-stabilizing agents that have anticancer activity against several types of human solid tumors. Although the primary mechanism of action of these drugs is well understood, the signaling pathways that confer resistance to these agents in certain types of cancer remain poorly understood. In particular, the association of p53 with the mechanism(s) of taxane-mediated cell death is still controversial. In this study, we showed that p53 has a profound inhibitory effect on docetaxel (Doc)-induced apoptosis in prostate and colorectal cancer cells and that caspases play a critical role in this process. Doc induced prostate cancer cell apoptosis at high levels in p53-null PC3 cells, at intermediate levels in p53-mutant DU145 cells and at low levels in p53 wild-type LNCaP cells. While transient overexpression of p53 in PC3 cells suppressed Doc-induced apoptosis, knockdown of p53 in LNCaP cells increased apoptosis. This finding was further confirmed using an isogenic pair of colorectal cancer cell lines, HCT-116 p53-/- and p53+/+, indicating that p53 inhibits induction of apoptosis by Doc. To our knowledge, this is the first report describing that chemical or genetic knockout of p53 enhances the susceptibility of both prostate and colorectal cancer cells to Doc-induced apoptosis. These results may suggest an approach to stratify patients for regimens involving Doc.
A Sensor Network Protocol for Automatic Meter Reading in an Apartment Building (2008)

A wireless sensor network for automatic meter reading needs to satisfy two contradicting requirements, i.e., long lifetime and prompt detection and notification of emergency. We propose a sensor network protocol for this purpose, in which sensor nodes operate on a low duty cycle while the latency of transmission is guaranteed to be less than a certain bound. In this protocol, each node is assigned a time slot in which it receives messages from other nodes. To accomplish slot assignment where nodes further from a BS are assigned earlier time slots for a packet to be transmitted to the BS in one cycle, we propose a slot assignment function with which a node can determine its own slot in a distributed way. We explore several slot assignment functions to find one which gives low and homogeneous contention over a grid network. The simulation results show that our protocol performs well close to the optimal case.
Mechanism design and autonomous movement and jump control for a jumping robot (2010)

This work introduces an autonomous jumping robot, capable of moving over the ground, and identifying obstacles as well as jumping over stairs. The robot could be employed to patrol in a building subject to stairs. The robot requires fast autonomous motion and makes use of novel jumping mechanisms to be fit into small-packed volume, reducing the weight enough to be held on human's hand. Several sensors are located on the robot including: a camera for monitoring and tracking a target, PSD (Position Sensitive Device) for distance measurements and ultrasonic sensors for alignment. Jumping is achieved using a four-bar link mechanism that pushes against the ground with the help of the compressed spring. The jumping height can be controlled by changing the tilt angle of the robot body, which allows the robot to adapt the obstacle size.
Retinal venular calibre dilatation after intravitreal ranibizumab treatment for neovascular age‐related macular degeneration (2011)

Intravitreal ranibizumab has a significant vasodilational effect on retinal venular calibre in eyes treated for neovascular age-related macular degeneration. The reason for this change is unclear, but may relate to changes in blood flow or inflammatory changes within the retina.
The Relationship Between Thoracic Hyperkyphosis and the Scoliosis Research Society Outcomes Instrument (2007)

These findings indicate that higher kyphosis magnitudes were associated with increased pain, lower self-image, and decreased function and activity. Patients with thoracic hyperkyphosis were significantly more symptomatic than normal subjects in all domains. The r values for this analysis of kyphosis (0.40-0.66), in fact were substantially greater than those previously reported for scoliosis magnitude versus SRS Questionnaire scores (0.16-0.26), suggesting this instrument may be even better suited for the evaluation of hyperkyphosis patients.
Transparent Flexible Heteroepitaxy of NiO Coated AZO Nanorods Arrays on Muscovites for Enhanced Energy Storage Application (2020)

Abstract Transparent flexible energy storage devices are considered as important chains in the next‐generation, which are able to store and supply energy for electronic devices. Here, aluminum‐doped zinc oxide (AZO) nanorods (NRs) and nickel oxide (NiO)‐coated AZO NRs on muscovites are fabricated by a radio frequency (RF) magnetron sputtering deposition method. Interestingly, AZO NRs and AZO/NiO NRs are excellent electrodes for energy storage application with high optical transparency, high conductivity, large surface area, stability under compressive and tensile strain down to a bending radius of 5 mm with 1000 bending cycles. The obtained symmetric solid‐state supercapacitors based on these electrodes exhibit good performance with a large areal specific capacitance of 3.4 mF cm −2 , long cycle life 1000 times, robust mechanical properties, and high chemical stability. Furthermore, an AZO/NiO//Zn battery based on these electrodes is demonstrated, yielding a discharge capacity of 195 mAh g −1 at a current rate of 8 A g −1 and a discharge capacity of over 1000 cycles with coulombic efficiency to 92%. These results deliver a concept of opening a new opportunity for future applications in transparent flexible energy storage.
Supplementary Methods from Integrative Analysis of Genomic Aberrations Associated with Prostate Cancer Progression (2023)

Supplementary Methods from Integrative Analysis of Genomic Aberrations Associated with Prostate Cancer Progression
Continuously Tunable Optical Frequency Shift of 1.6-Tb/s Superchannel up to THz-Range by Polarization Switched Frequency Conversion (2017)

We present a continuously tunable optical frequency shifter which allows to choose any shift-frequency including fractions of the original signal bandwidth. A 1.6-Tb/s PDM-16QAM superchannel is arbitrarily frequency-shifted within THz-range during a 200-km error-free transmission.
ラーニング・コモンズの先 : 重なり合うのは人なのか (2013)

情報メディア学会 第11回研究大会, パネルディスカッション「重なり合う実空間と電子空間：ラーニングコモンズ×ディスカバリサービス」, 2012年7月7日, 会場： 筑波大学東京キャンパス文京校舎
Skin tumor–promoting potential and systemic effects of pentachlorophenol and its major metabolite tetrachlorohydroquinone in CD‐1 Mice (2003)

The mouse skin carcinogenesis model provides a conceptual framework to study the carcinogenesis process. It has been used extensively to assess whether a chemical or physical agent carries a carcinogenic hazard to humans and to define the mechanism involved with the carcinogenic effects. We conducted a study to evaluate whether the tumor-promoting activity of pentachlorophenol (PCP) is mainly from its major metabolite tetrachlorohydroquinone (TCHQ). We applied the mouse skin model to CD-1 mice and the results showed that PCP and TCHQ are much weaker promoters than 12-O-tetradecanoylphorbol-13-acetate (TPA) in mouse skin during a 25-wk experiment. Both PCP and TCHQ could induce mice skin epidermal hyperplasia and proliferating cell nuclear antigen (PCNA) labeling index in the epidermis. However, TCHQ caused a more significant induction of epidermal hyperplasia and PCNA positive cells than PCP. Topical application of PCP, but not TCHQ, induced significant organ enlargement and lymphoma in mice, whereas short-term treatment of TCHQ increased tumor necrosis factor-alpha (TNF-alpha) gene expression in mouse skin. We did not observe a significant association between the carcinogenic process and serum TNF-alpha or interleukin-1 beta (IL-1 beta) levels in mice.
(Re)-conciliation of genetics and genomics approaches for cotton fiber quality improvement (2008)

The integration of genomics and plant breeding is driven by the increasing availability of sequence resources and by technological developments. The simultaneous measurement of the expression of thousands of genes is possible, and comparisons between contrasting genotypes and/or biological states, as well as within segregating populations has become feasible. In genetical genomics, the merger of genetics and genomics, gene expression profiles are quantitatively assessed within a segregating population, and expression quantitative trait loci (eQTL) can be mapped like classical QTLs. Methods and examples of applications related to genetical genomics will be reviewed, with emphasis on hybridisation-based (microarray) and PCR-based (cDNA-AFLP) techniques. Despite the complexity of the molecular mechanisms underlying its development, the study of the cotton fiber has become a trait of primary interest. Several maps, including QTL maps, have been published, structural and metabolic genes related to fiber initiation or elongation have been identified, and several large EST projects have been developed. In this context, the applicability of a genetical genomics approach for the study of cotton fiber quality will be discussed. A new cooperative project with CIRAD, Bayer CropScience and CSIRO, and supported by the French National Agency for Research, ANR, was initiated in 2007. The project aims at the genetic and genomic dissection of fiber quality using an interspecific Gossypium hirsutum X G. barbadense RIL population. Classical QTL mapping of fiber properties will be undertaken using data from different locations, and eQTLs will be detected using both microarray and cDNA-AFLP population-wide profiling.
Distributed Robust Power System State Estimation (2012)

Deregulation of energy markets, penetration of renewables, advanced metering capabilities, and the urge for situational awareness, all call for system-wide power system state estimation (PSSE). Implementing a centralized estimator though is practically infeasible due to the complexity scale of an interconnection, the communication bottleneck in real-time monitoring, regional disclosure policies, and reliability issues. In this context, distributed PSSE methods are treated here under a unified and systematic framework. A novel algorithm is developed based on the alternating direction method of multipliers. It leverages existing PSSE solvers, respects privacy policies, exhibits low communication load, and its convergence to the centralized estimates is guaranteed even in the absence of local observability. Beyond the conventional least-squares based PSSE, the decentralized framework accommodates a robust state estimator. By exploiting interesting links to the compressive sampling advances, the latter jointly estimates the state and identifies corrupted measurements. The novel algorithms are numerically evaluated using the IEEE 14-, 118-bus, and a 4200-bus benchmarks. Simulations demonstrate that the attainable accuracy can be reached within a few inter-area exchanges, while largest residual tests are outperformed.
Methyl Jasmonate Increases Isoflavone Production in Soybean Cell Cultures by Activating Structural Genes Involved in Isoflavonoid Biosynthesis (2018)

Isoflavonoids are a class of biologically active natural products that accumulate in soybean ( Glycine max L.) seeds during development, play vital roles in plant defense, and act as phytoestrogens with important human health benefits. Plant cell suspension cultures represent an excellent source of biologically important secondary metabolites. We found that methyl jasmonate (MJ) treatment increased isoflavone production in soybean suspension cell cultures. To investigate the underlying mechanism, we examined the expression of structural genes ( CHS6, CHS7, CHI1, IFS1, IFS2, IFMaT, and HID) in the isoflavonoid biosynthesis pathways in soybean suspension cells under various abiotic stress conditions. MJ treatment had the most significant effect on gene expression and increased the production of three glycosidic isoflavones (daidzin, malonyldaidzin, and malonylgenistin), with the maximum total isoflavone production (∼10-fold increase) obtained on day 9 after MJ application. MJ treatment significantly increased total phenolic contents and upregulated isoflavonoid biosynthesis genes, shedding light on the underlying mechanism.
Slide—The Key to Polynomial End-to-End Communication (1997)

We consider the basic task of ofend-to-end communicationin dynamic networks, that is, delivery in finite time of data items generated on-line by a sender, to a receiver, in order and without duplication or omission. A dynamic communication network is one in which links may repeatedly fail and recover. In such a network, though it is impossible to establish a communication path consisting of nonfailed links, reliable communication is possible, if there is no cut of permanently failed links between a sender and receiver. This paper presents the first polynomial complexity end-to-end communication protocol in dynamic networks. In the worst case the protocol sendsO(n2m) messages per data item delivered, wherenandmare the number of processors and number of links in the network respectively. The centerpiece of our solution is the novelslideprotocol, a simple and efficient method for delivering tokens across an unreliable network.Slideis the basis for several self-stabilizing protocols and load-balancing algorithms for dynamic networks that have subsequently appeared in the literature. We use our end-to-end protocol to derive a file-transfer protocol for sufficiently large files. The bit communication complexity of this protocol isO(nD) bits, whereDis the size in bits of the file. This file-transfer protocol yields anO(n)amortizedmessage complexity end-to-end protocol.
Measurement systems for microwave tomography of biological objects (1999)

Systems for EM-field measurements in biological objects of sizes up to that of the human body are presented. The authors introduce new reference channel circuitry which allows them to provide stability and system overgrowth using only a small quantity of precision components.
From bench to bedside: 64Cu/177Lu 1C1m-Fc anti TEM-1: mice-to-human dosimetry extrapolations for future theranostic applications (2023)

The development of diagnostic and therapeutic radiopharmaceuticals is an hot topic in nuclear medicine. Several radiolabeled antibodies are under development necessitating both biokinetic and dosimetry extrapolations for effective human translation. The validation of different animal-to-human dosimetry extrapolation methods still is an open issue. This study reports the mice-to-human dosimetry extrapolation of <sup>64</sup>Cu/<sup>177</sup>Lu 1C1m-Fc anti-TEM-1 for theranostic application in soft-tissue sarcomas. We adopt four methods; direct mice-to-human extrapolation (M1); dosimetry extrapolation considering a relative mass scaling factor (M2), application of a metabolic scaling factor (M3) and combination of M2 and M3 (M4). Predicted in-human dosimetry for the [<sup>64</sup>Cu]Cu-1C1m-Fc resulted in an effective dose of 0.05 mSv/MBq. Absorbed dose (AD) extrapolation for the [<sup>177</sup>Lu]Lu-1C1m-Fc indicated that the AD of 2 Gy and 4 Gy to the red-marrow and total-body can be reached with 5-10 GBq and 25-30 GBq of therapeutic activity administration respectively depending on applied dosimetry method. Dosimetry extrapolation methods provided significantly different absorbed doses in organs. Dosimetry properties for the [<sup>64</sup>Cu]Cu-1C1m-Fc are suitable for a diagnostic in-human use. The therapeutic application of [<sup>177</sup>Lu]Lu-1C1m-Fc presents challenges and would benefit from further assessments in animals' models such as dogs before moving into the clinic.
Multi-Target Vital Signs Remote Monitoring Using mmWave FMCW Radar (2021)

The application of radar in the medical field has attracted a lot of attention recently. Vital sign detection and monitoring are essential for certain use cases. Due to the limitations and discomfort during contact-based vital sign monitoring, the non-contact approach becomes preferred. In this work, a signal processing approach for multi-target breathing rate and heart rate monitoring is proposed. The proposed approach uses a frequency modulated continuous wave (FMCW) radar for contact-less vital sign monitoring. Using the proposed approach, the vital signs of multiple persons can be monitored simultaneously using a single mmWave radar. The results obtained using the proposed approach show an excellent match compared to a medical-grade instrument. This is especially notable for the heart rate monitoring, where the achieved accuracy error is only 7.77 %, outperforming other similar works.
Molecular imaging of dementia (2012)

Diagnosis and treatment strategies for dementia are based on the sensitive and specific detection of the incipient neuropathological characteristics, combined with emerging treatments that counteract molecular processes in its pathogenesis. Positron emission tomography (PET) is used for diverse clinical and basic studies on dementia with a wide range of radiotracers. Approaches to visualize amyloid deposition in human brains non-invasively with PET depend on imaging agents reacting with amyloid fibrils. The most widely used tracer is [(11) C]-6-OH-BTA-1, also known as Pittsburgh Compound-B, which has a high affinity to amyloid β peptide (Aβ) aggregates. Some (18) F-labeled amyloid ligands with a longer radioactive half-life have also been developed for broader clinical applications. In addition, there have been demonstrated advantages of tracers with high specific radioactivity in the sensitive detection of amyloid, which have indicated the significance of Aβ-N3-pyroglutamate as a new diagnostic and therapeutic target. Furthermore, beneficial outcomes of Aβ and tau immunization in humans and mouse models have highlighted crucial roles of immunocompetent glia in the protection of neurons against amyloid toxicities. The utility of PET with a radioligand for translocator protein as a biomarker for tau-triggered toxicity, and as a complement to amyloid and tau imaging for diagnostic assessment of tauopathies with and without Aβ pathologies, has also been demonstrated. Meanwhile, brain cholinergic function can be estimated by measuring acetylcholinesterase activity in the brain with PET and radiolabeled acetylcholine analogues. It has been reported that patients with early Parkinson's disease exhibit a reduction in acetylcholinesterase activity in the cerebral cortex, and this decline is more profound in patients with Parkinson's disease with dementia and dementia with Lewy bodies than in patients with Parkinson's disease without dementia. The Alzheimer's Disease Neuroimaging Initiative was a multicentre research project conducted over 6 years that studied changes in cognition, brain structure, and biomarkers in healthy elderly controls and subjects with mild cognitive impairment and Alzheimer's disease. An international workgroup of the National Institute on Aging-Alzheimer's Association has suggested that Alzheimer's disease would be optimally treated before significant cognitive impairment, defined as a 'presymptomatic' or 'preclinical' stage. Therefore, PET will be of technical importance for both clinical and basic research aimed at prodromal pathologies of Alzheimer's disease.
Remote Heart Rate Measurement from RGB-NIR Video Based on Spatial and Spectral Face Patch Selection (2018)

In this paper, we propose a novel heart rate (HR) estimation method using simultaneously recorded RGB and near-infrared (NIR) face videos. The key idea of our method is to automatically select suitable face patches for HR estimation in both spatial and spectral domains. The spatial and spectral face patch selection enables us to robustly estimate HR under various situations, including scenes under which existing RGB camera-based methods fail to accurately estimate HR. For a challenging scene in low light and with light fluctuations, our method can successfully estimate HR for all 20 subjects $( \pm 3$ beats per minute), while the RGB camera-based methods succeed only for 25% of the subjects.
Synthesis of 4‐Trifluoromethylated 2‐Alkyl‐ and 2,3‐Dialkyl‐Substituted Azetidines. (2004)

Abstract For Abstract see ChemInform Abstract in Full Text.
Comparison of Three Different Sensitive Assays for Hepatitis B Virus DNA in Monitoring of Responses to Antiviral Therapy (2000)

The aim of our study was to compare the performances of two new hepatitis B virus (HBV) DNA assays, a cross-linking assay (NAXCOR) and a hybrid-capture amplification assay (Digene), versus the widely used branched-DNA (bDNA) assay (Chiron) in the monitoring of HBV DNA levels during antiviral treatment. Serial serum samples from 12 chronically HBV infected patients undergoing a phase II trial of an antiviral drug, 2',3'-dideoxy-5-fluoro-3'-thiacytidine (FTC), were studied. A total of 96 serum samples were tested for HBV DNA using the cross-linking, hybrid-capture amplification, and bDNA assays. In the comparison of the cross-linking and bDNA assays, concordant results were found in 77 (80.3%) samples, no significant difference was found between the median log(10) HBV DNA levels (6.66 versus 7. 17 meq/ml), and the results of the two assays were closely correlated (r = 0.95). In the comparison of the hybrid-capture amplification and bDNA assays, concordant results were found in 79 (82.3%) samples, no significant difference was found between the median log(10) HBV DNA levels (6.98 versus 6.99 meq/ml), and the results of the two assays were closely correlated (r = 0.99). Six (6. 3%) samples by the cross-linking assay and 10 (10.4%) samples by the bDNA assay required retesting because of unacceptably high within-run coefficients of variance. No sample required retesting in the hybrid-capture amplification assay according to the internal validation. In conclusion, the cross-linking and hybrid-capture amplification assays were as sensitive as the bDNA assay for HBV DNA detection and can be recommended for monitoring of HBV DNA levels during antiviral treatment.