gebhart/patrepeval huggingface dataset:
Exploiting data transfer locality in memory mapping (1999)

System-level exploration of memory architectures is one of the key issues in successful implementation of data-transfer dominated applications. Usually, one of the main design bottlenecks is the memory access bandwidth. Transformations, rearranging the layout of the data records stored in memory, are very effective to improve the locality of the data transfers but usually lead to a large memory bit-wastage when not performed carefully. In this paper, a methodology which reduces memory bandwidth requirements without sacrificing storage space is proposed. The methodology exploits parallelism in the data-transfers to rearrange the layout of the data records. Distributed memory organization combined with our proposed layout rearrangement methodology allow to effectively reduce the memory bandwidth bottleneck in data-transfer dominated applications.
Polyamine−Quantum Dot Nanocomposites:  Linear versus Starburst Stabilizer Architectures (1999)

Recently, a number of research groups have found that dendrimers are effective templates for the synthesis of inorganic nanomaterials (Sooklal, K.; Hanus, L. H.; Ploehn, H. J.; Murphy, C. J. Adv. Mater. 1998, 10, 1083. Balogh, L.; Tomalia, D. A. J. Am. Chem. Soc. 1998, 120, 7355. Zhao, M.; Sun, L.; Crooks, R. M. J. Am. Chem. Soc. 1998, 120, 4877.). Here, we report that linear polymer analogues of the dendrimer molecules can be used to make CdS nanocomposites with similar optical properties in solution, albeit with reduced quantum yield of emission. High local concentration of chelating nitrogens on the polymer or dendrimer is hypothesized to be the key feature for ultrasmall, defect-free CdS nanoparticle formation. Immobilization of the nanocomposites in a sol−gel glass is an effective means to capture them in a solid form.
PPPS-2013: Comparison of dielectric materials for energy storage and microwave tuning for pulsed power applications (2013)

Among high dielectric constant materials being used for energy storage and tuning applications the dominant material for the last thirty years has been modified barium titanate. This is surprising since the requirements for tunable materials are very different from the energy storage ones. For the high energy storage dielectrics, it is required to extend high polarizability to as high field as possible while for tunable dielectrics as large a change in polarizability with field as possible are commonly desirable. In this presentation we will attempt to reconcile this apparent contradiction. We will also discuss alternative dielectrics for energy storage and tuning including composite materials. Interestingly, for the composites layered structures are very attractive for both applications but the preferred connectivity of phases for the energy storage is in series and for tunability is in parallel. We will present examples of tunable and energy storage materials based on our work in collaboration with TRS Technologies, Inc., University of Southhampton, and Sheffield University which were not presented at the prior pulsed power conferences.
Affine‐invariant character recognition by progressive removing (2012)

Abstract Recognizing characters in scene images suffering from perspective distortion is a challenge. Although there are some methods to overcome this difficulty, they are time‐consuming. In this paper, we propose a set of affine‐invariant features and a new recognition scheme called “progressive removing” that can help reduce the processing time. Progressive removing gradually removes less feasible categories and skew angles by using multiple classifiers. We observed that progressive removing and the use of the affine invariant features reduced the processing time by about 60% in comparison to a trivial algorithm without decreasing the recognition rate. © 2012 Wiley Periodicals, Inc. Electr Eng Jpn, 180(2): 55–63, 2012; Published online in Wiley Online Library ( wileyonlinelibrary.com ). DOI 10.1002/eej.22276
Horizontal Transmission of Malignancy: In-Vivo Fusion of Human Lymphomas with Hamster Stroma Produces Tumors Retaining Human Genes and Lymphoid Pathology (2013)

We report the in-vivo fusion of two Hodgkin lymphomas with golden hamster cheek pouch cells, resulting in serially-transplanted (over 5-6 years) GW-532 and GW-584 heterosynkaryon tumor cells displaying both human and hamster DNA (by FISH), lymphoma-like morphology, aggressive metastasis, and retention of 7 human genes (CD74, CXCR4, CD19, CD20, CD71, CD79b, and VIM) out of 24 tested by PCR. The prevalence of B-cell restricted genes (CD19, CD20, and CD79b) suggests that this uniform population may be the clonal initiating (malignant) cells of Hodgkin lymphoma, despite their not showing translation to their respective proteins by immunohistochemical analysis. This is believed to be the first report of in-vivo cell-cell fusion of human lymphoma and rodent host cells, and may be a method to disclose genes regulating both organoid and metastasis signatures, suggesting that the horizontal transfer of tumor DNA to adjacent stromal cells may be implicated in tumor heterogeneity and progression. The B-cell gene signature of the hybrid xenografts suggests that Hodgkin lymphoma, or its initiating cells, is a B-cell malignancy.
Crystal structure of the chi:psi subassembly of the Escherichia coli DNA polymerase clamp‐loader complex (2004)

The chi (chi) and psi (psi) subunits of Escherichia coli DNA polymerase III form a heterodimer that is associated with the ATP-dependent clamp-loader machinery. In E. coli, the chi:psi heterodimer serves as a bridge between the clamp-loader complex and the single-stranded DNA-binding protein. We determined the crystal structure of the chi:psi heterodimer at 2.1 A resolution. Although neither chi (147 residues) nor psi (137 residues) bind to nucleotides, the fold of each protein is similar to the folds of mononucleotide-(chi) or dinucleotide-(psi) binding proteins, without marked similarity to the structures of the clamp-loader subunits. Genes encoding chi and psi proteins are found to be readily identifiable in several bacterial genomes and sequence alignments showed that residues at the chi:psi interface are highly conserved in both proteins, suggesting that the heterodimeric interaction is of functional significance. The conservation of surface-exposed residues is restricted to the interfacial region and to just two other regions in the chi:psi complex. One of the conserved regions was found to be located on chi, distal to the psi interaction region, and we identified this as the binding site for a C-terminal segment of the single-stranded DNA-binding protein. The other region of sequence conservation is localized to an N-terminal segment of psi (26 residues) that is disordered in the crystal structure. We speculate that psi is linked to the clamp-loader complex by this flexible, but conserved, N-terminal segment, and that the chi:psi unit is linked to the single-stranded DNA-binding protein via the distal surface of chi. The base of the clamp-loader complex has an open C-shaped structure, and the shape of the chi:psi complex is suggestive of a loose docking within the crevice formed by the open faces of the delta and delta' subunits of the clamp-loader.
Generation of broadband sub-Poissonian-light in light-emitting diodes (2001)

Summary form only given. Generally, light-emitting diodes (LEDs) are considered to be low-performance devices in comparison with laser diodes (LDs). However, for future applications such as the parallel inter- or intra-integrated-circuit chip optical-connections, where very low power-consumption is required for the light emitters, a LED can be a very attractive device because of the threshold-free input-output characteristics. So far, continuous efforts have been made to improve the performance of LEDs. In this paper, we focus on another very important aspect, i.e. the noise characteristics. In comparison with LDs, in general, LEDs exhibit excellent noise characteristics, particularly at low injection levels. We show that the intensity fluctuation of the output light from an LED can be squeezed below the full shot-noise (FSN) level in a wide frequency range up to 800 MHz at room temperature. Such a squeezing bandwidth, three orders of magnitude wider than that in the first report on shot-noise suppression in a LED and rather close to the widest bandwidth (1.1 GHz) obtained with LDs at 77 K has been believed to be impossible. In addition, use of a separate confinement hetero(SCH-) structure in the active region allowed us to use a moderate doping concentration (5 /spl times/ 10/sup 18/ cm/sup -3/), resulting in a sufficiently high internal quantum efficiency, /spl sim/30%.
Protecting against DNS cache poisoning attacks (2010)

DNS is vulnerable to cache poisoning attacks, whereby an attacker sends a spoofed reply to its own query. Historically, an attacker only needed to guess a predictable, or more recently, a 16 bit pseudorandom ID in order to be successful. The Kaminsky attack demonstrated successful poisoning attacks that required only 6 seconds on typical networks. Since then, source port randomization (spr) has been used for additional protection. Nevetheless, E. Polyakov demonstrated successful poisoning attacks against spr given a Gigabit network, on the order of 10 hours. Even with slower network speeds, an attack is likely to be successful in a moderate time period. DNSSEC will provide a strong countermeasure to poisoning as well as other attacks against the DNS. However, until DNSSEC is actually deployed, there is a need for additional countermeasures that can be deployed in the near term. In this paper, we describe a new approach that is based on detecting a poisoning attack, then sending an additional request for the same DNS Resource Record. Since the defense is only activated when attacks occur, we expect the performance impact to be minimal. The countermeasure requires no changes to the DNS standards, and only requires modifications to the caching server. Thus it can be deployed incrementally in order to obtain immediate security benefits. We show that our proposed defense makes poisoning attacks substantially more difficult. We have implemented the countermeasure using a local proxy for the BIND caching server, and our tests show that the performance impact is minimal.
Shaped crystal growth of langasite-type piezoelectric single crystals and their physical properties (2011)

We have grown the shape-controlled langasite-type crystals by the μ-PD method. Columnar-shaped La <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> Ta <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.5</sub> Ga <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">5.5</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">14</sub> (LTG), Ca <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> NbGa <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> Si <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">14</sub> (CNGS), Ca <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> TaGa <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> Si <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">14</sub> (CTGS), Sr <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> NbGa <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> Si <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">14</sub> (SNGS) and Sr <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> TaGa <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> Si <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">14</sub> (STGS) crystals were grown using the Pt-Rh crucible with a columnar die in 3 mm diameter at the bottom. All grown crystals indicated high transparency and approximately 3 mm diameter. Their chemical phases was identified as a single phase of langasite-type structure and their lattice parameters were almost same as those of crystals grown by Cz method. In the X-ray rocking curve measurements, the grown crystals indicated equivalent crystallinity to the crystal grown by Cz method. In addition, the piezoelectric constant d <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">12</sub> of CNGS crystal was 3.98 pC/N and this value was well correlated with those of previous reports.
Recent Patents on water-soluble Polysaccharides for Advanced Drug delivery, Tissue Engineering and Regenerative Medicine (2022)

Water-soluble polysaccharides have unique properties and have found wide application in the design of advanced drug-delivery systems and the biofabrication of tissue engineered scaffolds in regenerative medicine. This patent review provides a concise incursion into the mechanisms that define the key properties of water-soluble polysaccharides that have found embodiment within active patents recently granted (2020-2021). In addition, the relationship between their solubility and structural features such as molecular weight, ionic profile, degree of branching/crosslinking, side-chain flexibility and the presence/modification of functional groups that have been discusses. An assimilation of patents in which water-soluble polysaccharides are central to the design of therapeutic interventions applied to specialized treatments in oncology, infectious diseases and neuronal disorders is provided.
Interim Phase I Results of Recombinant Immunotoxin HA22 in Patients with Hairy Cell and Chronic Lymphocytic Leukemias (2008)

Abstract For the treatment of B cell malignancies, we have developed a high affinity recombinant immunotoxin (HA22), which is composed of the Fv portion of an anti-CD22 antibody fused to a 38 kDa fragment of Pseudomonas exotoxin A. HA22 is an improved form of immunotoxin BL22, which produced a 50–60% complete remission (CR) rate in cladribine-resistant hairy-cell leukemia (HCL). A partial response (PR) rate of 17% was observed with BL22 in chemoresistant chronic lymphocytic leukemia (CLL). The higher response rate of BL22 in HCL compared to CLL is related to its higher cytotoxicity for HCL than CLL cells ex vivo (median IC50 4.3 ng/ml in 33 HCL patients vs 430 ng/ml in 70 CLL patients, p &amp;lt; 0.0001), and the higher CD22 expression on HCL than on CLL cells (median 44,000 vs 1250 sites/cell).To increase cytotoxic activity, the affinity of the Fv of BL22 was increased about 15-fold by phage display by mutating 3 amino acids in HCDR3 from SSY to THW. Patients with HCL and CLL were treated on 2 separate multicenter phase I protocols. To be eligible, patient required at least 2 prior standard therapies and a medical indication for treatment. HA22 was administered by 30 min infusion every other day for 3 doses (QOD ×3) and patients could be retreated at the same dose level every 4 weeks unless progressive disease or immunogenicity occurred. A standard 3–6 dose escalation scheme was used, allowing new patients to be enrolled at a higher dose level if 0 of 3 or 1 of 6 patients at the current level had dose limiting toxicity (DLT). A total of 16 HCL patients were treated with HA22 at 5, 10, 20, 30, and 40 ug/Kg QOD ×3. Three patients were treated at each of the first 4 dose levels, and a 4th patient received 40 ug/Kg QOD ×3 because one patient at that dose level received only 1 cycle. Of 14 evaluable patients who received a total of 45 cycles, 4 (29%) developed high levels of neutralizing antibodies. No DLT was observed on any cycle, although 1 patient developed a grade II hemolytic uremic syndrome (HUS) during cycle 3 of 30 ug/Kg QOD ×3. Major responses included 6 (38%) CRs and 6 (38%) PRs out of 16 evaluable HCL patients (unmonitored). Responses were observed at all dose levels including 3 of 3 PRs at the lowest dose level, and 1–2 CRs at each of the next dose levels. Like BL22, peak plasma levels of HA22 were inversely related to tumor burden as assessed by circulating malignant cells or spleen size, and increased with repeated doses as patients responded. Phase I testing of HA22 in CLL is at an earlier stage with 11 patients enrolled at dose levels of 5, 10, and 20 ug/Kg QOD ×3, and decreases in circulating CLL cells have been observed. In conclusion, HA22 has not yet shown DLT in phase I testing and is highly active in HCL. Compared to BL22, HA22 shows no evidence of increased toxicity due to enhanced binding affinity to CD22.
Stochastic Bouncy Particle Sampler (2016)

We introduce a novel stochastic version of the non-reversible, rejection-free Bouncy Particle Sampler (BPS), a Markov process whose sample trajectories are piecewise linear. The algorithm is based on simulating first arrival times in a doubly stochastic Poisson process using the thinning method, and allows efficient sampling of Bayesian posteriors in big datasets. We prove that in the BPS no bias is introduced by noisy evaluations of the log-likelihood gradient. On the other hand, we argue that efficiency considerations favor a small, controllable bias in the construction of the thinning proposals, in exchange for faster mixing. We introduce a simple regression-based proposal intensity for the thinning method that controls this trade-off. We illustrate the algorithm in several examples in which it outperforms both unbiased, but slowly mixing stochastic versions of BPS, as well as biased stochastic gradient-based samplers.
Optical properties of a bio-inspired gradient refractive index polymer lens (2008)

The design, fabrication, and properties of one of a new class of gradient-index lenses are reported. The lens is an f/2.25 GRIN singlet based on a nanolayered polymer composite material, designed to correct for spherical aberration. The light gathering and focusing properties of the polymer lens are compared to a homogeneous BK7 glass singlet with a similar f-number. The modulation transfer function of the polymer GRIN lens exceeded that of the homogeneous glass lens at all spatial frequencies and was as much as 3 times better at 5 cyc/mm. The weight of the polymer lens was approximately an order of magnitude less than the homogeneous glass lens.
A Recombinant Live Attenuated Strain of Vibrio cholerae Induces Immunity against Tetanus Toxin and Bordetella pertussis Tracheal Colonization Factor (1998)

An attenuated strain of Vibrio cholerae was used as a carrier for the expression of heterologous antigens such as fragment C from tetanus toxin (TetC) and tracheal colonization factor from Bordetella pertussis (Tcf). In vitro, high levels of protein were obtained when the Escherichia coli nirB promoter was used and the bacteria were grown with low aeration. Intranasal immunization of mice with IEM101 expressing TetC elicited serum vibriocidal activity and induced antibodies against tetanus toxin which were protective against lethal challenge with 10 times the 50% lethal dose of tetanus toxin. Bacterial viability was essential for the induction of anti-TetC antibodies. Intranasal administration of IEM101 expressing Tcf induced a significant reduction in bacterial colonization of the tracheas of mice challenged with wild-type B. pertussis. These data are in agreement with the putative role of Tcf in Bordetella tracheal colonization. In conclusion, we have demonstrated that V. cholerae may be used as a live vector to deliver heterologous antigens in vivo and that protection to both systemic and local challenge may be achieved.
Cancer prevention by tea polyphenols is linked to their direct inhibition of antiapoptotic Bcl-2-family proteins. (2003)

Epidemiological data and in vitro studies on cancer chemoprevention by tea polyphenols have gained attention recently from the scientific community, nutritionists, the pharmaceutical industry, and the public. Despite the several efforts made recently to elucidate the molecular basis for the anticancer activity of these natural products, little correlation has been found thus far between the putative protein targets of compounds found in tea extracts and levels found in plasma after tea consumption. Here, by using a combination of nuclear magnetic resonance binding assays, fluorescence polarization assay, and computational docking studies, we found that certain green tea catechins and black tea theaflavins are very potent inhibitors (K(i) in the nanomolar range) of the antiapoptotic Bcl-2-family proteins, Bcl-x(L) and Bcl-2. These data suggest a strong link between the anticancer activities of these tea polyphenols and their inhibition of a crucial antiapoptotic pathway, which is implicated in the development of many human malignancies.
Defining the genetic susceptibility to cervical neoplasia—A genome-wide association study (2017)

A small percentage of women with cervical HPV infection progress to cervical neoplasia, and the risk factors determining progression are incompletely understood. We sought to define the genetic loci involved in cervical neoplasia and to assess its heritability using unbiased unrelated case/control statistical approaches. We demonstrated strong association of cervical neoplasia with risk and protective HLA haplotypes that are determined by the amino-acids carried at positions 13 and 71 in pocket 4 of HLA-DRB1 and position 156 in HLA-B. Furthermore, 36% (standard error 2.4%) of liability of HPV-associated cervical pre-cancer and cancer is determined by common genetic variants. Women in the highest 10% of genetic risk scores have approximately >7.1% risk, and those in the highest 5% have approximately >21.6% risk, of developing cervical neoplasia. Future studies should examine genetic risk prediction in assessing the risk of cervical neoplasia further, in combination with other screening methods.
Performance evaluation of OFDMA and multicarrier CDMA systems on airport surface area channels (2008)

To meet increasing communication demands on airport surface areas, several systems have been proposed. The OFDMA based IEEE 802.16e system and other multicarrier systems such as multicarrier code division multiple access (MC- CDMA) are of great interest, since they provide flexible data rates and good system performance. In this paper, the performance of several multi-carrier transmission schemes, including OFDMA, spread spectrum multi-carrier multiple access (SS-MC- MA), and frequency generalized multi-carrier CDMA (FG-MC-CDMA), are evaluated on airport surface area channels. All multicarrier spread spectrum systems considered here can be implemented on a common platform and together provide a large amount of flexibility in user data rates, system throughput, performance, and complexity. Moreover, adaptive subcarrier- allocation is not required for these systems, which can greatly reduce system complexity compared to an AMC-OFDMA system.