gebhart/patrepeval huggingface dataset:
The human hnRNP-M proteins: structure and relation with early heat shock-induced splicing arrest and chromosome mapping (1996)

With anti-hnRNP monoclonal antibody 6D12 we previously showed in HeLa cells that as early as 10 min after the onset of a heat shock at 45 degrees C, a 72.5-74 kDa antigen doublet leaves the hnRNPs and strongly associates with the nuclear matrix, the effect being reversed after a 6 h recovery at 37 degrees C. cDNA cloning and sequencing enabled us to identify these antigens as hnRNP-M proteins and further to show that the correct sequence differs by an 11 amino acid stretch from the originally published sequence. We also show that monoclonal antibodies raised against synthetic hnRNP-M peptides can directly inhibit in vitro splicing. Furthermore, stressing cells at 45 degrees C for 10 min is sufficient to abolish the splicing capacity of subsequently prepared nuclear extracts which, interestingly, do not contain the hnRNP-M proteins any more. Taken together, our data suggest that these proteins are involved in splicing as well as in early stress-induced splicing arrest. Further in situ hybridization assays located the hnRNP-M encoding gene on human chromosome 19.
Device for More Economical Standby Operation of Continuous-Flow Analyzers (1975)

To decrease the reagent-consumption rate of continuous-flow analyzers, I constructed a device that allows standby operation. The device, when actuated by switching off the sampler, decreases the effective pumping rate to less than 1/15 normal. The bubble pattern remains virtually undisturbed, and the system can be immediately restarted for emergency use. During five months of use in our laboratory with a Technicon platelet counter, the device was decreased reagent consumption by 60%, while allowing 24-hour-a-day operation. There have been no analytical errors traceable to the device, and no mechanical problems have arisen. I describe the use of the device in a continuous-flow system for determination of creatinine.
Trust and Understanding. The value of metadata in a digitally joined-up world: Conclusion, a Vision for the Future (2019)

This article shows that metadata plays a central role in our society and concludes that through collaborative work, it is possible to pool solutions and to establish relationships of cooperation, both at the level of practical tool development and with regard to sharing and creating knowledge and know-how.
Solvent‐ and Catalyst‐Free Aza‐Michael Addition of Imidazoles and Related Heterocycles (2020)

This work demonstrates the scope and limitations of the aza‐Michael addition of imidazoles and related heterocycles with electron deficient olefins under solvent‐ and catalyst‐free conditions. The reaction proceeds at 80 °C within hours towards completion as long as the azole derivative is sufficiently soluble in the Michael acceptor, which has been used in small excess. Workup only comprises evaporation of surplus Michael‐acceptor, and no additional solvents are necessary for purifying the products.
Palladium-Mediated Three-Component Synthesis of Furo[2,3-b]pyridones by One-Pot Coupling of 3-Iodopyridones, Alkynes, and Organic Halides (2003)

[reaction: see text] The one-pot assembly of 4-alkoxy-3-iodo-2-pyridones, terminal alkynes, and organic halides has been achieved by integration of two sequential palladium-mediated cross-coupling reactions--Sonogashira and Wacker-type heteroannulation processes--and subsequent deprotection of the alkoxy group to afford furo[2,3-b]pyridones.
Prediction and Comparison of High-Performance On-Chip Global Interconnection (2010)

As process technology scales, numerous interconnect schemes have been proposed to mitigate the performance degradation caused by the scaling of on-chip global wires. In this paper, we review current on-chip global interconnect structures and develop simple models to analyze their architecture-level performance. We propose a general framework to design and optimize a new category of global interconnect based on on-chip transmission line (T-line) technology. We perform a group of experiments using six different global interconnection structures to discover their differences in terms of latency, energy per bit, throughput, area, and signal integrity over several technology nodes. Our results show that T-line structures have the potential to outperform conventional repeated RC wires at future technology nodes to achieve higher performance while using less power and improving the reliability of wire communication. Our results also show that on-chip equalization is helpful to improve throughput, signal integrity, and power efficiency.
Cell-Free Massive MIMO: Uniformly Great Service For Everyone (2015)

We consider the downlink of Cell-Free Massive MIMO systems, where a very large number of distributed access points (APs) simultaneously serve a much smaller number of users. Each AP uses local channel estimates obtained from received uplink pilots and applies conjugate beamforming to transmit data to the users. We derive a closed-form expression for the achievable rate. This expression enables us to design an optimal max-min power control scheme that gives equal quality of service to all users. We further compare the performance of the Cell-Free Massive MIMO system to that of a conventional small-cell network and show that the throughput of the Cell-Free system is much more concentrated around its median compared to that of the small-cell system. The Cell-Free Massive MIMO system can provide an almost $20-$fold increase in 95%-likely per-user throughput, compared with the small-cell system. Furthermore, Cell-Free systems are more robust to shadow fading correlation than small-cell systems.
Of mice and men: a comparative study of cancer-associated fibroblasts in mammary carcinoma (2012)

We conclude that the MMTV-PyMT mouse model of breast cancer will have utility as a discovery tool for biomarkers of cancer-associated fibroblasts during malignant conversion.
System Design Considerations for Undersea Networks: Link and Multiple Access Protocols (2008)

We address several inter-related aspects of underwater network design within the context of a cross-layer approach. We first highlight the impact of key characteristics of the acoustic propagation medium on the choice of link layer parameters; in turn, the consequences of these choices on design of a suitable MAC protocol and its performance are investigated. Specifically, the paper makes contributions on the following fronts: a) Based on accepted acoustic channel models, the pointto- point (link) capacity is numerically calculated, quantifying sensitivities to factors such as the sound speed profile, power spectral density of the (colored) additive background noise and the impact of boundary (surface) conditions for the acoustic channel; b) It provides an analysis of the Micromodem-like linklayer based on FH-FSK modulation; and finally c) it undertakes performance evaluation of a simple MAC protocol based on ALOHA with Random Backoff, that is shown to be particularly suitable for small underwater networks.
Annealed Langevin Dynamics for Massive MIMO Detection (2022)

Solving the optimal symbol detection problem in multiple-input multiple-output (MIMO) systems is known to be NP-hard. Hence, the objective of any detector of practical relevance is to get reasonably close to the optimal solution while keeping the computational complexity in check. In this work, we propose a MIMO detector based on an annealed version of Langevin (stochastic) dynamics. More precisely, we define a stochastic dynamical process whose stationary distribution coincides with the posterior distribution of the symbols given our observations. In essence, this allows us to approximate the maximum a posteriori estimator of the transmitted symbols by sampling from the proposed Langevin dynamic. Furthermore, we carefully craft this stochastic dynamic by gradually adding a sequence of noise with decreasing variance to the trajectories, which ensures that the estimated symbols belong to a pre-specified discrete constellation. Based on the proposed MIMO detector, we also design a robust version of the method by unfolding and parameterizing one term– the score of the likelihood– by a neural network. Through numerical experiments in both synthetic and real-world data, we show that our proposed detector yields state-of-the-art symbol error rate performance and the robust version becomes noise-variance agnostic.
ChemInform Abstract: PARAMAGNETIC ORGANOMETALLIC MOLECULES. 12. ELECTROCHEMICAL STUDIES OF REACTIONS WITH LEWIS BASES FOLLOWING METAL‐METAL BOND CLEAVAGE IN R2C2CO2(CO)6 RADICAL ANIONS (1983)

Abstract Mittels Gleichstrompolarographie und cyclischer Voltammetrie an Hg‐ und Pt‐Elektroden werden genaue elektrochemische Untersuchungen an den Komplexen (I) durchgeführt.
Dynamics of Lightly Sulfonated Polystyrene Ionomers (1998)

The tracer diffusion coefficients of both ion-containing polymer chains and their associated counterions were measured in lightly sulfonated ionomers as a function of temperature, ion content, and chain length. The data are shown to be in good agreement with relaxation times derived from viscoelastic measurements at high temperatures. The results are interpreted in terms of a reptation model, modified to account for the additional constraints on individual chain motion imposed by the associating ion pairs.
Modulation of Microglia by P2X and P2Y Receptors (2019)

Microglial cells are involved in a complex series of physiologic and pathophysiologic interactions in the nervous system, and the receptors responsible for mediating these responses are central to coordinating these responses. ATP is a key extracellular signaling molecule in brain and retinal injury, and our previous results indicate release of ATP through pannexin hemichannels following mechanical injury to astrocytes. We ask here whether ATP alters migration, reactivation state and cytokine release in retinal and brain microglial cells. Using a Boyden chamber, ATP was shown to be a powerful chemoattractant for primary microglial cells isolated from both the brain and the retina. Detection of Hoechst‐labeled microglia on the lower side of the chamber peaked after 3 hours. Microglial migration was reduced by exposure of the cells to the P2Y12 antagonist ARC‐69931, while the P2X7 antagonist A839977 had no effect. Exposure of primed microglia to ATP led to the release of IL‐1β. This release was mimicked with P2X7‐specific agonist BzATP, and inhibited with antagonist A839977. Preliminary findings suggest ATP increased markers for the M1‐like activation state and decreasing the M2‐like activation state of microglial cells. Together these data suggest that stimulation of P2 receptors for ATP has a key role to play in migration, cytokine release and reactivate state of microglial cells. We speculate that ATP is a key signaling connection between astrocytes and microglia and helps link mechanical strain to inflammatory signaling in neural tissue. Support or Funding Information This work is supported by NIH Grants EY015537 and EY013434, and the Vision Research Core Grant EY001583. This abstract is from the Experimental Biology 2019 Meeting. There is no full text article associated with this abstract published in The FASEB Journal .
System and method for protecting GPU memory instructions against faults (2023)

A system and method for protecting memory instructions against faults are described. The system and method include converting the slave instructions to dummy operations, modifying memory arbiter to issue up to N master and N slave global/shared memory instructions per cycle, sending master memory requests to memory system, using slave requests for error checking, entering master requests to the GM/LM FIFO, storing slave requests in a register, and comparing the entered master requests with the stored slave requests.
Substituting vegetable oil for fish oil in pikeperch diets: the impact on growth, internal organ histology, blood biochemical parameters, and proximate composition (2010)

The aim of the study was to evaluate the impact of supplementing feed with vegetable oil on the growth, blood biochemical parameters, and histological structures in the liver, intestines, spleen, and the chemical composition of juvenile pikeperch. The fish were fed isoprotein and isoenergetic feeds with 190 g kg−1 of fat. Feeds was supplemented with fish oil (FO), linseed oil (LO), or peanut oil (PO) in the same quantities (160 g kg−1). The fourth group of fish was fed commercial feed (CF). Feeding juvenile pikeperch with various lipid quantities did not result in differences in fish growth. The highest apparent protein retention and the lowest apparent lipid retention values were observed in pikeperch fed feed with LO. LO resulted in a low content of palmitic acid and high of α-linolenic acid in the feed and was linked to a significantly lower lipid and higher protein content in the viscera, and pathological changes in the liver. Vegetable oils increased the viscerosomatic index value and activity in aspartate aminotransferase and alanine aminotransferase, ceruloplasmin, and higher bilirubin content. Supplementation with vegetable oils in pikeperch feed lowered the content of eicosapentaenoic and docosahexaenoic acids in fillets compared to feed with FO.
Throughput optimization strategies for large-scale wireless LANs (2015)

Thanks to the active development of IEEE 802.11, the performance of wireless local area networks (WLANs) is improving by every new edition of the standard facilitating large enterprises to rely on Wi-Fi for more demanding applications. The limited number of channels in the unlicensed industrial scientific medical frequency band however is one of the key bottlenecks of Wi-Fi when scalability and robustness are points of concern. In this paper we propose two strategies for the optimization of throughput in wireless LANs: a heuristic derived from a theoretical model and a surrogate model based decision engine.
Functional lung imaging with transient spoiled gradient echo (2018)

At 3 T, application of balanced SSFP is limited, so tSPGR offers an alternative framework for successful lung function assessment using matrix pencil MRI.
Aggregate complexes of HIV-1 induced by multimeric antibodies (2014)

Antibody mediated viral aggregation may impede viral transfer across mucosal surfaces by hindering viral movement in mucus, preventing transcytosis, or reducing inter-cellular penetration of epithelia thereby limiting access to susceptible mucosal CD4 T cells and dendritic cells. These functions may work together to provide effective immune exclusion of virus from mucosal tissue; however little is known about the antibody characteristics required to induce HIV aggregation. Such knowledge may be critical to the design of successful immunization strategies to facilitate viral immune exclusion at the mucosal portals of entry. The potential of neutralizing and non-neutralizing IgG and IgA monoclonals (mAbs) to induce HIV-1 aggregation was assessed by Dynamic light scattering (DLS). Although neutralizing and non-neutralizing IgG mAbs and polyclonal HIV-Ig efficiently aggregated soluble Env trimers, they were not capable of forming viral aggregates. In contrast, dimeric (but not monomeric) IgA mAbs induced stable viral aggregate populations that could be separated from uncomplexed virions. Epitope specificity influenced both the degree of aggregation and formation of higher order complexes by dIgA. IgA purified from serum of uninfected RV144 vaccine trial responders were able to efficiently opsonize viral particles in the absence of significant aggregation, reflective of monomeric IgA. These results collectively demonstrate that dIgA is capable of forming stable viral aggregates providing a plausible basis for testing the effectiveness of aggregation as a potential protection mechanism at the mucosal portals of viral entry.
Structural and Functional Features of a Developmentally Regulated Lipopolysaccharide-Binding Protein (2020)

ABSTRACT Mammalian lipopolysaccharide (LPS) binding proteins (LBPs) occur mainly in extracellular fluids and promote LPS delivery to specific host cell receptors. The function of LBPs has been studied principally in the context of host defense; the possible role of LBPs in nonpathogenic host-microbe interactions has not been well characterized. Using the Euprymna scolopes-Vibrio fischeri model, we analyzed the structure and function of an LBP family protein, E. scolopes LBP1 (EsLBP1), and provide evidence for its role in triggering a symbiont-induced host developmental program. Previous studies showed that, during initial host colonization, the LPS of V. fischeri synergizes with peptidoglycan (PGN) monomer to induce morphogenesis of epithelial tissues of the host animal. Computationally modeled EsLBP1 shares some but not all structural features of mammalian LBPs that are thought important for LPS binding. Similar to human LBP, recombinant EsLBP1 expressed in insect cells bound V. fischeri LPS and Neisseria meningitidis lipooligosaccharide (LOS) with nanomolar or greater affinity but bound Francisella tularensis LPS only weakly and did not bind PGN monomer. Unlike human LBP, EsLBP1 did not bind N. meningitidis LOS:CD14 complexes. The eslbp1 transcript was upregulated ~22-fold by V. fischeri at 24 h postinoculation. Surprisingly, this upregulation was not induced by exposure to LPS but, rather, to the PGN monomer alone. Hybridization chain reaction-fluorescent in situ hybridization (HCR-FISH) and immunocytochemistry (ICC) localized eslbp1 transcript and protein in crypt epithelia, where V. fischeri induces morphogenesis. The data presented here provide a window into the evolution of LBPs and the scope of their roles in animal symbioses. IMPORTANCE Mammalian lipopolysaccharide (LPS)-binding protein (LBP) is implicated in conveying LPS to host cells and potentiating its signaling activity. In certain disease states, such as obesity, the overproduction of this protein has been a reliable biomarker of chronic inflammation. Here, we describe a symbiosis-induced invertebrate LBP whose tertiary structure and LPS-binding characteristics are similar to those of mammalian LBPs; however, the primary structure of this distantly related squid protein (EsLBP1) differs in key residues previously believed to be essential for LPS binding, suggesting that an alternative strategy exists. Surprisingly, symbiotic expression of eslbp1 is induced by peptidoglycan derivatives, not LPS, a pattern converse to that of RegIIIγ, an important mammalian immunity protein that binds peptidoglycan but whose gene expression is induced by LPS. Finally, EsLBP1 occurs along the apical surfaces of all the host’s epithelia, suggesting that it was recruited from a general defensive role to one that mediates specific interactions with its symbiont.
Number Theory and Algebra (1995)

The theory of numbers plays a central role in several areas of great importance to computer science, such as cryptography, pseudo-random number generation, complexity theory, algebraic problems, coding theory, and combinatorics, to name just a few. We have already seen that relatively simple properties of prime numbers allow us to devise k-wise independent variables (Chapter 3), and number-theoretic ideas are at the heart of the algebraic techniques in randomization discussed in Chapter 7.
THE “COOL-SEAL” SYSTEM (1997)

Yamazaki, K.; Tagusari, O.; Litwak, P.; Griffith, B. P.; Mori, T.*; Tomioka, J.**; Antaki, J. F.; Koyanagi, H.***; Kormos, R. L. Author Information
Coherent Evolution of Signal Amplification by Reversible Exchange in Two Alternating Fields (alt‐SABRE) (2021)

Parahydrogen (pH<sub>2</sub> ) is a convenient and cost-efficient source of spin order to enhance the magnetic resonance signal. Previous work showed that transient interaction of pH<sub>2</sub> with a metal organic complex in a signal amplification by reversible exchange (SABRE) experiment enabled more than 10 % polarization for some <sup>15</sup> N molecules. Here, we analyzed a variant of SABRE, consisting of a magnetic field alternating between a low field of ∼1 μT, where polarization transfer is expected to take place, and a higher field >50 μT (alt-SABRE). These magnetic fields affected the amplitude and frequency of polarization transfer. Deviation of a lower magnetic field from a "perfect" condition of level anti-crossing increases the frequency of polarization transfer that can be exploited for polarization of short-lived transient SABRE complexes. Moreover, the coherences responsible for polarization transfer at a lower field persisted during magnetic field variation and continued their spin evolution at higher field with a frequency of 2.5 kHz at 54 μT. The latter should be taken into consideration for an efficient alt-SABRE. Theoretical and experimental findings were exemplified with Iridium N-heterocyclic carbene SABRE complex and <sup>15</sup> N-acetonitrole, where a 30 % higher <sup>15</sup> N polarization with alt-SABRE compared to common SABRE was reached.
Evaluation of Compliant Robot Arm with Quasi DD Motor and Gravity Compensation Mechanism (2021)

We have developed a actuator composed of quasi-DD motor and gravity compensation mechanism. In this paper, we have developed a compliant 3DOF robot arm with the actuator and conducted evaluation experiments of the robot arm. It showed the effectiveness of the actuator and the compliant robot arm.
4-D frequency selective extrapolation for error concealment in multi-view video (2008)

Practical applications for multi-view video such as three-dimensional television may require to transmit the data over error-prone channels. Even when channel coding is used, it is likely that parts of the image information are lost after decoding. To improve the image quality in this case, an efficient algorithm for multi-view error concealment is presented. Extending and enhancing a previously known method for single-view concealment, the algorithm simultaneously uses information from surrounding image parts, from temporally preceding and succeeding frames and from neighbouring camera views for extrapolating known image samples into the lost area. It is shown that the proposed algorithm leads to convincing results in terms of PSNR as well as to a good subjective quality. Compared to single-view concealment, the result is improved by up to 0.75 dB by adding cross-view information.
Mechanism of the Stereocomplex Formation between Enantiomeric Poly(lactide)s (1996)

Poly(L-lactide) (PLLA) and poly(D-lactide) (PDLA) crystallize into a stereocomplex with a melting point 50 °C higher than the crystals of the enantiomers. The racemic crystal is formed by packing β-form 31-helices of opposite absolute configuration alternatingly side by side. Single crystals of the stereocomplex exhibit triangular shape. The drastic difference of the powder patterns evidences the different packing of the β-form in the stereocomplex and in crystals of the pure lactides. By force field simulation of the stereocomplex and the PLLA unit cells and of their powder patterns, the reasons for the different packing could be clarified. Between the β-helices in the stereocomplex, van der Waals forces cause a specific energetic interaction-driven packing and, consequently, higher melting point. Helices of identical absolute configuration pack different from pairs of enantiomer β-helices. Packing favors R-type helication. A well-defined 103-helix has not been found. Good agreement with the experimental powder patterns proves the correctness of the simulations. On the basis of morphology, packing calculations, and atomic force microscopy, we propose a model of stereocomplex crystal growth, which explains the triangular shape of single crystals. Thus, for polymer components beyond chain folding length, the stereocomplex formation by simultaneous folding of the two types of chains is plausible. The triangular type of crystallizing offers favorable position for the polymer loops during the crystal growth. Our study of the PLA complexation mechanism may offer a chance to predict other polymeric stereocomplexes and their properties.