gebhart/patrepeval huggingface dataset:
Cooperative Transmission Through Signal-Superposition-Based Braid Coding (2015)

This paper investigates a cooperative transmission scheme for a multisource single-destination system through superposition modulation based on braid coding. The source nodes take turns transmitting, and each time, a source “overlays” its new data together with (some or all of) what it overhears from its partner(s), in a way similar to French braiding the hair. We show that the proposed “braid coding” cooperative scheme benefits not only from the cooperative diversity but from the bit error rate (BER) performance gain as well. We introduce two subclasses of braid coding, namely, the nonregenerative and regenerative cases, and, using the pairwise error probability (PEP) as a figure of merit, derive the optimal weight parameters for each one. By exploiting the structure relevance of braid codes with trellis codes, we propose a Viterbi maximum-likelihood (ML) decoding method of linear complexity for the regenerative case; we also investigate and compare several linear detectors for the nonregenerative case. We analyze the theoretical BER performance of the proposed scheme and prove that the full diversity order can be achieved using braid coding. Moreover, we discuss the memory size that strikes the best balance between performance and complexity by considering both the (Euclidean) free distance and the diversity order. The proposed braid coding can be viewed as a special case of network coding. Finally, we present soft-iterative joint channel-network decoding. The overall decoding process is divided into forward message passing and backward message passing, which makes effective use of the available reliability information from all the received signals. Simulation results confirm the efficacy and efficiency of the proposed scheme.
Radiofrequency Catheter Modification of Sinus Pacemaker Function Guided by Intracardiac Echocardiography (1995)

This study demonstrates the feasibility of modification of sinus pacemaker function for sinus rate control using catheter-based radiofrequency ablation guided by intracardiac echocardiography. This can be done while pacemaker stability and attenuated responsiveness to autonomic influences are preserved. Intracardiac echocardiography accurately defined the crista terminalis and provided a reliable means to anatomically localize catheter position in relation to the sinus node.
Effect of cloned human interferons on protein synthesis and morphogenesis of herpes simplex virus (1985)

Pretreatment of human fibroblast cells with 100 U of either cloned human alpha-2 or beta interferon per ml for 24 h reduced the release of infectious herpes simplex virus type 1 by more than 99%. This inhibition in infectivity correlated well with the total number of extracellular virus particles released from treated cells as determined by DNA dot blot hybridization analysis. Electron microscopic observations of interferon-treated human fibroblast cells clearly demonstrated typical assembly of nucleocapsids inside the nucleus, even though very few mature extracellular particles were seen. Analysis of virus-specific proteins by the immunoblot technique showed that neither species of interferon had a significant inhibitory effect on the synthesis of major nucleocapsid proteins. However, the synthesis of specific glycoproteins (D and B) was drastically reduced or delayed in beta-interferon-treated cells. The results presented in this communication suggest that cloned human interferons block herpes simplex virus morphogenesis at a late stage and inhibit the release of particles from the treated cells.
Tunable Self-Assembly of Genetically Engineered Silk–Elastin-like Protein Polymers (2011)

Silk--elastin-like protein polymers (SELPs), consisting of the repeating units of silk and elastin blocks, combine a set of outstanding physical and biological properties of silk and elastin. Because of the unique properties, SELPs have been widely fabricated into various materials for the applications in drug delivery and tissue engineering. However, little is known about the fundamental self-assembly characteristics of these remarkable polymers. Here we propose a two-step self-assembly process of SELPs in aqueous solution for the first time and report the importance of the ratio of silk-to-elastin blocks in a SELP's repeating unit on the assembly of the SELP. Through precise tuning of the ratio of silk to elastin, various structures including nanoparticles, hydrogels, and nanofibers could be generated either reversibly or irreversibly. This assembly process might provide opportunities to generate innovative smart materials for biosensors, tissue engineering, and drug delivery. Furthermore, the newly developed SELPs in this study may be potentially useful as biomaterials for controlled drug delivery and biomedical engineering.
Electroluminescence in ZnS: Mnx: Cuyrf–Sputtered Films (1974)

Evaluation of dc and pulsed dc electroluminescent (EL) properties in the system ZnS: Mnx: Cuy has been made on films deposited by rf co-sputtering from three targets of ZnS, Mn and Cu by an automated method. Enhancement of the performance of the EL films was achieved by coating them with current-limiting rf-sputtered cermet films. The optimum composition of the EL films was found to be 0.6 and 0.3 mole% Mn and Cu, respectively. Mean brightnesses of up to 770 fL and 20 fL have been measured with pulsed dc excitation at 12.5% and 0.1% duty cycle, respectively, at power efficiencies in the range of 10-4 to 10-3, (0.04 to 0.4 lumens/watt). Thus far, cell half-life of 400 hr (at 15 fL constant brightness) has been achieved. This work was sponsored by the U.S. Army Electronics Command, Ft. Monmouth, NJ, under Contract No. DAABO7–69–C–0290.
Experimental Study of the Dry and Near-Dry Electrical Discharge Milling Processes (2008)

This study investigates the dry and near-dry electrical discharge machining (EDM) milling to achieve a high material removal rate (MRR) and fine surface finish for roughing and finishing operations, respectively. Dry EDM uses gas and near-dry EDM applies a liquid-gas mixture as the dielectric medium. Experimental studies leading to the selection of oxygen gas and copper electrode for high MRR dry EDM and the nitrogen-water mixture and graphite electrode for fine surface finish near-dry EDM are presented. Near-dry EDM exhibits the advantage of good machining stability and surface finish under low discharge energy input. A 25−1 fractional factorial design is applied to investigate the effect of discharge current, pulse duration, and pulse interval on the MRR and surface finish in dry and near-dry EDMs. Lower pulse duration and lower discharge current are identified as key factors for improving the surface finish in near-dry EDM.
Sargramostim for Active Crohn's Disease (2005)

Sargramostim, granulocyte-macrophage colony-stimulating factor, a hematopoietic growth factor, stimulates cells of the intestinal innate immune system. Preliminary studies suggest sargramostim may have activity in Crohn's disease. To evaluate this novel therapeutic approach, we conducted a randomized, placebo-controlled trial.Using a 2:1 ratio, we randomly assigned 124 patients with moderate-to-severe active Crohn's disease to receive 6 mug of sargramostim per kilogram per day or placebo subcutaneously for 56 days. Antibiotics and aminosalicylates were allowed; immunosuppressants and glucocorticoids were prohibited. The primary end point was a clinical response, defined by a decrease from baseline of at least 70 points in the Crohn's Disease Activity Index (CDAI) at the end of treatment (day 57). Other end points included changes in disease severity and the health-related quality of life and adverse events.There was no significant difference in the rate of the primary end point of a clinical response defined by a decrease of at least 70 points in the CDAI score on day 57 between the sargramostim and placebo groups (54 percent vs. 44 percent, P=0.28). However, significantly more patients in the sargramostim group than in the placebo group reached the secondary end points of a clinical response defined by a decrease from baseline of at least 100 points in the CDAI score on day 57 (48 percent vs. 26 percent, P=0.01) and of remission, defined by a CDAI score of 150 points or less on day 57 (40 percent vs. 19 percent, P=0.01). The rates of either type of clinical response and of remission were significantly higher in the sargramostim group than in the placebo group on day 29 of treatment and 30 days after treatment. The sargramostim group also had significant improvements in the quality of life. Mild-to-moderate injection-site reactions and bone pain were more common in the sargramostim group, and three patients in this group had serious adverse events possibly or probably related to treatment.This study was negative for the primary end point, but findings for the secondary end points suggest that sargramostim therapy decreased disease severity and improved the quality of life in patients with active Crohn's disease.
General basic aspects (1994)

Regulation of Cell Functions. Growth Factor Receptors. Postreceptor Mechanisms of Growth Factor Action. Cyclic Nucleotides. Guanosine Triphosphate-Binding Proteins. The Calcium-Calmodulin System. Phosphoinositide Metabolism. Protein Phosphorylation. Proto-Oncogene and Onco-Suppressor Gene Expression. Role of Growth Factors in Neoplastic Processes. Index.
Immunoglobulin chain loss in hybridoma lines. (1980)

Hybrid cells secreting one, two, or three different immunoglobulins were constructed. The loss of immunoglobulin heavy or light chain expression was monitored. Chain loss was random only in lines with an excess of active light chain genes over heavy chain genes. In all other combinations preferential heavy chain loss was observed. Variant cells altered in heavy or light chain synthesis exhibited an altered chain loss pattern. It is therefore proposed that free immunoglobulin heavy chain is toxic for the cells. The interdependence of the two gene products gives a possible molecular explanation of apparent directed chromosome loss in hybrid cells.
The SCL Gene: From Case Report to Critical Hematopoietic Regulator (1999)

T HIS STORY BEGINS with a seminal case report describing a 16-year-old boy who presented with acute lymphoblastic leukemia (ALL).[1][1] He had an elevated white blood cell (WBC) count, thymic enlargement, and leukemic cells with an early T-cell phenotype (CD2 and CD7 positive; CD3, CD4 and CD8
Profiler (2012)

Data quality issues such as missing, erroneous, extreme and duplicate values undermine analysis and are time-consuming to find and fix. Automated methods can help identify anomalies, but determining what constitutes an error is context-dependent and so requires human judgment. While visualization tools can facilitate this process, analysts must often manually construct the necessary views, requiring significant expertise. We present Profiler, a visual analysis tool for assessing quality issues in tabular data. Profiler applies data mining methods to automatically flag problematic data and suggests coordinated summary visualizations for assessing the data in context. The system contributes novel methods for integrated statistical and visual analysis, automatic view suggestion, and scalable visual summaries that support real-time interaction with millions of data points. We present Profiler's architecture --- including modular components for custom data types, anomaly detection routines and summary visualizations --- and describe its application to motion picture, natural disaster and water quality data sets.
Functional antagonism between RNA polymerase II holoenzyme and global negative regulator NC2   in vivo (1997)

Activation of eukaryotic class II gene expression involves the formation of a transcription initiation complex that includes RNA polymerase II, general transcription factors, and SRB components of the holoenzyme. Negative regulators of transcription have been described, but it is not clear whether any are general repressors of class II genes in vivo. We reasoned that defects in truly global negative regulators should compensate for deficiencies in SRB4 because SRB4 plays a positive role in holoenzyme function. Genetic experiments reveal that this is indeed the case: a defect in the yeast homologue of the human negative regulator NC2 (Dr1 x DRAP1) suppresses a mutation in SRB4. Global defects in mRNA synthesis caused by the defective yeast holoenzyme are alleviated by the NC2 suppressing mutation in vivo, indicating that yeast NC2 is a global negative regulator of class II transcription. These results imply that relief from repression at class II promoters is a general feature of gene activation in vivo.
The oxa-Michael reaction: from recent developments to applications in natural product synthesis (2008)

In marked contrast to Michael reactions, oxa-Michael reactions have not been used as standard transformations in organic synthesis until quite recently. This was mainly due to a lack of reactivity and selectivity, although the potential products of such reactions are valuable intermediates. This tutorial review presents recent major advances in the field of oxa-Michael (sometimes called oxo-Michael or oxy-Michael) reactions and applications in the total synthesis of complex natural products.
Antibody repertoire induced by SARS-CoV-2 spike protein immunogens (2020)

ABSTRACT Multiple vaccine candidates against SARS-CoV-2 based on viral spike protein are under development. However, there is limited information on the quality of antibody response generated following vaccination by these vaccine modalities. To better understand antibody response induced by spike protein-based vaccines, we immunized rabbits with various SARS-CoV-2 spike protein antigens: S-ectodomain (S1+S2) (aa 16-1213), which lacks the cytoplasmic and transmembrane domains (CT-TM), the S1 domain (aa 16-685), the receptor-binding domain (RBD) (aa 319-541), and the S2 domain (aa 686-1213 as control). Antibody response was analyzed by ELISA, Surface Plasmon Resonance (SPR) against different Spike proteins in native conformation, and a pseudovirion neutralization assay to measure the quality and function of the antibodies elicited by the different Spike antigens. All three antigens (S1+S2 ectodomain, S1 domain, and RBD) generated strong neutralizing antibodies against SARS-CoV-2. Vaccination induced antibody repertoire was analyzed by SARS-CoV-2 spike Genome Fragment Phage Display Libraries (SARS-CoV-2 GFPDL), which identified immunodominant epitopes in the S1, S1-RBD and S2 domains. Furthermore, these analyses demonstrated that surprisingly the RBD immunogen elicited a higher antibody titer with 5-fold higher affinity antibodies to native spike antigens compared with other spike antigens. These findings may help guide rational vaccine design and facilitate development and evaluation of effective therapeutics and vaccines against COVID-19 disease. One Sentence Summary SARS-CoV-2 Spike induced immune response
The effect of recombinant GM-CSF on the recovery of monkeys transplanted with autologous bone marrow (1987)

The regulatory function of recombinant human granulocyte-macrophage colony stimulating factor (rhGM-CSF) on granulocyte production in vivo was evaluated in an autologous bone marrow transplantation model using rhesus monkeys. Monkeys were exposed to 9.0 Gy total body irradiation and then transplanted with 5.0 x 10(7) low-density bone marrow cells/kg. Alzet miniosmotic pumps were subcutaneously implanted to deliver rhGM-CSF at a rate of 50,400 U/kg/d. Minipumps, containing either rhGM-CSF or saline, were implanted between zero and five days after transplantation for seven days. Kinetic recoveries of peripheral blood cells after either saline or rhGM-CSF treatment were compared. Treatment with rhGM-CSF accelerated the recovery of neutrophils. Neutrophils in rhGM-CSF-treated animals recovered to 80% (3.4 x 10(3)/mm3) pre-irradiation control levels by day 20, in comparison with only 33% (0.9 x 10(3)/mm3) recovery for saline control monkeys. In addition, the recovery of neutrophils was enhanced over that of the controls, reaching 140% v 70% on day 30. Another prominent feature of rhGM-CSF-treated monkeys was the accelerated recovery of platelets, reaching near 50% normal levels by day 24 in comparison with 20% of normal levels for controls. The infusion of rhGM-CSF was shown to be an effective regulator of early hematopoietic regeneration, leading to the accelerated recovery of both neutrophils and platelets and then providing a consistent sustained increase of neutrophils even in the absence of rhGM-CSF.
Experimental demonstration of a fully digital capacitive sensor interface built entirely using carbon-nanotube FETs (2013)

This paper presents a complete sensor interface implemented entirely using CNFETs that can be fabricated reproducibly in a VLSI-compatible fashion. This is made possible by using the imperfection-immune paradigm [4], which successfully overcomes major obstacles for CNFET-based circuits: mis-positioned and metallic carbon nanotubes (CNTs). 44 CNFETs, each consisting of 10 to 200 CNTs depending on transistor sizing, are used to build the circuit. In contrast, earlier demonstrations of CNFET-based circuits included only small stand-alone components such as an adder sum, latch, percolation transport-based decoder, and ring oscillator on a single CNT [4]. Because it is easier to implement digital circuits using immature technologies compared to analog circuits, highly-digital sensor interfaces such as the PLL-based design in [5] are ideal implementations when using a new technology. The implemented capacitive sensor interface is based on a first-order Bang-Bang Phase-Locked Loop (BBPLL) digital architecture, which processes the sensor information entirely in the frequency domain (Fig. 6.8.1). Its funcationality is described in detail in [5].
Down-regulation of apurinic/apyrimidinic endonuclease expression is associated with the induction of apoptosis in differentiating myeloid leukemia cells. (1997)

The human DNA repair enzyme apurinic/apyrimidinic endonuclease (APE/ref-1) is a multifunctional protein in the DNA base excision repair (BER) pathway that is responsible for repair of apurinic/apyrimidinic (AP) sites in DNA. DNA repair and programmed cell death both function using different mechanisms to protect the organism from the consequences of extensive cellular damage; however, little is known about the relationship of the DNA BER repair pathway to apoptosis. We have determined the relationship of a BER DNA repair enzyme, APE, to apoptosis using the myeloid leukemia cell line HL-60, which can be induced to differentiate down the granulocytic or monocytic/ macrophage pathway. Treatment of HL-60 cells with retinoic acid/DMSO (granulocytic) or phorbol 12-myristate 13-acetate (monocytic) results in apoptosis and in down-regulation of APE expression at both the RNA and protein levels. Moreover, double-labeling experiments using APE immunohistochemistry and the terminal deoxyribonucleotidyl transferase-mediated dUTP-fluorescein nick end labeling assay for apoptosis demonstrate that individual cells undergoing apoptosis lose expression of APE regardless of their state of differentiation. Blocking apoptosis by overexpression of the bcl-2 proto-oncogene in HL-60 cells or by a bcr-abl-related mechanism in K562 cells and subsequent differentiation results in morphological differentiation but no loss of APE expression. These studies establish that down-regulation of APE expression is associated with programmed cell death in cells of the myeloid lineage.
Carbohydrate binding protein 35. Complementary DNA sequence reveals homology with proteins of the heterogeneous nuclear RNP. (1988)

The complete nucleotide sequence of a cDNA clone for carbohydrate binding protein 35, a galactose-specific lectin identified in the nucleus of mouse 3T3 fibroblasts, has been determined. The deduced amino acid sequence suggests that the protein consists of two domains: (a) an amino-terminal portion that is homologous to certain regions of proteins of the heterogeneous nuclear ribonucleoprotein complex, and (b) a carboxyl-terminal portion that is homologous to beta-D-galactoside-specific lectins isolated from a number of animal tissues. This two-domain motif is reminiscent of several DNA- and RNA-binding proteins.
PHASE-MATCHED ELECTRIC-FIELD INDUCED SECOND HARMONIC GENERATION IN OPTICAL FIBRES (1988)

Frequency doubling has been recently observed in phosphorous doped single-mode fibres by several workers [1][2] [3]. Since silica exhibits a centre of inversion and thus lacks an electric dipole allowed second order nonlinearity, χ(2) it has been postulated that the non-linear interaction is due to the electric quadrupole and magnetic dipole moments[4]. This process is self-phasematched, and as such there is little choice in the selection of particular interacting modes. Phasematching has been discussed [5] and dc-field-induced second-harmonic generation also considered [6], where phasematching is achieved by proper design of the fibre. Efficient nonlinear devices may also be fabricated by incorporating high χ(3) media as the core of a hollow fibre and using a periodic electrode grating structure for phase matching [7]. The centre of asymmetry is induced by the electric field and phasematching is achieved by the spatial periodicity of the field.
Towards Deep Learning Models Resistant to Adversarial Attacks (2017)

Recent work has demonstrated that deep neural networks are vulnerable to adversarial examples---inputs that are almost indistinguishable from natural data and yet classified incorrectly by the network. In fact, some of the latest findings suggest that the existence of adversarial attacks may be an inherent weakness of deep learning models. To address this problem, we study the adversarial robustness of neural networks through the lens of robust optimization. This approach provides us with a broad and unifying view on much of the prior work on this topic. Its principled nature also enables us to identify methods for both training and attacking neural networks that are reliable and, in a certain sense, universal. In particular, they specify a concrete security guarantee that would protect against any adversary. These methods let us train networks with significantly improved resistance to a wide range of adversarial attacks. They also suggest the notion of security against a first-order adversary as a natural and broad security guarantee. We believe that robustness against such well-defined classes of adversaries is an important stepping stone towards fully resistant deep learning models. Code and pre-trained models are available at https://github.com/MadryLab/mnist_challenge and https://github.com/MadryLab/cifar10_challenge.