Miracle-dz/UniFAR-FTUs huggingface dataset:
Immunoglobulin M Antibody Test To Detect Genogroup II Norwalk-Like Virus Infection

ABSTRACT Sera obtained from adult volunteers inoculated with genogroup II Norwalk-like viruses (NLVs), Hawaii virus, and Snow Mountain virus and from patients involved in outbreaks of gastroenteritis were tested for genogroup II NLV Mexico virus-specific immunoglobulin M (IgM) by use of a monoclonal antibody, recombinant Mexico virus antigen (rMXV)-based IgM capture enzyme-linked immunosorbent assay (ELISA). Sera from genogroup I Norwalk virus (NV)-inoculated volunteers and from patients involved in a genogroup I NLV outbreak were also tested. In sera from those infected with genogroup I NV or NLVs in volunteer and outbreak studies, only 3 of 25 were rMXV IgM positive; in contrast, 24 of 25 were IgM positive for recombinant NV (rNV). In sera from those infected with genogroup II NLVs in volunteer and outbreak studies, 28 of 47 were rMXV IgM positive and none were IgM positive for rNV, showing the specificity of each IgM test for its respective genogroup. In an outbreak of gastroenteritis not characterized as being of viral etiology but suspected to be due to NV, 7 of 13 persons had IgM responses to rMXV, whereas none had IgM responses to rNV, thus establishing the diagnosis as genogroup II NLV infection. The rMXV-based IgM capture ELISA developed is specific for the diagnosis of genogroup II NLV infections.
Motor neurons and oligodendrocytes arise from distinct cell lineages by progenitor recruitment

Ravanelli and Appel found that motor neurons and oligodendrocytes are produced sequentially by distinct progenitors that have distinct origins. The motor neuron-to-oligodendrocyte switch results from Hedgehog-mediated recruitment of glial-fated progenitors to the pMN domain subsequent to neurogenesis.
Performance Issue Diagnosis for Online Service Systems

Monitoring and diagnosing performance issues of an online service system are critical to assure satisfactory performance of the system. Given a detected performance issue and collected system metrics for an online service system, engineers usually need to make great efforts to conduct diagnosis by first identifying performance issue beacons, which are metrics that pinpoint to the root causes. In order to reduce the manual efforts, in this paper, we propose a new approach to effectively detecting performance issue beacons to help with performance issue diagnosis. Our approach includes techniques for mining system metric data to address limitations when applying previous classification-based approaches. Our evaluations on both a controlled environment and a real production environment show that our approach can more effectively identify performance issue beacons from system metric data than previous approaches.
Prevalence of Antibody to Toxoplasma gondii in Black-headed Gulls (Chroicocephalus ridibundus), Dianchi Lake, China

Abstract Sera from 659 Black-headed Gulls (Chroicocephalus ridibundus) in Dianchi Lake, China were assayed for Toxoplasma gondii antibodies using the modified agglutination test (MAT). Specific T. gondii antibodies were detected in 131 (19.9%) Black-headed Gulls (MAT titer≥1∶5). These results indicate that T. gondii infection is common in Black-headed Gulls.
Prediction of Signal Peptides and Signal Anchors by a Hidden Markov Model

A hidden Markov model of signal peptides has been developed. It contains submodels for the N-terminal part, the hydrophobic region, and the region around the cleavage site. For known signal peptides, the model can be used to assign objective boundaries between these three regions. Applied to our data, the length distributions for the three regions are significantly different from expectations. For instance, the assigned hydrophobic region is between 8 and 12 residues long in almost all eukaryotic signal peptides. This analysis also makes obvious the difference between eukaryotes, Gram-positive bacteria, and Gram-negative bacteria. The model can be used to predict the location of the cleavage site, which it finds correctly in nearly 70% of signal peptides in a cross-validated test--almost the same accuracy as the best previous method. One of the problems for existing prediction methods is the poor discrimination between signal peptides and uncleaved signal anchors, but this is substantially improved by the hidden Markov model when expanding it with a very simple signal anchor model.
Private Sector Risk and Financial Crises in Emerging Markets

Investment necessary for growth is risky and often requires external financing. For an emerging market, access to international credit markets is volatile and interest rates reflect risk of default. We present a theoretical model in which emerging market agents have access to a profitable two-period investment project of fixed size greater than their endowment. Credit market imperfections can magnify a small solvency problem into a financial crisis with widespread default and/or currency devaluation. In equilibrium, creditors oieer single-period debt up to a ceiling based on expected future output. News about a negative productivity shock reduces the debt ceiling imposed by creditors, creating a sudden stop of capital floows. The sudden stop can be severe enough to trigger a debt crisis, when agents prefer default over debt repayment, and/or a currency crisis, as agents attempt to maintain desired consumption by swapping domestic currency for foreign currency to purchase goods. We also show that there are critical thresholds for parameters governing credit market imperfections that separate countries into a safe credit club with low interest rates and steady access and a risky club with high interest rates and volatile access.
Transcription Factor ABF-1 Suppresses Plasma Cell Differentiation but Facilitates Memory B Cell Formation

Ag-primed B cells that result from an immune response can form either memory B cells or Ab-secreting plasma cells; however, the molecular machinery that controls this cellular fate is poorly understood. In this study, we show that activated B cell factor-1 (ABF-1), which encodes a basic helix-loop-helix transcriptional repressor, participates in this regulation. ABF-1 was prevalently expressed in purified memory B cells and induced by T follicular helper cell–mediated signals. ABF-1 expression declined by the direct repression of B lymphocyte–induced maturation protein-1 during differentiation. Ectopic expression of ABF-1 reduced the formation of Ab-secreting cells in an in vitro differentiation system of human memory B cells. Accordingly, knockdown of ABF-1 potentiates the formation of Ab-secreting cells. A transgenic mouse that expresses inducible ABF-1 in a B cell–specific manner was generated to demonstrate that the formation of germinal center and memory B cells was augmented by induced ABF-1 in an immune response, whereas the Ag-specific plasma cell response was dampened. This effect was associated with the ability of ABF-1 to limit cell proliferation. Together, our results demonstrate that ABF-1 facilitates formation of memory B cells but prevents plasma cell differentiation.
Research Summaries for Normal Birth

In this column, the author summarizes four research studies relevant to normal birth. The studies summarized include a systematic review of trials evaluating the benefits versus harms of routine artificial rupture of the membranes; a study of the effect of continuous female labor support by a minimally trained family member or friend on attachment and early parenting; a systematic review examining the relationship between cesarean surgery and postpartum urinary incontinence; and a randomized controlled trial of warm perineal compresses during the second stage of labor.
Cereal bars produced with banana peel flour: evaluation of acceptability and sensory profile.

BACKGROUND A mixture design was used to investigate the effects of banana peel flour, rice flakes and oat flour on sensory acceptability of cereal bars, with subsequent evaluation of sensory profile of products identified as having high acceptability. RESULTS Regions of greater response for acceptability of the cereal bars, which are dependent on the three investigated components, were found. Although having good acceptability, sensory profiles of cereal bars were different. A cereal bar with the lowest quantity of banana peel flour was described as having a higher amount of rice flakes, chewiness and crispness, while formulations with intermediate and highest quantities of banana peel flour were described by darker color, higher banana aroma and bitter taste. Contrary to expectations, banana flavor of cereal bar with highest quantity of banana peel flour was lower than cereal bars with intermediate quantities. Cereal bars were not different in terms of hardness and adhesiveness and they also had a similar sweet taste and oat flavor. CONCLUSION The use of banana peel flour in production of cereal bars is feasible and, even with different sensory profiles, cereal bars with banana peel flour are acceptable, which may favor the development of new products for different market niches. © 2017 Society of Chemical Industry.
Exploiting the Increasing Correlation of Space Constrained Massive MIMO for CSI Relaxation

In this paper, we explore low-complexity transmission in physically-constrained massive multiple-input multiple-output (MIMO) systems by means of channel state information (CSI) relaxation. In particular, we propose a strategy to take advantage of the correlation experienced by the channels of neighbour antennas when deployed in tightly packed antenna arrays. The proposed scheme is based on collecting CSI for only a subset of antennas during the pilot training stage and, subsequently, using averages of the acquired CSI for the remaining closely-spaced antennas. By doing this, the total number of radio frequency (RF) chains, for both CSI acquisition and data transmission, and the baseband signal processing are reduced, hence simplifying the overall system operation. At the same time, this impacts the quality of the channel estimation produced after the CSI acquisition process. To characterize this tradeoff, we explore the impact that the number of antennas with instantaneous CSI has on the performance, signal processing complexity, and energy efficiency of time-division duplex (TDD) systems. The analytical and simulation results presented in this paper show that the application of the proposed strategy in size-constrained antenna arrays is able to significantly enhance the energy efficiency against systems with full CSI availability, while approximately preserving their average performance.
Vulvar width and rima length as predictors of the ovarian follicular reserve in bovine females

The aim of this study was to investigate possible relationships between morphometric characteristics of the bovine reproductive tract and measures of fertility, such as antral follicle counts (AFCs) and the number and quality of recovered cumulus oophorus complexes (COCs). First, the genital tracts of 360 abattoir Zebu/Holstein crossbred cows were studied. Rima vulvae length (RL), vulvar width (VW), ovarian size, pelvic fat, number of aspirated COCs, and AFCs were recorded. An index of COC quality (CQI) was established, which weighed overall gamete quality based on the IETS classification. Second, the same external measurements and AFCs (by ultrasound) were analyzed in live Tabapuã (Zebu) cows (n = 48). Relative RL and vulvar width were defined as the original measurements divided by the body weight of each cow for statistical analyses. In abattoir tracts, the AFC was smaller (P < 0.05) in animals with large VW (34.88 ± 3.50) than in animals with small (45.71 ± 2.57) and intermediate (42.25 ± 2.45) VW. The CQI was higher (P < 0.05) when the pelvic fat score was intermediate (3.22 ± 0.06) than that in lean (2.99 ± 0.08) and obese (2.90 ± 0.12) animals. The CQI was higher (P < 0.05) in the intermediate ovary group (3.19 ± 0.08) than in the small (2.96 ± 0.08) and large (2.95 ± 0.09) ovary groups. In live cows, the AFC was higher (P = 0.035) in females with large relative rima length than in those with small relative rima length (18.96 ± 1.97 and 14.76 ± 1.51, respectively). Similarly, AFC was greater (P = 0.0001) in females with large relative VW than in those with small relative VW (20.08 ± 1.36 and 11.16 ± 1.60, respectively). In conclusion, larger external genitalia relative to body size were good predictors of the ovarian follicular reserve in live animals.
A Phase II Trial of AZD 6244 ( Selumetinib , ARRY-142886 ) , an Oral MEK 1 / 2 Inhibitor , in Relapsed / Refractory Multiple Myeloma

Purpose: AZD6244 is a MEK1/2 inhibitor with significant preclinical activity in multiple myeloma cells. This phase II study used a two-stage Simon design to determine the AZD6244 response rate in patients with relapsed or refractory multiple myeloma. Experimental Design: AZD6244 (75 mg) was administered orally, twice a day, continuously for 28-day cycles. Response was evaluated after three cycles. Results: Thirty-six patients received therapy. The median age was 65 years (range: 43–81) and the median number of prior therapies was 5 (range: 2–11). The most common grade 3 and 4 toxicities included anemia, neutropenia, thrombocytopenia, diarrhea, and fatigue. Three deaths occurred possibly related to AZD6244 (2 due to sepsis, 1 due to acute kidney injury). After AZD6244 discontinuation, three additional deaths occurred due to disease progression. The response rate (CR þ PR) was 5.6% with a mean duration of response of 4.95 months and median progression-free survival time of 3.52 months. One patient had a very good partial response (VGPR), 1 patient had a partial response, 17 patients had stable disease, 13 patients had progressive disease, and 4 patients could not be assessed for response. Pharmacodynamic studies revealed variable effects on bone marrow CD138þ cell MEK1/2 and ERK1/2 phosphorylation. The best clinical response, a prolonged VGPR, occurred in a patient with an MMSET translocation. Conclusions: Single-agent AZD6244 was tolerable and had minimal activity in this heavily pretreated population. Clin Cancer Res; 1–9. 2015 AACR.
Biquadratic Optimization Over Unit Spheres and Semidefinite Programming Relaxations

This paper studies the so-called biquadratic optimization over unit spheres $\min_{x\in \mathbb{R}^n,y\in \mathbb{R}^m}\sum_{1\leq i,k\leq n,\,1\leq j,l \leq m}b_{ijkl}x_{i}y_{j}x_{k}{y}_l$, subject to $\|x\| = 1$, $\|y\| =1$. We show that this problem is NP-hard, and there is no polynomial time algorithm returning a positive relative approximation bound. Then, we present various approximation methods based on semidefinite programming (SDP) relaxations. Our theoretical results are as follows: For general biquadratic forms, we develop a $\frac{1}{2\max\{m,n\}^2}$-approximation algorithm under a slightly weaker approximation notion; for biquadratic forms that are square-free, we give a relative approximation bound $\frac{1}{nm}$; when $\min\{n,m\}$ is a constant, we present two polynomial time approximation schemes (PTASs) which are based on sum of squares (SOS) relaxation hierarchy and grid sampling of the standard simplex. For practical computational purposes, we propose the first order SOS relaxation, a convex quadratic SDP relaxation, and a simple minimum eigenvalue method and show their error bounds. Some illustrative numerical examples are also included.
An efficient technique for translating mixed logical dynamical systems into piecewise affine systems

For linear hybrid systems consisting of linear dynamic equations interacting with linear threshold events, automata, and logic propositions, provided in mixed-logical dynamical (MLD) form, this paper describes an efficient technique for transforming such systems into an equivalent piecewise affine (PWA) form, where equivalent means that for the same initial conditions and input sequences the trajectories of the system are identical.
Deletion of Apoptosis Signal-Regulating Kinase 1 (ASK1) Protects Pancreatic Beta-Cells from Stress-Induced Death but Not from Glucose Homeostasis Alterations under Pro-Inflammatory Conditions

Background Type 2 diabetes is characterized by pancreatic beta-cell dysfunction and is associated with low-grade inflammation. Recent observations suggest that apoptosis signal-regulating kinase 1 (ASK1) is involved in beta-cell death in response to different stressors. In this study, we tested whether ASK1 deficiency protects beta-cells from glucolipotoxic conditions and cytokines treatment or from glucose homeostasis alteration induced by endotoxemia. Methodology/Principal Findings Insulin secretion was neither affected upon shRNA-mediated downregulation of ASK1 in MIN6 cells nor in islets from ASK1-deficient mice. ASK1 silencing in MIN6 cells and deletion in islets did not prevent the deleterious effect of glucolipotoxic conditions or cytokines on insulin secretion. However, it protected MIN6 cells from death induced by ER stress or palmitate and islets from short term caspase activation in response to cytokines. Moreover, endotoxemia induced by LPS infusion increased insulin secretion during hyperglycemic clamps but the response was similar in wild-type and ASK1-deficient mice. Finally, insulin sensitivity in the presence of LPS was not affected by ASK1-deficiency. Conclusions/Significance Our study demonstrates that ASK1 is not involved in beta-cell function and dysfunction but controls stress-induced beta-cell death.
Register organization for media processing

Processor architectures with tens to hundreds of arithmetic units are emerging to handle media processing applications. These applications, such as image coding, image synthesis and image understanding, require arithmetic rates of up to 10/sup 11/ operations per second. As the number of arithmetic units in a processor increases to meet these demands, register storage and communication between the arithmetic units dominate the area, delay and power of the arithmetic units. In this paper, we show that partitioning the register file along three axes reduces the cost of register storage and communication without significantly impacting performance. We develop a taxonomy of register architectures by partitioning across the data-parallel, instruction-level-parallel and memory-hierarchy axes, and by optimizing the hierarchical register organization for operation on streams of data. Compared to a centralized global register file, the most compact of these organizations reduces the register file area, delay and power dissipation of a media processor by factors of 195, 230 and 430 respectively. This reduction in cost is achieved with a performance degradation of only 8% on a representative set of media processing benchmarks.
DNA hypermethylation accompanied by transcriptional repression in follicular lymphoma

High‐throughput microarray technologies were used to study DNA methylation accompanied by transcriptional changes in follicular lymphoma (FL). Using Methylated CpG Island Amplification with Microarrays to study CpG Island DNA methylation in FL, we discovered widespread hypermethylation of homeobox genes and previously identified targets of polycomb repressive complex 2 (PRC2) in cell lines and primary tumors, but not in benign follicular hyperplasia (BFH). DNA methylation for HOXA11, HOXD10, HOXB7, HOXC12, PAX6, LHX9, SFMBT2, EN2, and PAX7 was independently validated in the RL cell line and HOXA11, HOXD10, PAX6, and EN2 in primary tumors. Combined Bisulfite Restriction Analysis (COBRA) also established DNA methylation for the previously identified PRC2 targets DCC, DES, GAD2, AQP5, GPR61, GRIA4, GJD2, and AMPH in FL but not in BFH. Gene expression analyses revealed 411 genes that were hypermethylated and transcriptionally repressed in RL, 74% of which were reactivated by the demethylating agent 5‐aza‐2′‐deoxycytidine (5‐azaD) plus or minus the histone deacetylase inhibitor trichostatin A (TSA). Forty genes were also downregulated in primary FL. Our results suggest that extensive hypermethylation in promoters of polycomb target genes is a characteristic of FL and that loss of expression of certain SUZ12 target genes could be functionally relevant for lymphomagenesis. © 2009 Wiley‐Liss, Inc.
Alkylpurine Glycosylase D Employs DNA Sculpting as a Strategy to Extrude and Excise Damaged Bases

Alkylpurine glycosylase D (AlkD) exhibits a unique base excision strategy. Instead of interacting directly with the lesion, the enzyme engages the non-lesion DNA strand. AlkD induces flipping of the alkylated and opposing base accompanied by DNA stack compression. Since this strategy leaves the alkylated base solvent exposed, the means to achieve enzymatic cleavage had remained unclear. We determined a minimum energy path for flipping out a 3-methyl adenine by AlkD and computed a potential of mean force along this path to delineate the energetics of base extrusion. We show that AlkD acts as a scaffold to stabilize three distinct DNA conformations, including the final extruded state. These states are almost equivalent in free energy and separated by low barriers. Thus, AlkD acts by sculpting the global DNA conformation to achieve lesion expulsion from DNA. N-glycosidic bond scission is then facilitated by a backbone phosphate group proximal to the alkylated base.
Frequency of gene sequences necessary for pyelonephritis-associated pili expression among isolates of Enterobacteriaceae from human extraintestinal infections

Bacteria representing eight genera of the Enterobacteriaceae were collected from human extraintestinal infections and examined to determine whether they contained gene sequences necessary for expression of a pili type often associated with bacteria causing human pyelonephritis. Escherichia coli isolated from most of the extraintestinal sites were frequently found to possess pap-related DNA sequences. Isolates which possessed these sequences were often found to exhibit D-mannose-resistant hemagglutination of human erythrocytes and to have surface antigens related to P pili.
Abstracting RTL Designs to the Term Level

ing RTL Designs to the Term Level Bryan Brady Randal Bryant Sanjit A. Seshia Electrical Engineering and Computer Sciences University of California at Berkeley Technical Report No. UCB/EECS-2008-136 http://www.eecs. berkeley.edu/Pubs/TechRpts/2008/EECS-2008-136.html
Sparse representations for image classification: learning discriminative and reconstructive non-parametric dictionaries

Abstract : A framework for learning optimal dictionaries for simultaneous sparse signal representation and robust class classification is introduced in this paper. This problem for dictionary learning is solved by a class-dependent supervised simultaneous orthogonal matching pursuit, which learns the intra-class structure while increasing the inter-class discrimination, interleaved with an efficient dictionary update obtained via singular value decomposition. This framework addresses for the first time the explicit incorporation of both reconstruction and discrimination terms in the non-parametric dictionary learning and sparse coding energy. The work contributes to the understanding of the importance of learned sparse representations for signal classification, showing the relevance of learning discriminative and at the same time reconstructive dictionaries in order to achieve accurate and robust classification. The presentation of the underlying theory is complemented with examples with the standard MNIST and Caltech datasets, and results on the use of the sparse representation obtained from the learned dictionaries as local patch descriptors, replacing commonly used experimental ones.