gebhart/patrepeval huggingface dataset:
256-Channel Integrated Neural Interface and Spatio-Temporal Signal Processor (2006)

We present an architecture and VLSI implementation of a distributed neural interface and spatio-temporal signal processor. The integrated neural interface records neural activity simultaneously on 256 voltage-mode channels. Each channel implements differential signal acquisition, amplification and band-pass filtering. An array of in-channel double-memory sample-and-hold cells stores two 16 /spl times/ 16 electronic images of distributed neural activity consecutively in time. A column-parallel double sampling circuit performs frame differencing in order to identify spatio-temporal neural activity patterns. A 3 mm /spl times/ 4.5 mm integrated prototype was fabricated in a 0.35 /spl mu/m CMOS technology. The functionality of the neural interface was experimentally demonstrated in extracellular in vitro recordings from the hippocampus of mice. The utility of the on-sensory-plane signal processor was validated in simulated wavefront detection performed on experimentally measured distributed neural activity recording.
Thiazolidinediones can rapidly activate AMP-activated protein kinase in mammalian tissues (2006)

Thiazolidinediones (TZDs) are insulin-sensitizing agents used in the treatment of type 2 diabetes. A widely held view is that their action is secondary to transcriptional events that occur when TZDs bind to the nuclear receptor PPARgamma in the adipocyte and stimulate adipogenesis. It has been proposed that this increases insulin sensitivity, at least in part, by increasing the expression and release of adiponectin, an adipokine that activates the fuel-sensing enzyme AMP-activated protein kinase (AMPK). In this study, we report that TZDs also acutely activate AMPK in skeletal muscle and other tissues by a mechanism that is likely independent of PPARgamma-regulated gene transcription. Thus incubation of isolated rat EDL muscles in medium containing 5 microM troglitazone for 15 min (too brief to be attributable to transcription) significantly increased pAMPK and pACC. At a concentration of 100 microM, troglitazone maximally increased these parameters and caused twofold increases in 2-deoxy-d-glucose uptake and the oxidation of exogenous [(14)C]palmitate. Time course studies revealed that troglitazone-induced increases in pAMPK and pACC abundance at 15 min were paralleled by an increase in the AMP-to-ATP ratio and that by 60 min all of these parameters had returned to baseline values. Increases in pAMPK and pACC were also observed in skeletal muscle, liver, and adipose tissue in intact rats 15 min after the administration of a single dose of troglitazone (10 mg/kg, ip). Likewise, troglitazone and another TZD, pioglitazone, caused rapid increases in pAMPK and pACC of equal magnitude in Swiss 3T3 fibroblasts with and without sufficient PPARgamma to mediate the expression of target genes. The results indicate that TZDs can act within minutes to activate AMPK in mammalian tissues. They suggest that this effect is associated with a change in cellular energy state and that it is not dependent on PPARgamma-mediated gene transcription.
Post-purchase recommendations in large-scale online marketplaces (2015)

In this paper, we propose a new method for addressing post-purchase recommendations for a dynamic marketplace. The proposed method uses the transactional data as the primary data source to mine co-purchase relationships. The item listings from the transactional data are mapped to their static `cluster' representation and a cluster-cluster directed graph is generated. Clusters have explicit definitions and thus it allows us to compute content similarity between any two nodes in the cluster-cluster graph. A large marketplace will have a long tail with respect to the demand (purchase) of the items. It is a well-known problem that pure collaborative filtering systems will be unable to provide relevant recommendations for the long tail. One of the important features of our method is in addressing the issue of sparse transactional data. In addition to computing cluster-cluster relationships, we also compute category-category relationships. When our system does not have sufficient data to compute related clusters for a given cluster using the cluster-cluster graph, we use category-category graph, to first find related categories for a given cluster. We show experimental A/B test results showing significant improvement over a previously reported system that solves the same complex problem.
Interleukin (IL)-23 p19 expression induced by IL-1  in human fibroblast-like synoviocytes with rheumatoid arthritis via active nuclear factor- B and AP-1 dependent pathway (2007)

Our results demonstrate that IL-23, produced by mononuclear cells in synovial fluid with RA and HFLS-RA, promotes inflammatory responses in RA by inducing IL-8 and IL-6 production from HFLS. IL-1beta regulates IL-23 p19 expression via NF-kappaB and AP-1 pathways. This report also demonstrates that IL-23 could promote inflammatory responses in HFLS-RA by stimulating IL-8 and IL-6 production.
Establishment of porcine cell lines producing a murine recombinant retrovirus in order to transfer the nlslacZ gene into porcine cells (1991)

Swine testis (ST) cell lines producing a murine recombinant retrovirus (RRV) were established in order to transfer the bacterial lacZ gene fused to a nuclear location signal (nlslacZ) into animal cells. ST cells were infected with the supernatant of the cat G355.5LacZ2 cell line which produces amphotropic and xenotropic MMuLVSVnlslacZ-defective RRV and wild amphotropic and xenotropic MMuLV. Expression of the nlslacZ reporter gene was under the transcriptional control of both the SV40 early promoter and the retroviral LTR. ST cells expressing the reporter gene were sorted and cloned by limiting dilutions. Fourteen STLacZ-cell lines were isolated and subsequently tested for virus production. Depending on the host range of the retroviruses, two cell lines (STBF11 and STAA3) produced both a xenotropic recombinant pseudotype and wild retroviruses; another (STAB 10) produced both an amphotropic recombinant pseudotype and wild retroviruses. Southern blot analysis of the producer cell lines was carried out to verify proviral integration. The efficiency of the different pseudotypes in the transfer of the nlslacZ reporter gene to cultured animal cells, including porcine cells, was compared to the pseudotyped RRV produced by cat lines. Our results showed that the xenotropic RRV produced by the porcine STBF 11 cell line has a high titre for cells from different species and led to a higher number of porcine endothelial and lymphoblastoid cells expressing the reporter gene than did RRV produced by the cat packaging cell lines.
Energetic Heavy-Ion and Proton Generation from Ultraintense Laser-Plasma Interactions with Solids (2000)

Heavy ions with energies up to 430+/-40 MeV have been measured from laser-solid interactions at focused intensities of up to 5x10(19) W/cm(2). Observations of proton emission indicate significant structure in the energy spectrum as well as an angular emission profile which varies with energy. Two qualitatively different components of ion emission are observed: (i) a high-energy component which is likely generated by a combination of "Coulomb explosion" and acceleration by the space charge force from hot electrons which escape the plasma, and (ii) a lower-energy component which forms a ring likely created by magnetic fields in the ablated plasma.
Efficient Glycosynthase Mutant Derived from Mucor hiemalis Endo-β-N-acetylglucosaminidase Capable of Transferring Oligosaccharide from Both Sugar Oxazoline and Natural N-Glycan (2009)

Endo-M, an endo-beta-N-acetylglucosaminidase from Mucor hiemalis, is a family 85 glycoside hydrolase. This enzyme is unique in that it can transfer en bloc the oligosaccharide of various types of N-glycans onto different acceptors, and thereby it enzymatically generates diverse glycoconjugates. In this study, we performed mutational and kinetic studies focusing on a key catalytic asparagine 175 of Endo-M. We have shown that most of the Asn-175 mutants had significantly diminished hydrolysis activity but acted as glycosynthases capable of using synthetic sugar oxazoline for transglycosylation. Our results confirm the critical role of this asparagine residue in promoting the formation of an oxazolinium ion intermediate in the first step of the substrate-assisted catalysis. Interestingly, the N175Q mutant was found to possess dramatically enhanced glycosynthase-like activity with sugar oxazoline in comparison with N175A and a transglycosidase-like activity with "natural" N-glycan as well. These results also implicated the significance of amide side chain in the asparagine 175 of Endo-M for promoting oxazoline transglycosylation in the second step of the catalysis. The highly efficient syntheses of glycopeptides/glycoproteins by N175Q combined with synthetic sugar oxazolines or natural N-glycan substrates were exemplified. In addition, we also identified several previously unknown residues that seem to play a role in the catalysis of Endo-M.
Purification and analysis of murine 2-5A-dependent RNase. (1988)

2-5A-dependent RNase (RNase L, RNase F) is an enzyme which mediates effects of 2-5A (px(A2'p)nA; x = 2 or 3, n greater than or equal to 2) in cells. 2-5A binding activity present in mouse liver extracts was measured using a 32P-labeled 2-5A derivative. Analysis of Scatchard plots was consistent with a single noninteracting 2-5A binding site with a Ka of 2.5 X 10(10) M-1. Similarly, affinity labeling of proteins with a 32P-labeled 2-5A derivative revealed a single, high-affinity 2-5A-binding protein of Mr 80,000. This 2-5A-binding protein was the only mouse liver protein specifically and consistently eluted by 2-5A from an affinity resin consisting of core(2-5A) covalently attached to cellulose. The 2-5A-eluted protein could degrade polyuridylic acid but not polycytidylic acid. Furthermore, when the 2-5A-eluted protein was electrophoresed into a polyuridylic acid-containing, nondenaturing gel, a band of degraded polyuridylic acid was demonstrated after incubation with 2-5A. There was no band of degraded polyuridylic acid when the elution was performed either in the absence of oligonucleotide or in the presence of low amounts of a closely related analog of 2-5A, p3I2'pA2'pA. Therefore, the Mr 80,000 2-5A-binding protein and the 2-5A-dependent RNase were almost certainly the same protein. Finally, the Mr 80,000 2-5A-binding protein was purified to homogeneity by electroelution from a polyacrylamide gel.
Early onset of somatic mutation in immunoglobulin VH genes during the primary immune response. (1989)

The dynamics of somatic mutation in Ig variable genes was investigated in order to define a population of B cells undergoing mutation. BALB/cJ mice were injected with PC-KLH, and splenic RNA was prepared 5, 7, and 13 d later. The mRNA was annealed to gamma constant region primers to make cDNA transcripts encoding VH genes. 103 cDNA clones corresponding to 18 different genes from the VH7183, VH3660, and VHS107 subfamilies were sequenced to identify mutation. VH genes had a low level of mutation on day 5 after immunization and accumulated more mutation by day 7 at a rate of 10(-3) mutations per nucleotide per generation. However, by day 13, the number of mutations per gene did not increase, and most of the substitutions encoded replacement amino acid changes that were clustered in the hypervariable regions, indicating that the mutational process was less active during the second week and that antigen selection had occurred. The data are consistent with a developmentally regulated mechanism in which mutation is activated during the first week of the primary immune response for a limited time period, after which selection acts to preserve the beneficial mutants.
Recursive updating the eigenvalue decomposition of a covariance matrix (1991)

The author addresses the problem of computing the eigensystem of the modified Hermitian matrix, given the prior knowledge of the eigensystem of the original Hermitian matrix. Specifically, an additive rank-k modification corresponding to adding and deleting blocks of data to and from the covariance matrix is considered. An efficient and parallel algorithm which makes use of a generalized spectrum-slicing theorem is derived for computing the eigenvalues. The eigenvector can be computed explicitly in terms of the solution of a much-reduced (k*k) homogeneous Hermitian system. The overall computational complexity is shown to be improved by an order of magnitude from O(N/sup 3/) to O(N/sup 2/k), where N*N is the size of the covariance matrix. It is pointed out that these ideas can be applied to adaptive signal processing applications, such as eigen-based techniques for frequency or angle-of-arrival estimation and tracking. Specifically, adaptive versions of the principal eigenvector method and the total least squares method are derived.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Knockdown of DNA methyltransferase-1 inhibits proliferation and derepresses tumor suppressor genes in myeloma cells (2014)

DNA methyltransferases (including DNMT1, DNMT3A and DNMT3B), catalyze the transfer of methyl groups from S-adenosyl-l-methionine to cytosine position 5; this methylation in promoter regions silences gene expression. In addition, DNMT1 plays a critical role in the maintenance of genomic DNA methylation during DNA replication. In the present study, silencing of <i>DNMT1</i> with siRNA was performed in RPMI-8226 human multiple myeloma (MM) cells, and the impact on gene methylation status and proliferation of the cells was analyzed. Upon <i>DNMT1</i> downregulation, proliferation decreased significantly compared with that in the control, non-transfected cells. The expression of B-cell lymphoma 2 and nuclear factor κB proteins was also significantly reduced. Furthermore, nested methylation-specific polymerase chain reaction revealed that methylation of the tumor suppressor genes, suppressor of cytokine signaling 1 and <i>p16,</i> was significantly reduced upon DNMT1 knockdown. Our results suggest that <i>DNMT1</i> silencing may be a promising strategy to consider during development of novel MM treatment strategies.
B cell lymphoproliferative disorders and VH4-34 gene encoded antibodies (2004)

The VH4-34 represents an unusual Ig heavy chain variable region gene given that it is conserved and overexpressed despite its autoreactivity. Besides RBC 'I/i' recognition, a subset of VH4-34 encoded Igs bind and kill human B-lymphocytes via interaction with a cytoskeletally-associated ligand similar in structure to the cord RBC 'i' antigen. In vivo, secretion of VH4-34 gene encoded antibodies is minimal in healthy individuals. The turn on signal occurs in few clinical conditions such as, systemic lupus erythematosus, AIDS and infectious mononucleosis. Here we show that secretion of VH4-34 Abs is also switched on in hepatitis C and nasopharyngeal carcinoma; but not in diseases such as HPV-associated cervical carcinoma, multiple sclerosis and sarcoidosis. All syndromes with increased VH4-34 Igs appear to be associated with B cell hyperproliferation and B cell lymphotropic viruses, particularly EBV. The significance of the tightly controlled secretion of an autoreactive, conserved Ig gene is discussed.
Myasthenia gravis (2003)

MG is associated with an increased risk for complications during delivery. This is linked to a higher occurrence of interventions during birth.
Tamoxifen and Metabolite Concentrations in Serum and Breast Cancer Tissue during Three Dose Regimens in a Randomized Preoperative Trial (2004)

Estrogen agonistic effects of tamoxifen on SHBG decreased with lower dosage, whereas tamoxifen effects on Ki-67 expression did not change. This together with a >10-fold variation in serum tamoxifen concentrations and a serum to tissue concentration relationship suggest that tamoxifen treatment may be improved by administration of lower doses and therapeutic drug monitoring.
A neural network-based exploratory learning and motor planning system for co-robots (2015)

Collaborative robots, or co-robots, are semi-autonomous robotic agents designed to work alongside humans in shared workspaces. To be effective, co-robots require the ability to respond and adapt to dynamic scenarios encountered in natural environments. One way to achieve this is through exploratory learning, or "learning by doing," an unsupervised method in which co-robots are able to build an internal model for motor planning and coordination based on real-time sensory inputs. In this paper, we present an adaptive neural network-based system for co-robot control that employs exploratory learning to achieve the coordinated motor planning needed to navigate toward, reach for, and grasp distant objects. To validate this system we used the 11-degrees-of-freedom RoPro Calliope mobile robot. Through motor babbling of its wheels and arm, the Calliope learned how to relate visual and proprioceptive information to achieve hand-eye-body coordination. By continually evaluating sensory inputs and externally provided goal directives, the Calliope was then able to autonomously select the appropriate wheel and joint velocities needed to perform its assigned task, such as following a moving target or retrieving an indicated object.
Segmentation of mammograms using multiple linked self-organizing neural networks (1995)

A possible first stage in the analysis of the mammographic scene is its segmentation into four major components: background (the nonbreast area), pectoral muscle, fibroglandular region (parenchyma), and adipose region. An algorithm has been developed for this task. It is based on the classification of a feature vector constructed from statistical measures of texture calculated at two window sizes. Separate self-organizing neural networks are trained on sample data taken from each of the four regions. The feature vectors from the entire mammogram are then classified with the trained networks linked via a decision logic. To overcome the variability of texture between mammograms the algorithm uses data from a mammogram to classify itself in a staged approach consisting of several binary decisions. The training regions for each successive stage are determined from geometric information produced by the previous stages. The dataset in the study consisted of thirty (fifteen pairs) digitized normal mammograms of variable radiographic appearance. As a measure of performance, the outlines of the parenchyma were compared to those drawn by a radiologist experienced in reading mammograms. Comparison of the areas and perimeters generated by the human and computer observers gives a relationship with correlation coefficients of 0.74 and 0.59 for each measure, respectively. The overlapping areas of the parenchymas segmented by the observers normalized by the combined area was also calculated for each case. The mean and standard deviation of this measure was 0.69 +/- 0.12.
Lipid peroxidation products and antioxidants in human disease. (1998)

Lipid peroxidation (LPO) is a free radical-related process that in biologic systems may occur under enzymatic control, e.g., for the generation of lipid-derived inflammatory mediators, or nonenzymatically. This latter form is associated mostly with cellular damage as a result of oxidative stress, which also involves cellular antioxidants in this process. This article focuses on the relevance of two LPO products, malondialdehyde (MDA) and 4-hydroxynonenal (HNE), to the pathophysiology of human disease. The former has been studied in human serum samples of hepatitis C virus-infected adults and human immunodeficiency virus-infected children. In these two cases it is shown that the specific assay of serum MDA is useful for the clinical management of these patients. The presence of MDA in subretinal fluid of patients with retinal detachment suggests the involvement of oxidative stress in this process. Moreover, we were able to report the dependence of this involvement on the degree of myopia in these patients. The assay of MDA contents in the peripheral nerves of rats fed a chronic alcohol-containing diet or diabetic mice also confirms the pathophysiologic role of oxidative stress in these experimental models. In these two cases, associated with an increase in tissue LPO products content, we detected a decrease of glutathione peroxidase (GSHPx) activity in peripheral nerve, among other modifications. We have demonstrated that in vitro HNE is able to inhibit GSHPx activity in an apparent competitive manner, and that glutathione may partially protect and/or prevent this inactivation. The accumulation of LPO products in the brain of patients with Alzheimer's disease has also been described, and it is on the basis of this observation that we have tried to elucidate the role of oxidative stress and cellular antioxidants in beta-amyloid-induced apoptotic cell death of rat embryo neurons. Finally, we discuss the possible role of the observed vascular effects of HNE on human arteries.
Lactose Solubility and Crystal Growth as Affected by Mineral Impurities (1996)

ABSTRACT Single crystal growth method was applied to determine lactose solubility, growth rate and morphology of lactose crystals grown in model lactose solutions containing various salts and in whey ultrafiltration (UF) permeate solutions. Salts either increased or decreased the lactose crystal growth rate, due to effects on lactose solubility. Addition of LiCl led to a maximum increase in growth rate and a maximum decrease in lactose solubility, while K 2 HPO 4 had opposite effects. Growth rates of individual lactose crystals in whey UF permeate solutions were lower and lactose solubility higher than those in pure lactose solutions.
An integrated approach to fuzzy learning vector quantization and fuzzy c-means clustering (1997)

Derives an interpretation for a family of competitive learning algorithms and investigates their relationship to fuzzy c-means and fuzzy learning vector quantization. These algorithms map a set of feature vectors into a set of prototypes associated with a competitive network that performs unsupervised learning. Derivation of the new algorithms is accomplished by minimizing an average generalized distance between the feature vectors and prototypes using gradient descent. A close relationship between the resulting algorithms and fuzzy c-means is revealed by investigating the functionals involved. It is also shown that the fuzzy c-means and fuzzy learning vector quantization algorithms are related to the proposed algorithms if the learning rate at each iteration is selected to satisfy a certain condition.
Capturing device for dense point cloud of indoor people using horizontal LIDAR and pan rotation of vertical LIDAR with mirrors (2012)

This paper reports construction of a new device to capture 3D point cloud on human body. The device consists of a horizontal LIDAR, a vertical LIDAR and pan rotational mechanism. The device contain three main features. 1) The device can capture point cloud in large area using combination of the vertical LIDAR and the rotational mechanism. 2) The device can measure dense point cloud using mirror reflection and focus control of pan rotation. 3) The device keeps tracking the human using horizontal LIDAR. The experiment to confirm performance of the device was conducted. The experiments demonstrated that our device can measure dense point clouds on human body in indoor environments.