gebhart/patrepeval huggingface dataset:
Distribution of SPARC in normal and neoplastic human tissue. (1995)

SPARC (Secreted Protein, Acidic and Rich in Cysteine)/osteonectin is a secreted glycoprotein that exhibits restricted expression in murine adult and embryonic tissues and is associated with cell migration, matrix mineralization, steroid hormone production, cell cycle regulation, and angiogenesis. We produced a monoclonal antibody, MAb SSP2, against a Ca(2+)-binding region of SPARC and evaluated the immunoreactivity of normal and malignant tissue from 118 human samples. In normal tissue we found restricted and moderate reactivity with SSP2 in steroidogenic cells, chondrocytes, placental trophoblasts, vascular smooth muscle cells, and endothelial cells. Strong reactivity was found in fibrocytes and endothelial cells involved in tissue repair and in invasive malignant tumors, including those of the gastrointestinal tract, breast, lung, kidney, adrenal cortex, ovary, and brain. We conclude that SSP2 is a useful reagent for detection of SPARC in human tissue. Given the broad reactivity of malignant tissues, we propose that SPARC expression might contribute to some aspects of tumor progression.
Adaptive pilot pattern for OFDM systems (2004)

In OFDM communication systems over fading channels, link adaptation based on the available channel state information at the transmitter (i.e., power allocation, adaptive modulation and coding rate) increases the spectral efficiency and reliability of the link. In this work, we explore the possibility to extend the set of transmission parameters to be adaptively selected to the pilot arrangement (i.e., to the collocation of pilot subcarriers on the time-frequency grid). Based on the prediction of the channel estimation error at the receiver, the transmitter can minimize the number of pilot subcarriers that guarantees a sufficiently reliable channel estimate according to quality of service requirements. Prediction of the channel estimation error is performed by computing the error covariance matrix of Kalman filters. The adaptive pilot arrangement problem is formulated and a "greedy" solution is proposed. Simulations show the effectiveness of the algorithm with respect to periodic re-training.
Recipes for enhanced molecular cooling (2010)

Molecular nanomagnets are considered valid candidates for magnetic refrigeration at low temperatures. Designing these materials for enhanced cooling requires the control and optimization of the quantum properties at the molecular level, in particular: spin ground state, magnetic anisotropy, and presence of low-lying excited spin states. Herein, we present the theoretical framework together with a critical review of recent results, and perspectives for future developments.
Effect of first order PMD compensation on the statistics of pulse broadening in a fiber with randomly varying birefringence (2003)

Summary form only given. Polarization mode dispersion (PMD) limits the transmission of high bit-rate optical signals in fiber. Polarization dispersion can be compensated to first order by breaking up the signal into the two principal states and removing the differential group delay between the two states either electronically or optically. Because PMD is random, it is important to know how compensation changes the statistics of pulse broadening. We use Monte Carlo simulations to show that the compensator decreases both the mean and the variance of pulse durations by an amount that depends on the ratio of the fiber length to the PMD length.
Testing Pooled Sputum with Xpert MTB/RIF for Diagnosis of Pulmonary Tuberculosis To Increase Affordability in Low-Income Countries (2015)

Tuberculosis (TB) is a global public health problem, with the highest burden occurring in low-income countries. In these countries, the use of more sensitive diagnostics, such as Xpert MTB/RIF (Xpert), is still limited by costs. A cost-saving strategy to diagnose other diseases is to pool samples from various individuals and test them with single tests. The samples in positive pool samples are then retested individually to identify the patients with the disease. We assessed a pooled testing strategy to optimize the affordability of Xpert for the diagnosis of TB. Adults with presumptive TB attending hospitals or identified by canvassing of households in Abuja, Nigeria, were asked to provide sputum for individual and pooled (4 per pool) testing. The agreement of the results of testing of individual and pooled samples and costs were assessed. A total of 738 individuals submitted samples, with 115 (16%) being Mycobacterium tuberculosis positive. Valid Xpert results for individual and pooled samples were available for 718 specimens. Of these, testing of pooled samples detected 109 (96%) of 114 individual M. tuberculosis-positive samples, with the overall agreement being 99%. Xpert semiquantitative M. tuberculosis levels had a positive correlation with the smear grades, and the individual sample-positive/pooled sample-negative results were likely due to the M. tuberculosis concentration being below the detection limit. The strategy reduced cartridge costs by 31%. Savings were higher with samples from individuals recruited in the community, where the proportion of positive specimens was low. The results of testing of pooled samples had a high level of agreement with the results of testing of individual samples, and use of the pooled testing strategy reduced costs and has the potential to increase the affordability of Xpert in countries with limited resources.
Margin-Infiltrating CD20+ B Cells Display an Atypical Memory Phenotype and Correlate with Favorable Prognosis in Hepatocellular Carcinoma (2013)

The profile of CD20(+) B cells in situ is a new predictor of prognosis for patients with hepatocellular carcinoma and provides a novel target for an optimal immunotherapy against this fatal malignancy.
Matricellular proteins in the trabecular meshwork (2008)

The trabecular meshwork is one of the primary tissues of interest in the normal regulation and dysregulation of intraocular pressure (IOP) that is a causative risk factor for primary open-angle glaucoma. Matricellular proteins generally function to allow cells to modulate their attachments with and alter the characteristics of their surrounding extracellular matrix (ECM). In non-ocular tissues, matricellular proteins generally increase fibrosis. Since ECM turnover is very important to the outflow facility, matricellular proteins may have a significant role in the regulation of IOP. The formalized study of matricellular proteins in trabecular meshwork is in its infancy. SPARC, thrombospondins-1 and -2, and tenascins-C and -X, and osteopontin have been localized to varying areas within the trabecular meshwork. Preliminary evidence indicates that SPARC and thrombospondin-1 play a role in the regulation of IOP and possibly the pathophysiology of glaucoma. These data show promise that matricellular proteins are involved in IOP dysregulation and are potential therapeutic targets. Further study is needed to clarify these roles.
Presentation of electromagnetic multichannel data: The signal space separation method (2005)

Measurement of external magnetic fields provides information on electric current distribution inside an object. For example, in magnetoencephalography modern measurement devices sample the magnetic field produced by the brain in several hundred distinct locations around the head. The signal space separation (SSS) method creates a fundamental linear basis for all measurable multichannel signal vectors of magnetic origin. The SSS basis is based on the fact that the magnetic field can be expressed as a combination of two separate and rapidly converging expansions of harmonic functions with one expansion for signals arising from inside of the measurement volume of the sensor array and another for signals arising from outside of this volume. The separation is based on the different convergence volumes of the two expansions and on the fact that the sensors are located in a source current-free volume between the interesting and interfering sources. Individual terms of the expansions are shown to contain uncorrelated information of the underlying source distribution. SSS provides a stable decomposition of the measurement into a fundamental device-independent form when used with an accurately calibrated multichannel device. The external interference signals are elegantly suppressed by leaving the interference components out from the reconstruction based on the decomposition. Representation of multichannel data with the SSS basis is shown to provide a large variety of applications for improved analysis of multichannel data.
The L-curve and its use in the numerical treatment of inverse problems (2000)

The L-curve is a log-log plot of the norm of a regularized solution versus the norm of the corresponding residual norm. It is a convenient graphical tool for displaying the trade-off between the size of the regularized solution and its fit to the given data, as the regularization parameter varies. The L-curve thus gives insight into the regularizing properties of the underlying regularization method, and it is an aid in choosing an appropriate regularization parameter for the given data. In this chapter we summarize the main properties of the L-curve, and demonstrate by examples it usefulness and its limitations both as an analysis tool and as a method for choosing the regularization parameter. 1 Introduction Practically all regularization methods for computing stable solutions to inverse problems involve a trade-off between the &amp;quot;size&amp;quot; of the regularized solution and the quality of the fit that it provides to the given data. What distinguishes the various regularization methods is how...
Identification and characterization of a retinoid-induced class II tumor suppressor/growth regulatory gene (1998)

Retinoids, synthetic and natural analogs of retinoic acid, exhibit potent growth inhibitory and cell differentiation activities that account for their beneficial effects in treating hyperproliferative diseases such as psoriasis, actinic keratosis, and certain neoplasias. Tazarotene is a synthetic retinoid that is used in the clinic for the treatment of psoriasis. To better understand the mechanism of retinoid action in the treatment of hyperproliferative diseases, we used a long-range differential display-PCR to isolate retinoid-responsive genes from primary human keratinocytes. We have identified a cDNA, tazarotene-induced gene 3 (TIG3; Retinoic Acid Receptor Responder 3) showing significant homology to the class II tumor suppressor gene, H-rev 107. Tazarotene treatment increases TIG3 expression in primary human keratinocytes and in vivo in psoriatic lesions. Increased TIG3 expression is correlated with decreased proliferation. TIG3 is expressed in a number of tissues, and expression is reduced in cancer cell lines and some primary tumors. In breast cancer cell lines, retinoid-dependent TIG3 induction is observed in lines that are growth suppressed by retinoids but not in nonresponsive lines. Transient over-expression of TIG3 in T47D or Chinese hamster ovary cells inhibits colony expansion. Finally, studies in 293 cells expressing TIG3 linked to an inducible promoter demonstrated decreased proliferation with increased TIG3 levels. These studies suggest that TIG3 may be a growth regulator that mediates some of the growth suppressive effects of retinoids.
Discovering investment strategies in portfolio management: a genetic algorithm approach (2004)

Data mining on real stock data is performed using genetic algorithm. The basic idea is to use the relation of closing price moving averages of different lengths to guide the investment. By using the overall return rate to measure the performance of strategies over the training set, the problem of discovering investment strategies in portfolio management is converted to an optimization problem, which is solved by means of genetic algorithm Stock data from NASDAQ, including Microsoft, Intel, Oracle, and Dell are used for test purpose. Comparisons of genetic algorithm with random walk and exhaustive search are performed and results show evidence that GA is superior to these methods in term of the overall return rate for the test set.
Pharmacology of Opioid Inhibition to Noxious Uterine Cervical Distension (2002)

These data suggest that mu- and kappa-opioid receptor agonists effectively inhibit responses to acute uterine cervical stimulation. Lack of reversal by norbinaltorphimine further supports evidence of a novel kappa-opioid receptor by visceral afferents. Lack of morphine reversal by methylnaltrexone suggests central (spinal or supraspinal) sites of action for inhibition of this visceral noxious stimulus.
Expression of Intracellular Adhesion Molecule 1 by Activated Hepatic Stellate Cells (1996)

The hepatic stellate cell (HSC), following a fibrogenic stimulus, is transformed from a quiescent to an activated cell. HSC activation results in numerous changes in cellular morphology, cellular metabolism, and in the pattern of gene expression. Many of the changes that are observed in activated HSCs in animal models of hepatic fibrosis are also seen when these cells are activated by culturing on plastic. These changes include morphological changes to a myofibroblast-like cell with the appearance of smooth muscle alpha-actin, a loss of the retinol stores, an increase in the rough endoplasmic reticulum, and increases in extracellular matrix production, including a dramatic increase in type I collagen. To identify additional genes that are induced or suppressed during HSC activation, we used the differential polymerase chain reaction (PCR) display technique. Using this technique, we isolated a complementary DNA (cDNA) fragment for the intercellular adhesion molecule 1 (ICAM-1). Northern blotting confirmed that the ICAM-1 messenger RNA (mRNA) was expressed in HSCs activated by culture, but not in quiescent, freshly isolated HSCs. The presence of ICAM-1 protein was demonstrated in culture-activated HSCs, but not in quiescent cells by Western blot analysis and immunohistochemical staining. A functional assay was performed, demonstrating that lymphocytes will adhere to activated HSCs and that treatment of these cells with tumor necrosis factor alpha (TNF-alpha) increases lymphocyte adherence. Furthermore, ICAM-1 mRNA levels were increased in HSCs activated in rats in vivo after 1 week of bile duct ligation (BDL). Together, these data indicate that ICAM-1 expression is induced following HSC activation and that the HSC may have a direct role in the transmigration of leukocytes from the hepatic sinusoid to sites of tissue damage during the inflammatory response in the liver.
Rolled-up transparent microtubes as two-dimensionally confined culture scaffolds of individual yeast cells (2008)

Transparent oxide rolled-up microtube arrays were constructed on Si substrates by the deposition of a pre-stressed oxide layer on a patterned photoresist sacrificial layer and the subsequent removal of this sacrificial layer. These microtubes as well as their arrays can be well positioned onto a chip for further applications, while their dimensions (e.g. length, diameter and wall thickness) are controlled by tunable parameters of the fabrication process. Due to the unique tubular structure and optical transparency, such rolled-up microtubes can serve as well-defined two-dimensionally (2D) confined cell culture scaffolds. In our experiments, yeast cells exhibit different growth behaviors (i.e. their arrangement) in microtubes with varied diameters. In an extremely small microtube the yeast cell becomes highly elongated during growth but still survives. Detailed investigations on the behavior of individual yeast cells in a single microtube are carried out in situ to elucidate the mechanical interaction between microtubes and the 2D confined cells. The confinement of tubular channels causes the rotation of cell pairs, which is more pronounced in smaller microtubes, leading to different cellular assemblies. Our work demonstrates good capability of rolled-up microtubes for manipulating individual and definite cells, which promises high potential in lab-on-a-chip applications, for example as a bio-analytic system for individual cells if integrated with sensor functionalities.
Network Coding Protocols for Smart Grid Communications (2014)

We propose a robust network coding protocol for enhancing the reliability and speed of data gathering in smart grids. At the heart of our protocol lies the idea of tunable sparse network coding, which adopts the transmission of sparsely coded packets at the beginning of the transmission process but then switches to a denser coding structure towards the end. Our systematic mechanism maintains the sparse structure during the recombination of packets at the intermediate nodes. The performance of our protocol is compared by means of simulations of IEEE reference grids against standard master-slave protocols used in real systems. Our results show that network coding achieves 100% reliability, even for hostile network conditions, while gathering data 10 times faster than standard master-slave schemes.
Randomized, Double-Blind Study of Denosumab Versus Zoledronic Acid in the Treatment of Bone Metastases in Patients With Advanced Cancer (Excluding Breast and Prostate Cancer) or Multiple Myeloma (2011)

Denosumab was noninferior (trending to superiority) to ZA in preventing or delaying first on-study SRE in patients with advanced cancer metastatic to bone or myeloma. Denosumab represents a potential novel treatment option with the convenience of subcutaneous administration and no requirement for renal monitoring or dose adjustment.
Growth of primary T-cell non-Hodgkin's lymphomata in SCID-hu mice: requirement for a human lymphoid microenvironment (1991)

We reasoned that the SCID-hu mouse could provide an appropriate lymphoid or stromal microenvironment to support the growth of primary human lymphoma. Heterotransplantation of nine cases of primary T-cell non-Hodgkin's lymphoma (NHL) into untreated SCID mice and SCID mice reconstituted with human fetal thymus, spleen, and liver (SCID-hu) resulted in the development of lymphoid tumors in five (56%) cases. Two clonal T-cell NHL grew after a mean of 90 days after injection of primary lymphoma cell suspensions into the thymus xenografts in SCID-hu mice and failed to grow in a variety of sites in SCID mice, except for small tumors that developed after a long (157-day) latency period after intracranial injection of tumor cell suspensions into weanling SCID mice. Successful serial transplantation of NHL in SCID and SCID-hu mice required the presence of a human lymphoid or tumor microenvironment, and was enhanced by pretreating the SCID mice with 175 rad radiation and antiasialo antisera. Analysis of the primary and transplanted T- cell tumors showed identical patterns of T-cell surface markers by flow cytometry and immunophenotyping of fixed tissue sections, and, in one case, reactivity with a specific monoclonal antibody to V beta 5.1. Genotyping of the transplanted tumors showed T-cell receptor gene rearrangements identical to those present in the primary tumors. In one case, the presence of Epstein-Barr virus-positive B cells in association with the primary tumor resulted in the growth of a lymphoblastoid B-cell neoplasm in addition to the malignant T-cell lymphoma after transplantation of tumor fragments to SCID mice. The data support the hypothesis that a human lymphoid microenvironment enhances the growth of T-cell NHL in SCID mice. The SCID-hu thymus graft provides an apparently unique microenvironment that supports the growth of primary T-cell NHL, and can be used to study the interaction between lymphoma cells, nontransformed lymphoid cells, and the surrounding stromal microenvironment in vivo.
From the Characterization of the Four Serine/Threonine Protein Kinases (PknA/B/G/L) of Corynebacterium glutamicum toward the Role of PknA and PknB in Cell Division (2008)

Corynebacterium glutamicum contains four serine/threonine protein kinases (STPKs) named PknA, PknB, PknG, and PknL. Here we present the first biochemical and comparative analysis of all four C. glutamicum STPKs and investigate their potential role in cell shape control and peptidoglycan synthesis during cell division. In vitro assays demonstrated that, except for PknG, all STPKs exhibited autokinase activity. We provide evidence that activation of PknG is part of a phosphorylation cascade mechanism that relies on PknA activity. Following phosphorylation by PknA, PknG could transphosphorylate its specific substrate OdhI in vitro. A mass spectrometry profiling approach was also used to identify the phosphoresidues in all four STPKs. The results indicate that the nature, number, and localization of the phosphoacceptors varies from one kinase to the other. Disruption of either pknL or pknG in C. glutamicum resulted in viable mutants presenting a typical cell morphology and growth rate. In contrast, we failed to obtain null mutants of pknA or pknB, supporting the notion that these genes are essential. Conditional mutants of pknA or pknB were therefore created, leading to partial depletion of PknA or PknB. This resulted in elongated cells, indicative of a cell division defect. Moreover, overexpression of PknA or PknB in C. glutamicum resulted in a lack of apical growth and therefore a coccoid-like morphology. These findings indicate that pknA and pknB are key players in signal transduction pathways for the regulation of the cell shape and both are essential for sustaining corynebacterial growth.
Interstitial Dendritic Cells (1990)

Interstitial dendritic cells (IDC) were first identified in the interstitium of non-lymphoid organs as leucocytes which stained intensely with anti-MHC class II antibodies. These cells have been identified in several species including man, and can be distinguished from tissue macrophages by their immunological phenotype and cytochemical and functional characteristics. IDC appear to be closely related to lymphoid dendritic cells (DC), and have the capacity to bind antigen and stimulate T lymphocyte responses. It seems probable that they represent a stage of nonlymphoid dendritic cell differentiation necessary for antigen surveillance, similar to the Langerhans cell of the skin. Exposure to antigen appears to induce migration of these cells into adjacent lymphatics and subsequent localization in the interfollicular areas of lymph node, where the DC present processed antigen to activate a primary T cell response. The IDC has been identified as the passenger leucocyte within organ allografts which contributes substantially to graft immunogenicity, so that eradication of donor organ IDC improves organ graft survival.
Levodopa stability in solution: Time course, environmental effects, and practical recommendations for clinical use (1996)

We defined the temporal stability characteristics of levodopa/carbidopa (LD/CD) solution, and determined the effects of temperature, ascorbate, and light on LD stability over 7 days. At room temperature and without ascorbate, LD levels significantly declined by 48 h. Ascorbate prolonged stability to 72 h. Refrigeration and freezing prevented a significant decline in LD levels for the full 7 days. Light or darkness had no effect on stability. LD/CD solution, if made daily, requires no special handling and longer stability is maintained with ascorbate, refrigeration, or freezing.