gebhart/patrepeval huggingface dataset:
SmartCQL: Semantics to Handle Complex Queries over Data Streams (2010)

SmartCQL, enhanced version of CQL is developed so as to provide semantics to handle complex queries. Simple SPJ (Select Project Join) queries are no longer useful and the existing CQL supports complex queries only to a certain extent. But the main goal of SmartCQL is to enhance this feature to a large extent. We achieved this goal by providing semantics to handle complex queries like sub queries which was not handled by CQL. We solved the famous Linear Road problem, benchmark for data streams with minimum number of queries as compared to CQL. Here we will show how SmartCQL increased the expressiveness to a greater extent.
Neurohemodynamic correlates of ′OM′ chanting: A pilot functional magnetic resonance imaging study (2011)

The neurohemodynamic correlates of 'OM' chanting indicate limbic deactivation. As similar observations have been recorded with vagus nerve stimulation treatment used in depression and epilepsy, the study findings argue for a potential role of this 'OM' chanting in clinical practice.
High-Throughput Screening for Native Autoantigen–Autoantibody Complexes Using Antibody Microarrays (2013)

We report on a novel, high-dimensional method to detect autoantibodies that are complexed with their natural autoantigens. Specifically, autoantibody-autoantigen complexes in serum or plasma are directly incubated onto a high-density antibody microarray. Detection of the bound autoantibody-antigen complex is made via fluorescently labeled antihuman immunoglobulin G or other immunoglobulin isotype secondary antibodies and quantification in a microarray scanner. Uncomplexed antibodies do not interfere with this assay. The whole process is very rapid and applicable for high-throughput screening without the need for production of proteins or immunoglobulin purification from the samples. Using these methods, we found that plasma from healthy individuals contains hundreds of autoantibodies complexed with cellular proteins. Thus, this highly sensitive, multiplex method is capable of discovering new autoantibody-antigen or circulating immune complexes, many of which will likely be useful for disease detection and characterization.
Genetic algorithm approach to image segmentation using morphological operations (2002)

This paper presents an approach for image segmentation using genetic algorithms (GA) in conjunction with morphological operations. The GA starts with a population of solutions, initialized randomly, to represent possible segmentations of the image. The solutions are evaluated using an appropriate fitness function and the fittest candidates are selected to be parents for producing offsprings that form the next generation. Morphological operations are applied in the reproduction step of the GA to exploit a priori image information. Over several generations, populations evolve to yield the optimal results. The feasibility of applying genetic algorithms to image segmentation is investigated and initial results of segmentation of noisy images are presented.
A General Oxindole Synthesis (1993)

A general synthesis of indol-2(3H)-ones (oxindoles), was developed based on the addition of dimethyl malonate to commercially available halonitrobenzenes. The advantage of this route over many other oxindole syntheses was the regiochemical control of the substitution pattern on the aromatic ring.
Dystrophin Isoform Induction In Vivo by Antisense-mediated Alternative Splicing (2010)

Antisense oligomer-induced manipulation of dystrophin pre-mRNA processing can remove exons carrying mutations, or exclude exons flanking frameshifting mutations, and restore dystrophin expression in dystrophinopathy models and in Duchenne muscular dystrophy (DMD) patients. Splice intervention can also be used to manipulate the normal dystrophin pre-mRNA processing and ablate dystrophin expression in wild-type mice, with signs of pathology being induced in selected muscles within 4 weeks of commencing treatment. The disruption of normal dystrophin pre-mRNA processing to alter the reading frame can be very efficient and offers an alternative mechanism to RNA silencing for gene suppression. In addition, it is possible to remove in-frame exon blocks from the DMD gene transcript and induce specific dystrophin isoforms that retain partial functionality, without having to generate transgenic animal models. Specific exon removal to yield in-frame dystrophin transcripts will facilitate mapping of functional protein domains, based upon exon boundaries, and will be particularly relevant where there is either limited, or conflicting information as to the consequences of in-frame dystrophin exon deletions on the clinical severity and progression of the dystrophinopathy.
Comparison of Hematopoietic Activities of Human Bone Marrow and Umbilical Cord Blood CD34 Positive and Negative Cells (1999)

Although the hematopoietic activities of human CD34+ bone marrow (BM) and cord blood (CB) cells have been well characterized, the phenotype of nonobese-diabetic severe combined immunodeficient (NOD/SCID) mice repopulating cells (SRCs) in CB and BM has not yet been fully examined. To address this issue, various hematopoietic activities were compared in terms of total and CD34+ CB and BM cells. Clonal culture of fluorescence-activated cell sorter (FACS) CD34+ CB and BM cells revealed a higher incidence of colony-forming cells with greater proliferation capacity in CB over BM CD34+ cells. CB CD34+ cells also demonstrated higher secondary plating efficiency over BM cells. In addition, we demonstrated that mice transplanted with CB mononuclear cells (MNCs) showed significantly higher levels of chimerism than those transplanted with BM MNCs. However, recipients of FACS-sorted CD34+ CB cells showed significantly lower levels of chimerism than those that received total CB MNCs, suggesting a role of facilitating cells in the CD34- cell population. To further analyze the role of CD34- cells, the NOD/SCID repopulating ability of FACS-sorted CB CD34-c-kit+Lin- and CD34-c-kit-Lin- cells were examined. However, SRCs were not detected in those cells. Taken together, these data suggest that CB is a better source of hematopoietic stem cells and that there are cells in the CD34- fraction that facilitate repopulation of hematopoiesis in the NOD/SCID environment.
Multiple access control protocols for wireless ATM: problems definition and design objectives (1997)

The concept of wireless ATM is now being actively considered as a potential framework for next-generation wireless communication networks capable of supporting integrated multimedia services with different QoS requirements. Several key subsystem design issues for wired ATM and wireless networks need to be readdressed in the scope of the wireless ATM. One of the main key subsystem issues is the development of the appropriate medium access control (MAC) protocol, which has the capability to extend the statistical multiplexing of the wired ATM network into the wireless medium. In this article the authors address the problem of a suitable MAC protocol for the specification of a wireless ATM network and outline the design objectives. In addition, the authors address some other challenging key issues that the wireless medium and wireless network architecture impose on the ATM stack protocol.
Combined intermittent hypoxia and surface muscle electrostimulation as a method to increase peripheral blood progenitor cell concentration (2009)

Our results open a new application field for hypobaric systems as a way to increase efficiency in peripheral HSC collection.
Supplementation of an adapted formula with bovine lactoferrin: 1. Effect on the infant faecal flora (1992)

The development of the infant faecal flora was studied over the first three months of life in infants receiving breast milk, a modern adapted formula and adaptations of this formula. Breast-fed infants developed a flora rich in Bifidobacterium sp. Facultative anaerobes were ubiquitous, but in relatively small numbers within the diet group. Other obligate anaerobes, such as Clostridium sp. and Bacteriodes sp. were rarely isolated. Standard formula produced a flora rich in bifidobacteria, but the growth of facultative organisms was not suppressed by this diet. Clostridium sp. and Bacteroides sp. were more common in this feeding group. After the addition of lactoferrin at 10 mg/100 ml to the formula diet, a flora similar to that of the standard formula-fed babies was achieved. Lactoferrin at 100 mg/100 ml was able to establish a "bifidus flora" in half of the babies given this formula, but only at age three months. Clostridium sp. and Bacteroides sp. were common faecal isolates from babies receiving both the lactoferrin diets.
Detection and analysis of cell-free fetal DNA in maternal plasma (2010)

Objective To establish an approach for non-invasive prenatal diagnosis of chromosomal and single gene disorders, as well as fetal sex determination, without using paternal control. Methods To detect SRY gene and STR loci of cell-free fetal DNA in peripheral blood samples from 41 healthy pregnant women, using Boster PCR and/or touch-down PCR. STR loci were analyzed via using denaturing polyacrylamide gel electrophoresis and silver staining, while SRY gene via agarose gel electrophoresis. Results Non-maternal inherited alleles were detected from each of the 41 maternal plasma DNA sample. Fetal sex was determined by using both SRY gene and X-STR locus. Out of 41 cases, 38 cases were confirmed, but 3 cases failed to identify the fetal sex. Conclusion Detection and analysis of cell-free fetal DNA in maternal plasma could be used to identify the paternally inherited information in both male and female fetuses, and could be used in prenatal diagnosis of both sex-linked disorders and autosomal disorders.

Key words: 
Prenatal diagnosis;  Cell-free fetal DNA;  Polymerase chain reaction ( PCR );  Short tandem repeat ( STR) ;  SRY gene
The revival of CpG oligonucleotide-based cancer immunotherapies (2018)

The promising results of clinical trials using immune checkpoint inhibitors revived interests in cancer immunotherapy. However, it also became apparent that efficacy of immune checkpoint blockade can benefit from combining it with immunostimulatory strategies. Here, we review prior and re-emerging approaches using Toll-like Receptor 9 (TLR9) agonists, CpG oligodeoxynucleotides (ODNs), focused on the generation of antitumor immune responses in cancer patients. While numerous early clinical trials using TLR9 ligands in monotherapies provided evidence of CpG ODNs tolerability and safety, they failed to demonstrate sufficient antitumor efficacy. Recent studies unraveled multiple levels of negative regulation of immunostimulatory TLR9 signaling in immune cells by the tumor microenvironment that can stifle immune activity in cancer patients. Therefore, CpG ODNs-based strategies can greatly benefit from combination with strategies targeting immune checkpoint regulation. The most recent clinical trials of CpG ODNs together with immune checkpoint inhibitors have a chance to generate novel, more effective and safer cancer immunotherapies.
Antiintegrin alpha v beta 3 blocks human breast cancer growth and angiogenesis in human skin. (1995)

Angiogenesis plays a fundamental role in human breast tumor progression. In fact, recent findings indicate that vascular density is a prognostic indicator of breast cancer disease status. Evidence is presented that the integrin alpha v beta 3 is not only a marker of human breast tumor-associated blood vessels, but that it plays a significant role in human angiogenesis and breast tumor growth. To assess the role of alpha v beta 3-dependent angiogenesis in the progression of human breast cancer, we examined a SCID mouse/human chimeric model with transplanted full thickness human skin containing alpha v beta 3-negative human breast tumor cells. This tumor induced a human angiogenic response as measured by vascular cell immunoreactivity with monoclonal antibodies LM609 and P2B1 directed to human alpha v beta 3 and CD31, respectively. Intravenous administration of LM609 either prevented tumor growth or markedly reduced tumor cell proliferation within the microenvironment of the human skin. These LM609-treated tumors not only contained significantly fewer human blood vessels but also appeared considerably less invasive than tumors in control animals. These findings demonstrate that alpha v beta 3 antagonists may provide an effective antiangiogenic approach for the treatment of human breast cancer.
Sequence analysis of cloned cDNA encoding part of an immunoglobulin heavy chain (1979)

The recombinant plasmid pH21-1 consists of mouse-derived complementary DNA (cDNA) in the E. coli plasmid pMB9. The mouse insertion has been completely sequenced, and encodes the CH3 domain and half the CH2 domain of the immunoglobulin gamma1 heavy chain. The predicted amino acid sequence differs at several positions from that previously published for this protein. The pattern of codon usage resembles that in some other eukaryotic messenger RNAs. A computer program has been used to predict the optimum secondary structure for the mRNA encoding the CH3 domain and the inter-domain junction.
AWG-based Non-blocking Clos Networks (2013)

The three-stage Clos networks remain the most popular solution to many practical switching systems to date. The aim of this paper is to show that the modular structure of Clos networks is invariant with respect to the technological changes. Due to the wavelength routing property of arrayed-waveguide gratings (AWGs), non-blocking and contention-free wavelength-division-multiplexing (WDM) switches require that two calls carried by the same wavelength must be connected by separated links; otherwise, they must be carried by different wavelengths. Thus, in addition to the non-blocking condition, the challenge of the design of AWG-based multistage switching networks is to scale down the wavelength granularity and to reduce the conversion range of tunable wavelength converters (TWCs). We devise a logic scheme to partition the WDM switch network into wavelength autonomous cells, and show that the wavelength scalability problem can be solved by recursively reusing similar, but smaller, set of wavelengths in different cells. Furthermore, we prove that the rearrangeably non-blocking (RNB) condition and route assignments in these AWG-based three-stage networks are consistent with that of classical Clos networks. Thus, the optimal AWG-based non-blocking Clos networks also can achieve 100% utilization when all input and output wavelength channels are busy.
Differentiated human stem cells resemble fetal, not adult, β cells (2014)

Human pluripotent stem cells (hPSCs) have the potential to generate any human cell type, and one widely recognized goal is to make pancreatic β cells. To this end, comparisons between differentiated cell types produced in vitro and their in vivo counterparts are essential to validate hPSC-derived cells. Genome-wide transcriptional analysis of sorted insulin-expressing (INS(+)) cells derived from three independent hPSC lines, human fetal pancreata, and adult human islets points to two major conclusions: (i) Different hPSC lines produce highly similar INS(+) cells and (ii) hPSC-derived INS(+) (hPSC-INS(+)) cells more closely resemble human fetal β cells than adult β cells. This study provides a direct comparison of transcriptional programs between pure hPSC-INS(+) cells and true β cells and provides a catalog of genes whose manipulation may convert hPSC-INS(+) cells into functional β cells.
ChemInform Abstract: Syntheses of 2‐Substituted 1,2‐Dihydro‐1‐oxo‐4‐ isoquinolinecarboxamides and 4‐Amidoximino‐2‐Substituted 1,2‐Dihydro‐1‐ oxoisoquinolines as Antimicrobial Agents. (1991)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Evaluating Replication-Defective Vesicular Stomatitis Virus as a Vaccine Vehicle (2006)

We have generated replication-competent (VSV-C/E1/E2) and nonpropagating (VSVDeltaG-C/E1/E2) vesicular stomatitis virus (VSV) contiguously expressing the structural proteins of hepatitis C virus (HCV; core [C] and glycoproteins E1 and E2) and report on their immunogenicity in murine models. VSV-C/E1/E2 and VSVDeltaG-C/E1/E2 expressed high levels of HCV C, E1, and E2, which were authentically posttranslationally processed. Both VSV-expressed HCV E1-E2 glycoproteins were found to form noncovalently linked heterodimers and appeared to be correctly folded, as confirmed by coimmunoprecipitation analysis using conformationally sensitive anti-HCV-E2 monoclonal antibodies (MAbs). Intravenous or intraperitoneal immunization of BALB/c mice with VSV-C/E1/E2 or VSVDeltaG-C/E1/E2 resulted in significant and surprisingly comparable HCV core or E2 antibody responses compared to those of control mice. In addition, both virus types generated HCV C-, E1-, or E2-specific gamma interferon (IFN-gamma)-producing CD8(+) T cells, as determined by enzyme-linked immunospot (ELISPOT) analysis. Mice immunized with VSVDeltaG-C/E1/E2 were also protected against the formation of tumors expressing HCV E2 (CT26-hghE2t) and exhibited CT26-hghE2t-specific IFN-gamma-producing and E2-specific CD8(+) T-cell activity. Finally, recombinant vaccinia virus (vvHCV.S) expressing the HCV structural proteins replicated at significantly lower levels when inoculated into mice immunized with VSV-C/E1/E2 or VSVDeltaG-C/E1/E2, but not with control viruses. Our data therefore illustrate that potentially safer replication-defective VSV can be successfully engineered to express high levels of antigenically authentic HCV glycoproteins. In addition, this strategy may therefore serve in effective vaccine and immunotherapy-based approaches to the treatment of HCV-related disease.
Receptor editing: an approach by autoreactive B cells to escape tolerance. (1993)

To determine the fate of anti-DNA antibody-bearing B cells in normal mice, we generated transgenic mice bearing the heavy (H) and light (L) chain genes of a well-characterized anti-double-stranded DNA antibody. This antibody was originally isolated from a diseased MRL/lpr mouse and has characteristics common to spontaneously arising anti-DNA antibodies. Results show that the H/L transgene (tg) immunoglobulin receptor is not expressed by animals bearing both tgs, although single tg animals (H or L) express their transgenes. Young H/L tg animals express few B cells, whereas adult H/L tg animals maintain almost normal B cell numbers. Analysis of the immunoglobulin receptors used by adult B cells shows that all contain the tg H chain in association with endogenous L chains. These B cells transcribe the L tg as well as the rearranged endogenous L chain gene, and loss of endogenous L chain gene transcription results in resurrection of the 3H9 H/L tg product. Examination of the endogenous L chains used by these cells shows that they represent a highly restricted subset of V genes. Taken together, these data suggest that autoreactive transgenic B cells can rearrange endogenous L chain genes to alter surface receptors. Those L chains that compete successfully with the L tg for H chain binding, and that create a nonautoreactive receptor, allow the B cell to escape deletion. We suggest that this receptor editing is a mechanism used by immature autoreactive B cells to escape tolerance.
Perceptual harmonic cepstral coefficients for speech recognition in noisy environment (2002)

Perceptual harmonic cepstral coefficients (PHCC) are proposed as features to extract from speech for recognition in noisy environments. A weighting function, which depends on the prominence of the harmonic structure, is applied to the power spectrum to ensure accurate representation of the voiced speech spectral envelope. The harmonics' weighted power spectrum undergoes mel-scaled band-pass filtering, and the log-energy of the filters' output is discrete cosine transformed to produce cepstral coefficients. Lower spectral clipping is applied to the power spectrum, followed by within-filter root-power amplitude compression to reduce amplitude variation without compromise of the gain invariance properties. Experiments show significant recognition gains of PHCC over MFCC, with 23% and 36% error rate reduction for the Mandarin digit database in white and babble noise environments.
Thromboelastography for Monitoring Prolonged Hypercoagulability After Major Abdominal Surgery (2001)

Despite clinical and laboratory evidence of perioperative hypercoagulability, there are no consistent data evaluating the extent, duration, and specific contribution of platelets and procoagulatory proteins by in vitro testing. We tested the hypothesis that the parallel use of standard and abciximab-cytochalasin D-modified thromboelastography (TEG®) can assess 7 days’ postoperative hypercoagulability and can estimate the independent contribution of procoagulatory proteins and platelets. Thromboelastograms were performed before surgery, at the end of surgery, 6 h after surgery, and on postoperative days 1, 2, 3, and 7; they were analyzed for the reaction time and the maximal amplitude (MA). We calculated the elastic shear modulus of standard MA (Gt) and modified MA (Gc), which reflect total clot strength and procoagulatory protein component, respectively. The difference was an estimate of the platelet component (Gp). There was a 10% perioperative increase of standard MA, corresponding to a 50% increase of Gt (P < 0.0001) and an 86%–90% contribution of the calculated Gp to Gt. We conclude that serial standard and modified thromboelastography may reveal prolonged postoperative hypercoagulability and the independent contribution of platelets and procoagulatory proteins to clot strength.
Preliminary Evidence of Linkage of Salt Sensitivity in Black Americans at the β 2 -Adrenergic Receptor Locus (1997)

Salt sensitivity is a heritable trait that is a hallmark of hypertension in black Americans. Genes encoding adrenergic receptors are candidate loci for the inheritance of this hypertension-related trait because of the role of these receptors in the regulation of renal sodium excretion and vascular tone. We performed this study to determine whether these loci are responsible for some of the phenotypic variation in salt sensitivity. Hypertensive black American probands were ascertained, followed by sequential ascertainment of adult sib pairs among the first-, second- and third-degree relatives of the proband. Both hypertensive and normotensive siblings were tested for salt sensitivity by an intravenous sodium-loading, lasix volume-depletion protocol. Genotyping was performed with restriction fragment length polymorphisms in genomic DNA probed with clones containing the beta 2- and alpha 2c10-adrenergic receptor genes. A total of 109 sib pairs was evaluated. Salt sensitivity was defined as the change in blood pressure in each individual, comparing the sodium-loaded with the volume-depleted state. Systolic pressure decreased by an average of 9.0 +/- 9%, diastolic pressure by 1.5 +/- 11%, and mean arterial pressure by 5.0 +/- 9%. Neither blood pressure nor salt sensitivity was linked at the alpha 2c10-adrenergic receptor locus. No evidence suggested that systolic salt sensitivity and baseline blood pressure were linked at the beta 2-adrenergic receptor locus. Model-independent sib pair linkage analysis suggested that diastolic blood pressure response to sodium loading/volume depletion is linked at the beta 2-adrenergic receptor locus (P < .006). Evidence for linkage was significant at the .05 level after adjustment for the number of phenotypic traits examined.