gebhart/patrepeval huggingface dataset:
The all-D-configuration segment containing the IKVAV sequence of laminin A chain has similar activities to the all-L-peptide in vitro and in vivo. (1992)

Laminin is a basement membrane glycoprotein that has diverse biological activities. A sequence on the A chain containing IKVAV (Ile-Lys-Val-Ala-Val) has been shown to promote neurite outgrowth, cell adhesion, and tumor growth and metastasis. Here we have determined the structural requirements of this synthetic peptide for biological activity. Twelve-amino acid-long all-L- (LAM-L) and all-D-peptide (LAM-D) segments as well as an alternating D- and L-amino acid-containing peptide (LAM-DL), which included the IKVAV sequence (residues 2097-2108), were synthesized. Circular dichroism spectral analysis revealed a mirror image conformation of LAM-D and LAM-L with mainly beta-sheet and to a minor extent alpha-helical structure. LAM-DL did not exhibit any significant ordered conformational features. LAM-D and LAM-L showed similar cell attachment activities for rat pheochromocytoma cells (PC12), whereas LAM-DL was inactive. A peptide analog with randomized IKVAV sequence (LAM-RM) was also inactive. A similar trend was observed in competition experiments of the four peptides with laminin in analogous cell attachment assays. In in vivo experiments, both LAM-D and LAM-L were capable of increasing tumor growth when subcutaneously injected into mice with murine melanoma cells B16F10. Results indicate that the conformational status of the IKVAV domain is a contributing factor in determining the biological activity but that there is no strict requirement for a specific chirality. There is a likely sequence specificity to the IKVAV region.
Single-Molecule Detection in Capillary Electrophoresis:  Molecular Shot Noise as a Fundamental Limit to Chemical Analysis (1996)

Capillary electrophoresis is coupled with a single molecule detector based on laser-induced fluorescence. Individual molecules migrating from the capillary are detected and counted with 50% efficiency. Injection of 30 000 analyte molecules generates a reproducible peak consisting of at least five components. However, injection of 3000 or fewer molecules leads to a noisy and irreproducible peak. Monte Carlo simulation demonstrates that this irreproducibility results from molecular shot noise or stochastic fluctuations in the number of injected molecules. The model predicts that the relative standard deviations of peak area, peak center, and peak width are inversely proportional to the square root of the number of injected molecules. At least 104 analyte molecules (17 zmol) are required to define peak area and width with 1% relative precision. Fluctuation in the number of molecules taken for chemical analysis is a fundamental and irreducible source of uncertainty.
Improving the Accuracy of an Artificial Neural Network Using Multiple Differently Trained Networks (1992)

When either detection rate (sensitivity) or false alarm rate (specificity) is optimized in an artificial neural network trained to identify myocardial infarction, the increase in the accuracy of one is always done at the expense of the accuracy of the other. To overcome this loss, two networks that were separately trained on populations of patients with different likelihoods of myocardial infarction were used in concert. One network was trained on clinical pattern sets derived from patients who had a low likelihood of myocardial infarction, while the other was trained on pattern sets derived from patients with a high likelihood of myocardial infarction. Unknown patterns were analyzed by both networks. If the output generated by the network trained on the low risk patients was below an empirically set threshold, this output was chosen as the diagnostic output. If the output was above that threshold, the output of the network trained on the high risk patients was used as the diagnostic output. The dual network correctly identified 39 of the 40 patients who had sustained a myocardial infarction and 301 of 306 patients who did not have a myocardial infarction for a detection rate (sensitivity) and false alarm rate (1-specificity) of 97.50 and 1.63%, respectively. A parallel control experiment using a single network but identical training information correctly identified 39 of 40 patients who had sustained a myocardial infarction and 287 of 306 patients who had not sustained a myocardial infarction (p = 0.003).
Principles of Operation for the TPC.INT Subdomain: Radio Paging -- Technical Procedures (1994)

This memo describes a technique for radio paging using the Internet
mail infrastructure. In particular, this memo focuses on the case in
which radio pagers are identified via the international telephone
network. This memo provides information for the Internet community.
This memo does not specify an Internet standard of any kind.
Femtosecond IR Study of Excited-State Relaxation and Electron-Injection Dynamics of Ru(dcbpy)2(NCS)2 in Solution and on Nanocrystalline TiO2 and Al2O3 Thin Films (1999)

The photophysics and electron injection dynamics of Ru(dcbpy)2(NCS)2 [dcbpy = (4,4‘-dicarboxy-2,2‘-bipyridine)] (or Ru N3) in solution and adsorbed on nanocrystalline Al2O3 and TiO2 thin films were studied by femtosecond mid-IR spectroscopy. For Ru N3 in ethanol after 400 nm excitation, the long-lived metal-to-ligand charge transfer (3MLCT) excited state with CN stretching bands at 2040 cm-1 was formed in less than 100 fs. No further decay of the excited-state absorption was observed within 1 ns consistent with the previously known 59 ns lifetime. For Ru N3 absorbed on Al2O3, an insulating substrate, the 3MLCT state was also formed in less than 100 fs. In contrast to Ru N3 in ethanol, this excited state decayed by 50% within 1 ns via multiple exponential decay while no ground-state recovery was observed. This decay is attributed to electron transfer to surface states in the band gap of Al2O3 nanoparticles. For Ru N3 adsorbed onto the surface of TiO2, the transient mid-IR signal was dominated by the IR absorption of injected electrons in TiO2 in the 1700−2400 cm-1 region. The rise time of the IR signal can be fitted by biexponential rise functions: 50 ± 25 fs (>84%) and 1.7 ± 0.5 ps (<16%) after deconvolution of instrument response function determined in a thin silicon wafer. Because of the scattering of the pump photon in the porous TiO2 thin film, the instrument response may be slightly lengthened, which may require a faster rise time for the first component to fit the data. The first component is assigned to the electron injection from the Ru N3 excited state to TiO2. The amplitude of the slower component appears to vary with samples ranging from ca. 16% in new samples to <5% in aged samples. The subsequent dynamics of the injected electrons have also been monitored by the decay of the IR signal. The observed 20% decay in amplitude within 1 ns was attributed to electron trapping dynamics in the thin films.
Cannabis use amongst patients with inflammatory bowel disease (2011)

Cannabis use is common amongst patients with IBD for symptom relief, particularly amongst those with a history of abdominal surgery, chronic abdominal pain and/or a low quality of life index. The therapeutic benefits of cannabinoid derivatives in IBD may warrant further exploration.
The technology test (1985)

Economic planning in Australia cannot remain with the captains of industry, or their peers. Max Bound argues that new technologies and new strategies are posing serious questions for the left.
Bearing Fault Diagnosis for Direct-Drive Wind Turbines via Current-Demodulated Signals (2013)

Bearing faults account for a large portion of all faults in wind turbine generators (WTGs). Current-based bearing fault diagnosis techniques have great economic benefits and are potential to be adopted by the wind energy industry. This paper models the modulation effects of bearing faults on the stator currents of a direct-drive wind turbine equipped with a permanent-magnet synchronous generator (PMSG) operating with a variable shaft rotating frequency. Based on the analysis, a method consisting of appropriate current frequency and amplitude demodulation algorithms and a 1P-invariant power spectrum density algorithm is proposed for bearing fault diagnosis of variable-speed direct-drive wind turbines using only one-phase stator current measurements, where 1P frequency stands for the shaft rotating frequency of a wind turbine. Experimental results on a direct-drive wind turbine equipped with a PMSG operating in a wind tunnel are provided to verify the proposed fault diagnosis method. The proposed method is demonstrated to have advantages over the method of directly using stator current measurements for WTG bearing fault diagnosis.
Constructing 2D curve atlases (2002)

Presents an approach to computing a curve atlas based on deriving a correspondence between two curves. This correspondence is based on a notion of an alignment curve and on a measure of similarity between the intrinsic properties of the curve, namely, length and curvature. The optimal correspondence is found by an efficient dynamic-programming method. This is then used to compute an average for a set of curves and applied to computing the averages of bone shapes and corpus callosum as examples, towards constructing a computational atlas. The proposed notion of alignment also leads to a registration method, which is illustrated with several examples.
Two patterns for cloud computing: secure virtual machine image repository and cloud policy management point (2013)

Two security patterns for clouds are presented: Secure Virtual Machine Image Repository, that controls the introduction or creation of malicious virtual machine images, and Cloud Policy Management Point, that defines a dashboard for the security administrator to control access to cloud resources.
Hyperhomocysteinaemia in stroke: prevalence, cause, and relationships to type of stroke and stroke risk factors (1992)

Moderate hyperhomocysteinaemia is a frequent finding in atherothrombotic cerebrovascular disease. This study confirms and extends this observation. Hyperhomocysteinaemia was present in 57 of 142 survivors with stroke (40%) and in four of 66 controls (6%). Plasma homocysteine concentrations were increased not only in carotid artery disease or lucunar stroke but also in haemorrhagic or embolic strokes. Homocysteine values were unrelated to the presence of hypertension, smoking, or hypercholesterolaemia, or to the concentrations of blood glucose, glycosylated haemoglobin, and plasma fibrinogen. Multiple regression analysis of the patient data showed that about 40% of the variation in plasma homocysteine concentrations could be predicted by the values for the homocysteine metabolism cofactors, blood folate and plasma pyridoxal 5-phosphate and by renal function as reflected in the values for serum creatinine. In patients, urine excretion of homocysteine per unit creatinine was significantly increased and strongly correlated both to the plasma homocysteine concentration and to the values for blood folate, plasma pyridoxal 5-phosphate, and serum vitamin B12. We conclude that moderate hyperhomocysteinaemia is frequently present in cases of stroke, is independent of other stroke risk factors or the type of stroke, and is partly related to renal function and the concentrations of homocysteine metabolism cofactors.
National Kidney Disease Education Program. (2002)

The predicted increase in the number of people with end-stage renal disease (ESRD) places an enormous burden on healthcare providers and the Medicare system. Recognizing this problem led the Council of American Kidney Societies to conceive, develop, and implement the National Kidney Disease Education Program (NKDEP). It was decided to aim the program at both patients and primary care providers in an attempt to halt the relentless increase in the numbers of patients with ESRD. The development of straightforward targets for therapy and screening are a goal of the NKDEP. The strategic plan of the program calls for all those at high risk of developing ESRD to seek testing. Working groups are currently addressing the components of the plan and are actively developing messages and guidance for target audiences. The NKDEP aims to reduce the incidence of ESRD. Even though the results may not come quickly, it is hoped that ESRD mortality can be reduced over the coming years.
Clinical Development of Antisense Oligonucleotides as Anti-Cancer Therapeutics (2003)

Antisense oligonucleotides (AONs) are one of the several types of “antisense therapeutics” designed to modulate specific gene expression at the mRNA level. Although antisense strategies also include ribozymes (RNA enzyme) and, more recently, DNAzymes (a DNA analog of a ribozyme), AONs are by far the most advanced in clinical development and will be the focus of this review.
The human microbiome and bile acid metabolism: dysbiosis, dysmetabolism, disease and intervention (2014)

A disrupted gut microbiome, including a reduction of bile salt hydrolase (BSH)-active bacteria, can significantly impair the metabolism of BAs and may result in an inability to maintain glucose homeostasis as well as normal cholesterol breakdown and excretion. To better understand the link between dysbiosis, BA dysmetabolism and chronic degenerative disease, large-scale metagenomic sequencing studies, metatranscriptomics, metaproteomics and metabolomics should continue to catalog functional diversity in the gastrointestinal tract of both healthy and diseased populations. Further, BSH-active probiotics should continue to be explored as treatment options to help restore metabolic levels.
Analysis of Rat Prolactin Promoter Sequences that Mediate Pituitary-Specific and 3′,5′-Cyclic Adenosine Monophosphate-Regulated Gene Expressionin Vivo (1989)

To determine the rat PRL (rPRL) promoter sequences that mediate pituitary-specific and cAMP-induced gene expression in vivo, various lengths of the rPRL promoter were ligated to the luciferase reporter gene and introduced into pituitary and non-pituitary cell lines. A 30-fold increase in rPRL promoter activity was observed in GH4 rat pituitary tumor cells compared to nonpituitary Rat2 fibroblast and HeLa cervical carcinoma cells. About 45% of this cell-specific promoter activity was competed by a plasmid containing the -67 to -45 rPRL promoter region, which is the most proximal binding site for a lactotroph-specific factor. Compared to a -425 rPRL construct, transfection with rPRL 5'-end points of -212, -178, and -127 contained 23%, 45%, and 1%, respectively, of luciferase activity. Forskolin stimulation resulted in a 10-fold induction of all the rPRL promoter fragments tested. Of note, a -127 deletion which was devoid of any basal promoter activity was also induced 10-fold by forskolin. The forskolin effect was abolished when GH4 rat pituitary cells were cotransfected with a plasmid encoding a protein kinase A inhibitor, indicating protein kinase A is involved in the activation mechanism. These data document that both positive and negative effectors influence basal rPRL promoter activity. Furthermore, the minimum sequences required for pituitary-specific rPRL promoter activity are altered by intracellular cAMP levels. Taken together, the data indicate that hormone-activated and cell-specific factors may interact to establish a particular setpoint for rPRL gene expression.
High-mobility modulation-doped SiGe-channel p-MOSFETs (1991)

A novel subsurface SiGe-channel p-MOSFET is demonstrated in which modulation doping is used to control the threshold voltage without degrading the channel mobility. A novel device design consisting of a graded SiGe channel, an n/sup +/ polysilicon gate, and p/sup +/ modulation doping is used. A boron-doped layer is located underneath the graded and undoped SiGe channel to minimize process sensitivity and maximize transconductance. Low-field hole mobilities of 220 cm/sup 2//V-s at 300 K and 980 cm/sup 2//V-s at 82 K were achieved in functional submicrometer p-MOSFETs.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
LDPC OFDM space-time multipath fading channel results (2003)

High Frequency (HF) radio communication channels provide unique challenges to digital communication systems. Typical HF communication systems propagate electromagnetic energy in the 2-30MHz radio spectrum using the earth’s ionosphere and surface as both refractors and reflectors for non line of sight communications. Constantly changing ionosphere conditions result in multipath and severe fading channel characteristics. Through numerical simulation, small block length (520) Low Density Parity Check (LDPC) forward error correction codes used in conjunction with Orthogonal Frequency Division Multiplexing (OFDM) and Space-Time (ST) channel coding are shown to provide excellent communication performance across the HF channel. Average bit error rate performance results will be shown for a 2ms, 2Hz Watterson HF channel model as well as results for the independent Rayleigh fading channel. The space-time simulation parameters were chosen to model an Alamouti dual antenna transmit, single antenna receive communication system utilizing practical data and sampling rates.
Measuring the Gap Between FPGAs and ASICs (2007)

This paper presents experimental measurements of the differences between a 90-nm CMOS field programmable gate array (FPGA) and 90-nm CMOS standard-cell application-specific integrated circuits (ASICs) in terms of logic density, circuit speed, and power consumption for core logic. We are motivated to make these measurements to enable system designers to make better informed choices between these two media and to give insight to FPGA makers on the deficiencies to attack and, thereby, improve FPGAs. We describe the methodology by which the measurements were obtained and show that, for circuits containing only look-up table-based logic and flip-flops, the ratio of silicon area required to implement them in FPGAs and ASICs is on average 35. Modern FPGAs also contain "hard" blocks such as multiplier/accumulators and block memories. We find that these blocks reduce this average area gap significantly to as little as 18 for our benchmarks, and we estimate that extensive use of these hard blocks could potentially lower the gap to below five. The ratio of critical-path delay, from FPGA to ASIC, is roughly three to four with less influence from block memory and hard multipliers. The dynamic power consumption ratio is approximately 14 times and, with hard blocks, this gap generally becomes smaller
Immunophenotyping Investigation of Minimal Residual Disease Is a Useful Approach for Predicting Relapse in Acute Myeloid Leukemia Patients (1997)

A high complete remission rate is currently achieved in patients with acute myeloid leukemia (AML). However, many patients eventually relapse due to the persistence of low numbers of residual leukemic cells that are undetectable by conventional cytomorphologic criteria (minimal residual disease [MRD]). Using immunophenotypic multiparametric flow cytometry, we have investigated in sequential studies (diagnosis and follow-up) the impact of MRD detection on the outcome of 53 AML patients that had achieved morphologic remission with standard AML protocols and displayed at diagnosis an aberrant phenotype. Patients were studied at diagnosis with a panel of 35 monoclonal antibodies in triple staining combinations for detection of aberrant or uncommon phenotypic features. According to these features, a patient's probe was custom-built at diagnosis for the identification of possible residual leukemic cells during follow-up. The level of MRD at the end of induction and intensification therapy correlated with the number of relapses and relapse-free survival (RFS). Thus, patients with more than 5 × 10−3 residual cells (5 residual cells among 1,000 normal bone marrow [BM] cells) identified as leukemic by immunophenotyping in the first remission BM showed a significant higher rate of relapse (67% v 20% for patients with less than 5 × 10−3 residual cells; P = .002) and a lower median RFS (17 months v not reached; P = .01). At the end of intensification, with a cut-off value of 2 × 10−3 leukemic cells, AML patients also separated into two distinct groups with relapse rates of 69% versus 32% (P = .02), respectively, and median RFS of 16 months versus not reached (P = .04). In addition, overall survival was also significantly related to the level of residual cells in the marrow obtained at the end of induction and particularly after intensification therapy (P = .008). Furthermore, we have explored whether residual disease was related with the functional expression of multidrug resistance (MDR-1) at diagnosis as assessed by the rhodamine-123 assay. Patients with ≥5 × 10−3 residual leukemic cells at the end of induction therapy had a significantly higher rhodamine-123 efflux (mean, 56% ± 24%) than those with less than 5 × 10−3 residual cells (mean, 32% ± 31%; P = .04). Finally, multivariate analysis showed that the number of residual cells at the end of induction or intensification therapy was the most important prognostic factor for prediction of RFS. Overall, our results show that immunophenotypical investigation of MRD strongly predicts outcome in patients with AML and that the number of residual leukemic cells correlates with multidrug resistance.
Development and Validation of a Molecular Beacon Probe–Based Real-Time Polymerase Chain Reaction Assay for Rapid Detection of Methicillin Resistance in Staphylococcus aureus (2003)

This assay is rapid, accurate, easy to perform, and is compatible with other real-time PCR instruments, making it a suitable alternative to conventional PCR methodologies.
Semiconducting Electronic Property of Graphene Adsorbed on (0001) Surfaces ofSiO2 (2011)

First-principles total energy calculations are performed to investigate the energetics and electronic structures of graphene adsorbed on both an oxygen-terminated SiO2 (0001) surface and a fully hydroxylated SiO2 (0001) surface. We find that there are several stable adsorption sites for graphene on both O-terminated and hydroxylated SiO2 surfaces. The binding energy in the most stable geometry is found to be 15 meV per C atom, indicating a weak interaction between graphene and SiO2 (0001) surfaces. We also find that the graphene adsorbed on SiO2 is a semiconductor irrespective of the adsorption arrangement due to the variation of on-site energy induced by the SiO2 substrate.
Viral and cellular interleukin-10 (IL-10)-related cytokines: from structures to functions. (2002)

The anti-inflammatory and immunosuppressive activities of IL-10 have been extensively studied during the last 10 years. More recently a series of new cytokines, structurally related to IL-10, were described. This family includes mda-7, IL-19, IL-20, IL-TIF/IL-22, and AK155. Most of the biological functions of these cytokines remain to be unraveled but new data are coming out steadily. Although none of these "IL-10 homologs" mimics IL-10 activities, they are likely to be involved in inflammatory processes as well. mda-7, IL-19 and IL-20 form a subfamily within IL-10 homologs, based on conserved amino acid sequences, and on the use of shared receptor complexes. Functional studies have stressed the potential suppressing activity of mda-7 on tumor growth. As for IL-20, its overexpression in transgenic mice led to skin abnormalities, reminiscent of psoriatic lesions in humans. IL-TIF/IL-22 is a Th1 cytokine, and was shown to upregulate the acute phase reactant production by liver cells. Finally, for AK155, originally described as a gene induced upon T cell transformation by Herpes-virus saimiri, functional data are still lacking to determine its biological activities.