gebhart/patrepeval huggingface dataset:
An improved empirical bayes approach to estimating differential gene expression in microarray time-course data: BETR (Bayesian Estimation of Temporal Regulation) (2009)

Based on results from theory, simulated data, and application to the genomic data presented here, we show that BETR has increased power to detect subtle differential expression in time-series data. The open-source R package betr is available through Bioconductor. BETR has also been incorporated in the freely-available, open-source MeV software tool available from http://www.tm4.org/mev.html.
A fusion protein with improved thrombolytic effect and low bleeding risk (2009)

To resolve the therapeutic dilemma between efficacy of thrombolysis and bleeding risk associated with the use of a combination of thrombolytic and anticoagulant treatments, we created a fusion protein. Staphylokinase was fused to the N-terminus of hirudin using thrombin recognition sequence as linker peptide, resulting in a fusion protein STH. We hypothesised that STH would be cleaved by thrombin at the thrombus site, releasing staphylokinase and hirudin to perform bifunctionally, and attenuating bleeding risk. SDS-PAGE and Western blot analyses indicated that the linker peptide could be specially recognised and cleaved by thrombin. Amidolytic and thromboelastogram assays showed that the N-terminus of hirudin in STH was blocked by staphylokinase and linker peptide, impeding hirudin's anticoagulant activity. Once cleaved, STH displayed 35.7% of the anticoagulant activity of equimolar hirudin and exhibited anticoagulant effects in the fibrin clot lysis assay. Thrombin-binding and fibrin clot lysis assays showed that the C-terminus of hirudin retained its high affinity for thrombin. Moreover, STH showed improved thrombolytic effects and a lower bleeding risk in animals. Thus, STH may have the capacity to perform bifunctionally and release anticoagulant activity in a thrombus-targeted manner in vivo, which may reduce the bleeding risk that often accompanies high thrombolytic efficacy in the treatment of thromboembolic diseases.
K‐<i>Ras</i> gene status and expression of Ras/mitogen‐activated protein kinase (MAPK) signaling molecules in ameloblastomas (2004)

Expression of K-Ras, Raf1, MEK1, and ERK1/2 in tooth germs and ameloblastomas suggests that Ras/MAPK signaling pathway functions to regulate cell proliferation and differentiation in both normal and neoplastic odontogenic epithelium. K-Ras gene status implied that K-Ras mutations might play a minor role in oncogenesis of odontogenic epithelium.
Mild and Chemoselective Deacetylation Method Using a Catalytic Amount of Acetyl Chloride in Methanol (2005)

Efficient deacetylation of alcohol acetates under mild acidic conditions was accomplished with a catalytic amount of acetyl chloride in methanol. Acetates of various primary, secondary, aromatic and sugar alcohols were successfully deprotected. Highly chemoselective removal of acetyl groups in presence of ­other commonly employed esters was also achieved in excellent yields. The reactivity of this transesterification-mediated deacetyl­ation was found to be directly dependent upon the electronic and steric nature of the acetates.
Detection of Protein–Small Molecule Binding Using a Self-Referencing External Cavity Laser Biosensor (2014)

High-throughput screening has enabled the identification of small molecule modulators of important drug targets via well-established colorimetric or fluorimetric activity assays. However, existing methods to identify small molecule binders of nonenzymatic protein targets lack either the simplicity (e.g., require labeling one of the binding partners with a reporter) or throughput inherent in enzymatic assays widely used for HTS. Thus, there is intense interest in the development of high-throughput technologies for label-free detection of protein-small molecule interactions. Here we describe a novel self-referencing external cavity laser (ECL) biosensor approach that achieves high resolution and high sensitivity, while eliminating thermal noise with subpicometer wavelength accuracy. Using the self-referencing ECL biosensor, we demonstrate detection of binding between small molecules and a variety of immobilized protein targets, pairs that have binding affinities or inhibition constants ranging from subnanomolar to low micromolar. Finally, a "needle-in-the-haystack" screen for inhibitors against carbonic anhydrase isozyme II is performed, in which known inhibitors are clearly differentiated from inactive molecules within a compound library.
Geometric Urban Geo-localization (2014)

We propose a purely geometric correspondence-free approach to urban geo-localization using 3D point-ray features extracted from the Digital Elevation Map of an urban environment. We derive a novel formulation for estimating the camera pose locus using 3D-to-2D correspondence of a single point and a single direction alone. We show how this allows us to compute putative correspondences between building corners in the DEM and the query image by exhaustively combining pairs of point-ray features. Then, we employ the two-point method to estimate both the camera pose and compute correspondences between buildings in the DEM and the query image. Finally, we show that the computed camera poses can be efficiently ranked by a simple skyline projection step using building edges from the DEM. Our experimental evaluation illustrates the promise of a purely geometric approach to the urban geo-localization problem.
Selective Nernstian Response of Poly(<i>N</i>,<i>N</i>-dimethylaniline)/Poly(<i>o</i>-chloroaniline) Dual-layer Coated Electrode to Dissolved Iodide Ion (1988)

Abstract Poly(N,N-dimethylaniline)(PDA) is a semiconductor having positively charged sites in the polymeric backbone. A PDA coated electrode can capture I− electrostatically and the I− in the PDA film can also be oxidized electrochemically. Poly(o-chloroaniline)(PCA) responses to dissolved I− selectively, though it is quite an insulator. A PDA/PCA dual-layer coated electrode shows selective Nernstian response to dissolved I−.
Dynamic Universal Maturity Assessment System (2021)

After the introduction of computer, there has been an influx of applications. Every application sates different human needs, however, each one of them uses software maturity model to assess and deliver a reliable and scalable application. Since, every organization uses a varied model, or calculation standard, a universal standard is necessary. This research paper proposes an ubiquitous formula that, not only solves the above ambiguity but also considers every aspect of development basis on their individual prominence. Each valuable process is divided into sub categories and given respective weightage based on the use case of the application, such a dichotomy dramatically increases the assessment accuracy of the software application and provides a rate of maturity on a scale of 0-10 where the former being the lowest and later being highest level of maturity.
Diverse Functionalization of Thiazolo Ring-Fused 2-Pyridones (2007)

Thiazolo ring-fused 2-pyridones have proven to be highly interesting scaffolds for the development of biologically active compounds. Many methods are today available to introduce a variety of substituents in the 2-pyridone part of the heterocycle. Herein we disclose how a diverse set of substituents can be introduced in the thiazolo ring, with possibilities to vary also the spatial arrangement of the substituents. A key intermediate is the oxidized framework 9 for which an effective synthesis is described. The thiazolo part of this system can be substituted either via conjugate additions, resulting in trans selectivity, or via microwave-assisted Heck couplings that result in unsaturated aryl-substituted analogues. The scaffold can also be lithiated followed by the addition of various electrophiles, which increases the diversification potential substantially, as exemplified with the introduction of halogens, alkyl, acyl, and amide substituents.
Parametric Cycle Analysis of a Turbofan Engine with an Interstage Turbine Burner (2005)

This study focuses on the parametric cycle analysis of a dual-spool, separate-flow turbofan engine with an interstage turbine burner (ITB). The ITB considered in this paper is a relatively new concept in modern jet engine propulsion. It serves as a secondary combustor and is located between the high-pressure and the low-pressure turbines, that is, the transition duct. The objective of this study is to use engine design parameters, such as high-pressure and low-pressure turbine inlet temperatures to obtain engine performance parameters, for example, specific thrust and thrust specific fuel consumption. A turbine cooling model is also included. Results confirm the advantages of ITB, that is, higher specific thrust, less cooling air, and possibly less NOx production, provided that the main-burner exit temperature and ITB exit temperature are properly specified.
Treatment of Multiple Relapsing Warts with Diphenciprone (1988)

44 patients with multiple recalcitrant warts were treated with weekly applications of diphencyprone. 20 patients were cured completely and 17 improved with reduction in the number or dimension of warts. Plantar warts responded less satisfactorily. Sensitization is not always tolerated by patients and the risk of eczema spreading to other sites must be considered. However, topical immunotherapy has to be considered as an alternative means of treatment in selected patients. The mode of action is discussed.
ONE-MILE STEP COUNT AT WALKING AND RUNNING SPEEDS (2008)

In Brief LEARNING OBJECTIVE • After reading this article, health and fitness professionals will be able to: 1. help clients estimate the number of steps taken while walking or running a mile at different speeds, 2. determine additional walking or running distances required to accumulate 10,000 steps per day, and 3. explain the impact of higher-intensity exercise on the general recommendation of accumulating 10,000 steps per day. One mile-step count varies at different walking and running speeds and can be predicted based on gender, pace, and height. Learn to estimate how far clients need to go to accumulate 10,000 steps most days of the week to maintain health.
Synthesis, evaluation of chemical reactivity, and murine antineoplastic activity of 2-hydroxy-5-(3,4-dichlorophenyl)-6,7-bis(hydroxymethyl)-2,3-dihydro-1H-pyrrolizine bis(2-propylcarbamate) and 2-acyloxy derivatives as potential water-soluble prodrugs (1983)

2-Hydroxy-5-(3,4-dichlorophenyl)-6,7-bis(hydroxymethyl)-2,3-dihydro-1H- pyrrolizine bis(2-propylcarbamate) (11) was prepared in a multistep synthesis. The 2-hydroxy group was used to prepare ester prodrugs 14 and 15, and the antineoplastic activities of 11, 14, and 15a were compared to 1 (the 2-deoxy analogue of 11) in murine P388 lymphocytic leukemia and B16 melanocarcinoma. The alcohol 11 showed comparable activity to 1, while 14 was less active and 15a showed very low activity. The hydrolytic rates of 1, 11, 14, 15a, and 15b were compared, and it was found that the two carbamate moieties were much more susceptible toward hydrolysis than the C-2 esters. The salts 15a and 15b exhibited good water solubility, 3.0 X 10(-2) and 3.88 X 10(-2) M, respectively.
How Evaporating Carbon Nanotubes Retain Their Perfection? (2007)

We present a mechanism of high-temperature sublimation of carbon nanotubes that does not destroy their ordered makeup even upon significant loss of mass. The atoms depart to the gas phase from the pentagon-heptagon dislocation cores, while the bond disruption is immediately repaired, and the 5|7 seamlessly propagate through the lattice. This explains a broad class of unsettled phenomena when at high temperature or under radiation the nanotubes do not become amorphous but rather shrink in size nearly flawlessly.
TET2 Expression in Bone Marrow Mononuclear Cells of Patients with Myelodysplastic Syndromes and Its Clinical Significances (2012)

Objective To investigate the expression of TET2 mRNA and protein in the bone marrow mononuclear cells(BMMNC) of patients with myelodysplastic syndrome(MDS) and its clinical significance. Methods The expression of TET2 mRNA and protein in bone marrow mononuclear cells(BMMNC) of 32 patients with MDS and 20 healthy donors was examined by qPCR and Western blot. Results The expression of TET2 mRNA in BMMNC was down-regulated in MDS patients compared with the donor group [(0.41±0.28)%vs.(1.07±0.56)%](P
Meibomian Lipid Films and the Impact of Temperature (2010)

Temperature critically influences MLF. Low temperature leads to stiffening of the film, which loses its ability to form continuous layers at the air-water interface. These effects were shown be of a cooperative nature, manifesting in relatively narrow concentration and temperature ranges.
Standardization of MIMO-OFDM Technology (2008)

Standards development organizations around the world are making rapid advances in adopting MIMO-OFDM as the technology of choice for emerging broadband wireless standards. These include IEEE 802.11n - the next generation standard for wireless local networking, IEEE 802.16e - a new standard for metropolitan area networks, and 3 GPP Long Term Evolution (LTE) - the next generation standard for cellular networking. When multiple antennas are deployed at the transmitter, they can be used to increase data rates and/or enhance link robustness. Data rates can be increased by using space division multiplexing, which requires standardization. Link robustness can also be enhanced through transmit beamforming, which requires channel state information at the transmitter. FDD systems generally require standardization, but TDD systems also benefit from standardization. Transmit diversity techniques also enhance link robustness. However, some transmit diversity techniques require standardization (such as space time block coding), whereas some do not (such as delay diversity). In this tutorial, we will discuss the various flavors of MIMO-OFDM that are being standardized in 802.11n, 802.16e, and LTE. We will describe in detail the similarities and differences of these systems. For example, 802.11n is a TDD based system and only supports one user in the channel at any given time. LTE, on the other hand, is primarily an FDD based system, and aims to support multiple users in the channel at any given time. Hence, the concept of centralized control with multi-user MIMO is being developed within LTE and 802.16e, whereas 802.11n with decentralized control only supports single-user MIMO. However, space division multiplexing is similar across 802.11n, 802.16e, and LTE.
A simple technique for the evaluation of temporal taste properties (1983)

Journal Article A simple technique for the evaluation of temporal taste properties Get access Grant E. DuBois, Grant E. DuBois Chemical Synthesis and Food Science LaboratoriesDynapol, Palo Alto, CA, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Janice F. Lee Janice F. Lee Chemical Synthesis and Food Science LaboratoriesDynapol, Palo Alto, CA, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Chemical Senses, Volume 7, Issue 3-4, 1983, Pages 237–247, https://doi.org/10.1093/chemse/7.3-4.237 Published: 01 July 1983 Article history Received: 01 October 1982 Accepted: 01 October 1982 Published: 01 July 1983
An Application of Elasto-Plastic Model to Overhanging Geosynthetic-Reinforced Soil Structure (2004)

In this paper, a mechanism of the soil structure reinforced by geosynthetics is discussed. The reinforcing mechanism is interpreted an effect arising from the reinforcement works so as to prevent the dilative deformation (negative dilatancy) of soil under shearing. A full-scale in-situ model test was carried out in Kanazawa of Japan(1994) and in the laboratory test the strength and the characteristics of deformation conducting a constant volume shear test are examined. The parameters needed in the FEM are also applied by using the experimental data. The elasto-plastic finite element simulation is carried out, and the results are quantitatively compared with that of experiment. As a results, it is known that the theoretical predictions could be explained effectively the experimental results which are obtained by a full-scale in-situ model test.
Intranasal Oxytocin Blocks Alcohol Withdrawal in Human Subjects (2012)

This is the first demonstration that OT treatment may block alcohol withdrawal in human subjects. Our results are consistent with previous findings in rodents that OT inhibits neuroadaptation to and withdrawal from alcohol. OT could have advantages over benzodiazepines in managing alcohol withdrawal because it may reverse rather than maintain sedative-hypnotic tolerance. It will be important to test whether OT treatment is effective in reducing drinking in alcohol-dependent outpatients.
Clinical burden of venous thromboembolism (2010)

Even among high-risk groups it is not possible to identify individuals who will go on to develop VTE, and, therefore, thromboprophylaxis is a recommended component of the management of high-risk patients. Ensuring patients receive safe, effective, easily administered antithrombotic therapy both in hospital and post-discharge, for a sufficient length of time, should be central to any strategy to reduce incident or recurrent VTE and minimise the risk of long-term complications.
Research on Encryption Model Based on AES and ECC in RFID (2013)

Since the cost of RFID tags reducing constantly, the scale of its applications enlarges in industries and extends to various fields in our daily work and life. However, due to the openness of RFID, it owns a high attack risk when applied. This paper presents a model based on AES and ECC, which can protect users' privacy and implement access controls. This model takes advantage of both the virtues of a symmetric encryption algorithm and asymmetric encryption algorithm, encrypting AES key with ECC and empowering the client to encrypt system's ECC public key by using an ECC private key.
Sesquiterpene Lactone Composition of Wild and Cultivated Sunflowers and Biological Activity against an Insect Pest (2015)

Sesquiterpene lactones in sunflowers, Helianthus spp., are important to interactions with pathogens, weeds, and insects. Across a broad range of Helianthus annuus, differences in composition of sesquiterpene lactones extracted from disc florets were found between wild and cultivated sunflowers and also between distinct groups of inbreds used to produce sunflower hybrids. Discriminant function analysis showed the presence and relative abundance of argophyllone B, niveusin B, and 15-hydroxy-3-dehydrodesoxyfruticin were usually (75%) effective at classifying wild sunflowers, cultivated inbreds, and hybrids. Argophyllone B reduced the larval mass of the sunflower moth, Homeosoma electellum, by >30%, but only at a dose greater than that found in florets. Low doses of mixed extracts from cultivated florets produced a similar (≈40%) reduction in larval mass, suggesting combinations of sesquiterpene lactones act additively. Although the results support a role for sesquiterpene lactones in herbivore defense of cultivated sunflowers, additional information is needed to use these compounds purposefully in breeding.
Critical Assessment of Interstory Drift Measurements (2010)

Interstory drift, the relative translational displacement between two consecutive floors, is an important engineering demand parameter and indicator of structural performance. The structural engineering community would benefit well from accurate measurements of interstory drift, especially where structures undergo inelastic deformation. Unfortunately, the most common method for obtaining interstory drift, double integration of measured acceleration, is problematic. Several issues associated with this method (e.g., signal processing steps and sparse instrumentation) are illustrated using data from shake table studies and two extensively instrumented buildings. Some alternative contact and noncontact methods for obtaining interstory drift are then presented.
The Protein Kinase C Activator Phorbol Myristate Acetate Decreases Brain Edema by Aquaporin 4 Downregulation after Middle Cerebral Artery Occlusion in the Rat (2009)

The protein kinase C activator phorbol 12-myristate 13-acetate (PMA) is known to interact with aquaporin 4 (AQP 4), a water-selective transporting protein that is abundant in astrocytes, and has experimentally been found to decrease osmotically-induced cell swelling. The purpose of this study was to examine whether PMA reduces brain edema following focal ischemia induced by middle cerebral artery (MCA) occlusion by modulation of AQP4 expression. Male Sprague-Dawley rats were randomly assigned to either sham surgery (n = 6), or a continuous intravenous infusion of vehicle (1% dimethylsulfoxide), followed by MCA occlusion (n = 18), and administration of PMA at 50 microg/kg (n = 6) or at 200 microg/kg (n = 6) starting 60 min before or 30 min (200 microg/kg; n = 6) or 60 min (200 microg/kg; n = 6) after MCA occlusion. Cerebral blood flow was monitored with laser Doppler over the MCA territory, and confirmed a 70% reduction during occlusion. After a 2-h period of ischemia and 2 h of reperfusion, the animals were sacrificed for assessment of brain water content and sodium and potassium concentration. AQP4 expression was assessed by immunoblotting and quantified by densitometry (n = 24). Statistical analysis was performed by ANOVA followed by Tukey's post-hoc test. PMA treatment at 200 microg/kg significantly reduced brain water concentration in the infarcted area when started 60 min before or 30 min after occlusion (p < 0.001 and p = 0.022, respectively), and prevented the subsequent sodium shift (p < 0.05). PMA normalized the AQP4 upregulation in ischemia (p = 0.021). A downregulation of AQP4 in the ischemic area paralleling the reduction in brain edema formation following PMA treatment suggests that the effect was mediated by AQP4 modulation.
ChemInform Abstract: COPPER(II) COMPLEXES OF DEPROTONATED 2‐ALKYLAMINOPYRIDINE N‐OXIDES AND 2‐AMINOPICOLINE N‐OXIDES (1985)

Abstract Durch Zugabe von NaOH zu einer wäßrigen Aufschlämmung der nach bekannter Methode dargestellten Salze [Cu(HL)4](ClO 4 ) 2 (HL: nicht deprotonierter Titelligand) wurden die Komplexe (I) dargestellt.
Visual Natural Language Query Auto-Completion for Estimating Instance Probabilities (2019)

We present a new task of query auto-completion for estimating instance probabilities. We complete a user query prefix conditioned upon an image. Given the complete query, we fine tune a BERT embedding for estimating probabilities of a broad set of instances. The resulting instance probabilities are used for selection while being agnostic to the segmentation or attention mechanism. Our results demonstrate that auto-completion using both language and vision performs better than using only language, and that fine tuning a BERT embedding allows to efficiently rank instances in the image. In the spirit of reproducible research we make our data, models, and code available.