gebhart/patrepeval huggingface dataset:
Pressure Swing Adsorption Technology for Hydrogen Production (2009)

This chapter contains sections titled: Introduction PSA Processes for Hydrogen Purification Adsorbents for Hydrogen PSA Processes Future Trends for Hydrogen PSA PSA Process Reliability Improved Hydrogen Recovery by PSA Processes Engineering Process Design Summary References
Optimized Pulse Pattern modulation for Modular Multilevel Converter high-speed drive (2012)

The indirect Modular Multilevel Converter (MMC) is an emerging high voltage inverter topology. Offline Optimized Pulse Patterns (OPP) as investigated in this paper increase the efficiency due to reduced switching and harmonic current losses. This is particularly interesting for applications which demand high output frequencies, such as high-speed motors. Pulse patterns for arbitrary modulation indices and arbitrary numbers of modules per branch are optimized with regard to minimal harmonic distortion of the output voltage. A closed-loop capacitor voltage balancing method that enables distributed modulation is also introduced. Simulation results of a complete drive system show the feasibility of the approach.
Learned protein embeddings for machine learning (2018)

Supplementary data are available at Bioinformatics online.
C203 Gas turbine power augmentation system using solar thermal energy (2013)

Gas turbine power decreases at high atmospheric temperature due to the decrease in air density and consequently lower the mass flow rate into the turbine. Inlet air cooling technology which achieves the power recovery by the atomization of water to the compressor suction air is developed. It is expected that the effect of cooling increases by making finer water droplet due to rapid evaporation. This paper introduces an innovative gas turbine system which increase the power output by using solar thermal energy.
Netfood: A Software System for Food Ordering and Delivery (2018)

Netfood is an order management software for food delivery companies. It is a delivery-oriented system that allows clients to order from multiple restaurants at the same time, and provides the possibility to order individually or in a group. Orders can be placed by users through the web interface. The data related to restaurants, foods and orders is managed by administrators. A mobile application is used by the delivery personnel. Both client applications are served with data by a central server. The article presents the architecture and the implementation of the software system. The technologies, tools and methods used during the development process are also described.
Recent advances in CE mediated microanalysis for enzymatic and derivatization reactions (2015)

This review gives an overview of the applications and recent advances in CE mediated microanalysis. As a continuation of earlier reviews, it covers articles published from a period of mid 2013-early 2015. The article contains three main parts. In the first part of the article, different kinds of in-line CE mediated microanalysis are briefly discussed along with relevant papers regarding in-line CE for enzyme analysis. Recent advances in on-capillary derivatization reactions and immobilized enzyme reactors (IMERs) have been summarized along with their purpose and relevance in the second and third part of the paper, respectively.
Site-Specific Phosphorylation Profiling of Arabidopsis Proteins by Mass Spectrometry and Peptide Chip Analysis (2008)

An estimated one-third of all proteins in higher eukaryotes are regulated by phosphorylation by protein kinases (PKs). Although plant genomes encode more than 1000 PKs, the substrates of only a small fraction of these kinases are known. By mass spectrometry of peptides from cytoplasmic- and nuclear-enriched fractions, we determined 303 in vivo phosphorylation sites in Arabidopsis proteins. Among 21 different PKs, 12 were phosphorylated in their activation loops, suggesting that they were in their active state. Immunoblotting and mutational analysis confirmed a tyrosine phosphorylation site in the activation loop of a GSK3/shaggy-like kinase. Analysis of phosphorylation motifs in the substrates suggested links between several of these PKs and many target sites. To perform quantitative phosphorylation analysis, peptide arrays were generated with peptides corresponding to in vivo phosphorylation sites. These peptide chips were used for kinome profiling of subcellular fractions as well as H 2O 2-treated Arabidopsis cells. Different peptide phosphorylation profiles indicated the presence of overlapping but distinct PK activities in cytosolic and nuclear compartments. Among different H 2O 2-induced PK targets, a peptide of the serine/arginine-rich (SR) splicing factor SCL30 was most strongly affected. SRPK4 (SR protein-specific kinase 4) and MAPKs (mitogen-activated PKs) were found to phosphorylate this peptide, as well as full-length SCL30. However, whereas SRPK4 was constitutively active, MAPKs were activated by H 2O 2. These results suggest that SCL30 is targeted by different PKs. Together, our data demonstrate that a combination of mass spectrometry with peptide chip phosphorylation profiling has a great potential to unravel phosphoproteome dynamics and to identify PK substrates.
Olfactory receptor structure prediction and classification of odor - receptor affinities (2007)

National audience
End-Use Quality of Historical and Modern Winter Wheats Adapted to the Great Plains of the United States (2022)

Improving milling and baking properties is important during wheat breeding. To determine changes in milling and baking quality of hard winter wheat, 23 adapted cultivars released in the Great Plains between 1870 and 2013 were grown in triplicate in a single location (Mead, NE, USA) over two crop years (2018 and 2019). Grain yield and kernel hardness index increased by release year (p < 0.05). The observed increase in hardness index was accompanied by a decrease in percent soft kernels (p < 0.05). Diameter and weight decreased with release year in 2019 (p < 0.05), and their standard deviation increased with the release year (p < 0.05). Flour protein content decreased with release year (p < 0.05) and dough mixing quality increased (p < 0.05). No significant relationship was found for baking property variables, but bran water retention capacity (BWRC), which is correlated with whole wheat bread quality, increased with release year (p < 0.05). In conclusion, wheat kernels have become harder but more variable in shape over a century of breeding. Mixing quality showed significant improvements, and loaf volume and firmness remained constant, even in the presence of a decrease in protein concentration. Bran quality decreased across release year, which may have implications for whole grain baking quality and milling productivity.
Electron transport and intrinsic mobility limits in two-dimensional electron gases of III-V nitride heterostructures (2001)

Electron transport studies for AlGaN/GaN two-dimensional electron gases is presented. Novel defects in the III-V nitrides are treated theoretically for two-dimensional transport. Theory of electron scattering by charged dislocation lines is presented for realistic two-dimensional electron gases. The theory lets us draw new conclusions about the nature of charges residing in the dislocation in the III-V nitrides. The theory leads to the recognition of the fact that current state of the art highest mobility values are limited intrinsically and not due to removable defects. Ways of bypassing the intrinsic limits to achieve higher mobilities are proposed.
Biphasic calcium phosphate: A comparative study of interconnected porosity in two ceramics (2007)

Interconnection, one of the main structural features of macroporous calcium-phosphate ceramics, contributes to the biological and physicochemical properties of bone substitutes. As no satisfactory method exists for evaluating this feature, analysis was performed to determine the permeability, tortuosity, and equivalent diameter of interconnecting channels, that is the parameters that appear to be representative of the way pores are linked. The testing of two ceramics with similar porosity levels revealed important differences in all three interconnection parameters. One ceramic showed poor permeability, corresponding to a small equivalent diameter for interconnecting channels in conjunction with a high tortuosity factor, while the other displayed high permeability, a large diameter for interconnecting channels, and a low tortuosity factor. The methodology used, which can be applied to the quantification of interconnection in all calcium-phosphate ceramics, constitutes the first step in a complete study of the role of this feature in cellular colonization of the ceramic, matrix dissolution, and drug release from the calcium-phosphate matrix.
<title>Analysis and modeling of fixation point selection for visual search in cluttered backgrounds</title> (2000)

Hard-to-see targets are generally only detected by human observers once they have been fixated. Hence, understanding how the human visual system allocates fixation locations is necessary for predicting target detectability. Visual search experiments were conducted where observers searched for military vehicles in cluttered terrain. Instantaneous eye position measurements were collected using an eye tracker. The resulting data was partitioned into fixations and saccades, and analyzed for correlation with various image properties. The fixation data was used to validate out model for predicting fixation locations. This model generates a saliency map from bottom-up image features, such as local contrast. To account for top-down scene understanding effects, a separate cognitive bias map is generated. The combination of these two maps provides a fixation probability map, from which sequences of fixation points were generated.
DIE ERFORSCHUNG DES MENSCHLICHEN GEHIRNS (2020)

Das menschliche Gehirn ist das komplexeste System im bekannten Universum und steht heute an der Schwelle sich selbst zu ergründen. Es werden Wege aufgezeigt, die Probleme der Subjektivität (Leib-Seele-Problem) und der Bedeutungsgenerierung als wesentliche Unterscheidungsmerkmale zu technischen Systemen der Informationsverarbeitung wissenschaftlich anzugehen. Der heute mit modernen Methoden mögliche Blick in die Arbeitsweise des menschlichen Gehirns wird nicht nur erkenntnistheoretische Fortschritte bringen, sondern auch neue Wege der Behandlung in Neurologie und Psychiatrie eröffnen. Es ist wahrscheinlich, daß die Ergebnisse der Hirnforschung im kommenden Jahrhundert zu einem neuen Menschenbild führen.
Soluble ErbB3 Levels in Bone Marrow and Plasma of Men with Prostate Cancer (2008)

The apparent correlation between higher sErbB3 levels and longer time to bone metastasis suggests that sErbB3 participates in progression in bone of prostate cancer.
The Study of a Dual-Mode Ring Oscillator (2011)

An analytical investigation of a dual-mode ring oscillator is presented. The ring oscillator is designed using a CMOS 0.18-μm technology with differential eight-stage delay cells employing auxiliary input devices. With a proper startup control, the oscillator operates in two different modes covering two different frequency bands. A nonlinear model, along with the linearization method, is used to obtain the transient and steady-state behaviors of the dual-mode ring oscillator. The analytical derivations are verified through HSPICE simulation. The oscillator operates at the frequency bands from 2-5 GHz and from 0.1-2 GHz, respectively.
Diagnosing Czech Patients with Inherited Platelet Disorders (2022)

A single-center study was conducted on 120 patients with inherited disorders of primary hemostasis followed at our hematological center. These patients presented a variety of bleeding symptoms; however, they had no definitive diagnosis. Establishing a diagnosis has consequences for the investigation of probands in families and for treatment management; therefore, we aimed to improve the diagnosis rate in these patients by implementing advanced diagnostic methods. According to the accepted international guidelines at the time of study, we investigated platelet morphology, platelet function assay, light-transmission aggregometry, and flow cytometry. Using only these methods, we were unable to make a definitive diagnosis for most of our patients. However, next-generation sequencing (NGS), which was applied in 31 patients, allowed us to establish definitive diagnoses in six cases (variants in <i>ANKRD26</i>, <i>ITGA2B</i>, and <i>F8</i>) and helped us to identify suspected variants (<i>NBEAL2</i>, <i>F2</i>, <i>BLOC1S6</i>, <i>AP3D1</i>, <i>GP1BB</i>, <i>ANO6</i>, <i>CD36</i>, and <i>ITGB3)</i> and new suspected variants (<i>GFI1B</i>, <i>FGA</i>, <i>GP1BA</i>, and <i>ITGA2B</i>) in 11 patients. The role of NGS in patients with suspicious bleeding symptoms is growing and it changes the diagnostic algorithm. The greatest disadvantage of NGS, aside from the cost, is the occurrence of gene variants of uncertain significance.
Java/DSM: A platform for heterogeneous computing (1997)

In this paper we describe a system for programming heterogeneous computing environments based upon Java and software distributed shared memory (DSM). Compared with existing approaches for heterogeneous computing, our system transparently handles both the hardware differences and the distributed nature of the system. It is therefore much easier to program. Java is a good candidate for heterogeneous programming because of its portability. Java provides the remote method invocation (RMI) mechanism for distributed computing. However, our early experience with RMI showed that the programmer must expend significant effort on such problems as data replication and the optimization of the remote interface to improve communication efficiency. Furthermore, the need for reference marshaling is not completely eliminated by RMI's effort to facilitate the sharing of linked structures between machines. A DSM system provides a shared memory abstraction over a group of physically distributed machines. It automatically handles data communication between machines and eliminates the need for the programmer to write message-passing code. A multithreaded Java program written for a single machine will require fewer changes to run on a Java/DSM combination than with RMI. We have been implementing a JDK-1.0.2 based parallel Java Virtual Machine on the TreadMarks DSM system. Our implementation includes a distributed garbage collector and supports the Java API with very few changes. In this paper we describe our motivation and the implementation, and report our early experience with programming under both RMI and DSM. © 1997 John Wiley & Sons, Ltd.
Localized High Expression of Type-A Response Regulator and Cytokinin Oxidase/dehydrogenase Genes in Relation to Forchlorfenuron-induced Changes in Flower Morphology in Torenia fournieri Lind. (2013)

Several morphological changes in flowers can be induced in torenia (Torenia fournieri L.) by applying forchlorfenuron (CPPU) to flower buds. We investigated the temporal and spatial distributions of the cytokinin response in CPPU-treated flower buds, which is indicated by type-A response regulator (RR) and cytokinin oxidase (CKX) gene expression. The quantitative real-time PCR analysis showed that the expression of both T. fournieri RR1 (TfRR1) and TfCKX5 was induced from 1 day after CPPU treatment in the sepal, petal, stamen, and pistil, and maintained at a high level until 5 days after the treatment, when the earliest morphological changes due to CPPU treatment were observed. In situ hybridization analysis showed weak expression of both genes in the stamen and pistil through all floral stages of non-treated flower buds. However, when CPPU was applied at the sepal development stage, expression of both genes was strongly induced in the abaxial side of the stamen primordia, which is the site of initiation of the wide paracorolla. When CPPU was applied during the early stage of corolla development, high expression of those genes was observed in the stamen, basal, and middle part of the petal, which is the site of initiation of the narrow paracorolla. Those high levels of expression became more strongly localized to the paracorolla initiation site once the paracorolla primordia formed. When CPPU was applied during the middle corolla development stage, strong expression of those genes was detected in the middle to apical parts of the petal, which is the site of changes in the distribution pattern of the vascular bundles and the resultant serrated margin. These results suggest that long-term elevation of cytokinin signaling caused by CPPU treatment induces changes in flower morphology, and the paracorolla and serrated margin of the petal are induced by localized high levels of cytokinin signaling at the site of those morphological changes within flower buds.
Mirizzi syndrome in an anomalous cystic duct: A case report (2007)

Mirizzi syndrome is a rare complication of gallstone disease, and results in partial obstruction of the common bile duct or a cholecystobiliary fistula. Moreover, congenital anatomical variants of the cystic duct are common, occurring in 18%-23% of cases, but Mirizzi syndrome underlying an anomalous cystic duct is an important clinical consideration. Here, we present an unusual case of type I Mirizzi syndrome with an uncommon anomalous cystic duct, namely, a low lateral insertion of the cystic duct with a common sheath of cystic duct and common bile duct.
Analysis of the DNA adducts of phenyl glycidyl ether in a calf thymus DNA hydrolysate by capillary zone electrophoresis-electrospray mass spectrometry: evidence for phosphate alkylation (1998)

Calf thymus DNA was reacted in vitro with phenyl glycidyl ether (PGE) and was hydrolysed enzymatically, to the 5'-monophosphate nucleotides using deoxyribonuclease I (DNA-ase I) and nuclease P1. The adducts were concentrated using solid phase extraction (SPE), on a polystyrene divinylbenzene copolymer in order to remove the unmodified nucleotides. The adducts could be identified using capillary zone electrophoresis-electrospray tandem mass spectrometry (CZE ES-MS/MS), using sample stacking. In addition to the base alkylated 2'-deoxynucleotides present in the DNA-hydrolysate, also phosphate alkylated 2'-deoxynucleotide adducts were identified for TMP and dAMP. An additional adduct, dUMP alkylated on the uridine moiety was found originating from the hydrolytic deamination of dCMP alkylated on N3 of the cytosine moiety. Enzymatic hydrolysis using nuclease P1 was incomplete as shown by the presence of dinucleotides alkylated on the base moiety. They were successfully hydrolysed to the corresponding 2'-deoxynucleotides by snake venom phosphodiesterase (SVP). Data are shown indicating that alkylations on the pyrimidine bases were more resistant to enzymatic hydrolysis with nuclease P1 than the purine alkylated products.
Eye movement analysis for depression detection (2013)

Depression is a common and disabling mental health disorder, which impacts not only on the sufferer but also on their families, friends and the economy overall. Despite its high prevalence, current diagnosis relies almost exclusively on patient self-report and clinical opinion, leading to a number of subjective biases. Our aim is to develop an objective affective sensing system that supports clinicians in their diagnosis and monitoring of clinical depression. In this paper, we analyse the performance of eye movement features extracted from face videos using Active Appearance Models for a binary classification task (depressed vs. non-depressed). We find that eye movement low-level features gave 70% accuracy using a hybrid classifier of Gaussian Mixture Models and Support Vector Machines, and 75% accuracy when using statistical measures with SVM classifiers over the entire interview. We also investigate differences while expressing positive and negative emotions, as well as the classification performance in gender-dependent versus gender-independent modes. Interestingly, even though the blinking rate was not significantly different between depressed and healthy controls, we find that the average distance between the eyelids (`eye opening') was significantly smaller and the average duration of blinks significantly longer in depressed subjects, which might be an indication of fatigue or eye contact avoidance.
Data from SMAD4 Loss in Colorectal Cancer Patients Correlates with Recurrence, Loss of Immune Infiltrate, and Chemoresistance (2023)

&lt;div&gt;AbstractPurpose:&lt;p&gt;SMAD4 has shown promise in identifying patients with colorectal cancer at high risk of recurrence or death.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Experimental Design:&lt;/b&gt; A discovery cohort and independent validation cohort were classified by SMAD4 status. SMAD4 status and immune infiltrate measurements were tested for association with recurrence-free survival (RFS). Patient-derived xenografts from SMAD4-deficient and SMAD4-retained tumors were used to examine chemoresistance.&lt;/p&gt;Results:&lt;p&gt;The discovery cohort consisted of 364 patients with stage I–IV colorectal cancer. Median age at diagnosis was 53 years. The cohort consisted of 61% left-sided tumors and 62% stage II/III patients. Median follow-up was 5.4 years (interquartile range, 2.3–8.2). SMAD4 loss, noted in 13% of tumors, was associated with higher tumor and nodal stage, adjuvant therapy use, fewer tumor-infiltrating lymphocytes (TIL), and lower peritumoral lymphocyte aggregate (PLA) scores (all &lt;i&gt;P&lt;/i&gt; &lt; 0.04). SMAD4 loss was associated with worse RFS (&lt;i&gt;P&lt;/i&gt; = 0.02). When stratified by SMAD4 and immune infiltrate status, patients with SMAD4 loss and low TIL or PLA had worse RFS (&lt;i&gt;P&lt;/i&gt; = 0.002 and &lt;i&gt;P&lt;/i&gt; = 0.006, respectively). Among patients receiving 5-fluorouracil (5-FU)-based systemic chemotherapy, those with SMAD4 loss had a median RFS of 3.8 years compared with 13 years for patients with SMAD4 retained. In xenografted mice, the SMAD4-lost tumors displayed resistance to 5-FU. An independent cohort replicated our findings, in particular, the association of SMAD4 loss with decreased immune infiltrate, as well as worse disease-specific survival.&lt;/p&gt;Conclusions:&lt;p&gt;Our data show SMAD4 loss correlates with worse clinical outcome, resistance to chemotherapy, and decreased immune infiltrate, supporting its use as a prognostic marker in patients with colorectal cancer.&lt;/p&gt;&lt;/div&gt;
Surrogate-based optimization of a morphing wingletfor flexible aircraft (2019)

Since the pioneering work by Whitcomb [1] in the mid-70’s winglets have demonstrated their capabilities to improve aircraft efficiency. However, they are fixed devices and optimized for certain flight conditions. This paper investigates the opportunity to make these wing
extensions active to control aircraft performances along the flight. To assess the efficiency of
such a technology, high-fidelity computations coupling aerodynamics and structural mechanics
disciplines are used. Surrogate models are built to speed-up the optimization process. Multiobjective and gradient-free algorithms are used to search the optimal winglet shape in cruise
condition and the optimal winglet deflection along the mission with block fuel minimization as
objective. The capability of active winglets to control the wing shape and particularly the twist
is demonstrated. It is also highlighted that the wing flexibility is a key driver of the efficiency
of active winglets and must be considered to assess the performances of morphing devices.
This document shows that depending on the baseline choice the gains can be quadrupled if the
stiffness is neglected.
Hydroxydenitration by a Nef-type process; the more general case (1976)

With CN– anions in dipolar aprotic solvents 2- and 4-nitroisophthalonitriles yield 2- and 4-hydroxy-iso-phthalonitriles through an induced Nef-type disruption of the nitro-group; halide ions (Br– and I–) under the same conditions yield 5-halogeno-2-hydroxy- and 5-halogeno-4-hydroxy-isophthalonitrile, respectively.