gebhart/patrepeval huggingface dataset:
Pinene‐Derived Monodentate Phosphoramidites for Asymmetric Hydrogenation (2015)

Abstract Phosphoramidite ligands based on pinene‐derived chiral amines have been prepared by a straightforward procedure in good yields. The key step of the synthetic protocol is a stereoselective hydrogenation of annulated pinene–pyridine derivatives leading to (diastereoisomeric) secondary amines that were separated and treated with different chlorophosphites to yield the envisaged phosphoramidites. The absolute configurations of the ligands were assigned on the basis of NMR analyses and corroborated by X‐ray diffraction analysis of a borane adduct of a typical ligand. The new ligands were employed in the asymmetric hydrogenation of imines and olefins. The iridium‐catalyzed hydrogenation of imines provided up to 81 % ee , whereas in the rhodium‐catalyzed hydrogenation of functionalized olefins enantioselectivities of up to 99 % ee were achieved. In this particular application, the different chiral elements of the ligand structure led to synergistic effects and the enantioselectivity is dominated by the chiral diol moiety.
Using Sunlight for Affordable Indoor Illumination (2011)

Emerging technologies make it practical to affordably deliver sunlight deep into buildings to deliver energy-efficient, high quality natural illumination whenever the sun shines. Cost-effectiveness is achieved using moderate sunlight concentration ratios and hollow distribution guides.
Serial Femtosecond Crystallography of G Protein–Coupled Receptors (2013)

X-ray crystallography of G protein-coupled receptors and other membrane proteins is hampered by difficulties associated with growing sufficiently large crystals that withstand radiation damage and yield high-resolution data at synchrotron sources. We used an x-ray free-electron laser (XFEL) with individual 50-femtosecond-duration x-ray pulses to minimize radiation damage and obtained a high-resolution room-temperature structure of a human serotonin receptor using sub-10-micrometer microcrystals grown in a membrane mimetic matrix known as lipidic cubic phase. Compared with the structure solved by using traditional microcrystallography from cryo-cooled crystals of about two orders of magnitude larger volume, the room-temperature XFEL structure displays a distinct distribution of thermal motions and conformations of residues that likely more accurately represent the receptor structure and dynamics in a cellular environment.
Cloning, sequencing, and secretion of Bacillusamyloliquefacienssubtillisin inBacillus subtilis (1983)

The subtilisin gene from B. amyloliquefaciens has been cloned and expressed under its own promoter on a high copy plasmid, pBS42, in Bacillus subtilis I-168 (Marburg strain). Greater than 95 percent of the expressed protease activity is secreted, and the activity is sensitive to inhibition by phenylmethylsulfonyl fluoride as expected for subtilisin. Bacillus subtilis transformants carrying the Bacillus amyloliquefaciens subtilisin gene in pBS42 (called pS4) secreted large amounts of a protein not seen in control pBS42 transformants. This protein migrated in SDS gels near the position of authentic subtilisin. The complete nucleotide sequence of the cloned gene has been determined using dideoxy sequencing methods. Ba131 exonuclease digestion studies at the 5' end of the gene have defined a 31 base pair stretch necessary for efficient expression of subtilisin. In addition to this putative promoter region, sequences have been assigned for ribosome binding, translation initiation, a signal peptide, the mature enzyme, and translation and transcription termination. A most interesting feature of the gene is a sequence of unknown function coding for roughly 75 amino acids between the signal sequence and the mature enzyme. It is proposed that this region serve as a pro-peptide as is commonly found in eukaryotic secreted proteases.
Determination of the branching fractions of $B_{s}^{0} \to D_{s}^{\mp} K^{\pm}$ and $B^{0} \to D_{s}^{-} K^{+}$ (2014)

Measurements are presented of the branching fractions of the decays $B_{s}^{0} \to D_{s}^{\mp} K^{\pm}$ and $B^{0} \to D_{s}^{-} K^{+}$ relative to the decays $B_{s}^{0} \to D_{s}^{-} π^{+}$ and $B^{0} \to D^{-} π^{+}$, respectively. The data used correspond to an integrated luminosity of 3.0 fb$^{-1}$ of proton-proton collisions. The ratios of branching fractions are $\dfrac{\mathcal{B}(B_{s}^{0} \to D_{s}^{\mp} K^{\pm})}{\mathcal{B}(B_{s}^{0} \to D_{s}^{-} π^{+})} = 0.0752 \pm 0.0015 \pm 0.0019$ and $\dfrac{\mathcal{B}(B^{0} \to D_{s}^{-} K^{+})}{\mathcal{B}(B^{0} \to D^{-} π^{+})} = 0.0129 \pm 0.0005 \pm 0.0008,$ where the uncertainties are statistical and systematic, respectively.
Molecular mechanisms linking diabetes mellitus and Alzheimer disease: beta-amyloidpeptide, insulin signaling, and neuronal function (2011)

The incidence of Alzheimer disease (AD) and diabetes mellitus (DM) is increasing at an alarming rate and has become a major public health concern worldwide. Recent epidemiological studies have provided direct evidence that DM is a strong risk factor for AD; this finding is now attracting attention. However, the underlying mechanisms for this association remain largely unknown. Previous in vitro and in vivo studies reported that diabetic conditions could cause an increase in the beta-amyloid peptide (Aβ) levels, which exhibits neurotoxic properties and plays a causative role in AD. However, unexpectedly, recent clinicopathological studies have shown no evidence that the pathological hallmarks of AD, including amyloid plaque, were increased in the brains of diabetic patients, suggesting that DM could affect the pathogenesis of AD through mechanisms other than modulation of Aβ metabolism. One possible mechanism is the alteration in brain insulin signaling. It has been shown that insulin signaling is involved in a variety of neuronal functions, and that it also plays a significant role in the pathophysiology of AD. Thus, the modification of neuronal insulin signaling by diabetic conditions may contribute to AD progression. Another possible mechanism is cerebrovascular alteration, a common pathological change observed in both diseases. Accumulating evidence has suggested the importance of Aβ-induced cerebrovascular dysfunction in AD, and indicated that pathological interactions between the receptor for advanced glycation end products (RAGE) and Aβ peptides may play a role in this dysfunction. Our study has provided a further understanding of the potential underlying mechanisms linking DM and AD by establishing novel mouse models showing pathological manifestations of both diseases. The current review summarizes the results from recent studies on the pathological relationship between DM and AD while focusing on brain insulin signaling and cerebrovascular alteration. It also discusses the therapeutic potential of these findings and future treatment strategies for AD.
Simulation of Ionic Aggregation and Ion Dynamics in Model Ionomers (2012)

Abstract not provided.
A soft computing approach to the metabolic modeling (2002)

The identification of metabolic systems such as metabolic pathways, enzyme actions and gene regulations, is a complex task, due to the complexity of the system and limited knowledge about the model. In the past, mathematical equations and ODEs have been used to capture the structure of the model, and conventional optimization techniques have been used to identify the parameters of the model. In general, however, a pure mathematical formulation of the model is difficult, due to parametric uncertainty and incomplete knowledge of mechanisms. In this paper, we propose a modeling approach that uses (1) a fuzzy rule-based model to augment algebraic enzyme models that are incomplete, and (2) a hybrid genetic algorithm (GA) to identify uncertain parameters in the model. The hybrid GA integrates a GA with the simplex method in functional optimization to improve the GA's convergence rate. We have applied this approach to modeling the rate of enzyme reactions in E. coli's central metabolism. The proposed modeling strategy allows (1) easy incorporation of qualitative insights into a pure mathematical model and (2) adaptive identification and optimization of key parameters to fit the system behaviors observed in biochemical experiments.
Foreword to the Special Section on the IST 2006 IEEE International Workshop on Imaging Systems and Techniques (2009)

The nine papers in this special section were originally presented at the IEEE International Imaging Systems and Techniques Workshop (IST 2006), held in Minori, Italy, on April 28-29, 2006.
SpecTrans (2015)

Surface and object recognition is of significant importance in ubiquitous and wearable computing. While various techniques exist to infer context from material properties and appearance, they are typically neither designed for real-time applications nor for optically complex surfaces that may be specular, textureless, and even transparent. These materials are, however, becoming increasingly relevant in HCI for transparent displays, interactive surfaces, and ubiquitous computing. We present SpecTrans, a new sensing technology for surface classification of exotic materials, such as glass, transparent plastic, and metal. The proposed technique extracts optical features by employing laser and multi-directional, multi-spectral LED illumination that leverages the material's optical properties. The sensor hardware is small in size, and the proposed classification method requires significantly lower computational cost than conventional image-based methods, which use texture features or reflectance analysis, thereby providing real-time performance for ubiquitous computing. Our evaluation of the sensing technique for nine different transparent materials, including air, shows a promising recognition rate of 99.0%. We demonstrate a variety of possible applications using SpecTrans' capabilities.
Allogeneic bone marrow transplantation following busulfan‐cyclophosphamide with or without etoposide conditioning regimen for patients with acute lymphoblastic leukaemia (1993)

We have investigated the feasibility and efficacy of administering a radiation-free preparative regimen in the setting of allogeneic bone marrow transplantation (BMT) in 40 consecutive patients with acute lymphoblastic leukaemia (ALL). Busulfan (4 mg/kg/d x 4 d) and cyclophosphamide (50 mg/kg/d x 4 d) (BuCy4) were given in 29 patients and 11 received busulfan (4 mg/kg/d x 4 d), etoposide (60 mg/kg) and cyclophosphamide (60 mg/kg/d x 2 d) (BuCy+VP - 16). Median age was 22 years (range 1-50); 11 patients were children < or = 15 years of age. All children and 20 adults were at high risk of relapse pretransplant. Nine adults and one child died from transplant-related toxicity. 11 patients relapsed at a median of 11 months post-transplant (range 2-27). The 3-year Kaplan-Meier estimated probability of relapse was 42.1% and found to be significantly lower in patients with chronic GVHD (P = 0.03). 19 patients are leukaemia-free survivors with a median follow-up of 33 months (range 7-59). The Kaplan-Meier actuarial probability of disease-free survival at 3 years was 43% for all patients. 63.6% for children versus 30.2% for adults (P = 0.24) and 51.6% for patients transplanted in first remission versus 30.2% for those transplanted in subsequent remissions (P = 0.20).
Impact of Nitrogen Incorporation in SiOx/HfSiO Gate Stacks on Negative Bias Temperature Instabilities (2006)

The impact of nitridation anneal of Hf-silicates based metal-gated pMOSFETs on negative bias temperature instability (NBTI) is investigated. Non-nitrided stacks annealed in N <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> or O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2 </sub> and nitrided stacks either annealed in NH <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> or exposed to decoupled plasma nitridation (DPN) are measured. For non-nitrided stacks, NBT degradation is mainly due to fast-states generation. A much enhanced NBT degradation is observed, in nitrided stacks due to the additional generation of slow states. 10 years lifetime are not reached in the nitrided stacks. A physical model, based on the field enhanced hole trapping in the dielectric during NBTI stress, is proposed to simulate slow-states generation
119 – C1 LATERAL MASS SCREW FIXATION IN CHILDREN: INDICATIONS, OUTCOMES, AND TECHNIQUE IN 11 CONSECUTIVE PATIENTS (2011)

Purpose: Upper cervical spine stabilization in children can be challenging due to anatomic abnormalities such as incomplete posterior elements, vertebral artery variability and small patient size. Several techniques have been described for stabilization of the upper cervical spine, each with its own advantages and disadvantages. Since the introduction of the technique by Harms, many authors have shown C1 lateral mass screws to be safe and effective in the stabilization of the upper cervical spine in adults. No large series of paediatric C1 lateral mass screw fixation has been reported in the literature. The purpose of this study was to describe the indications, technique, and outcomes of C1 lateral mass screw fixation in a consecutive series of 11 paediatric patients. Method: A database generated retrospective review of all patients who underwent C1 lateral mass screw fixation as part of an upper cervical spine stabilization construct was performed. In all patients the C2 dorsal root ganglion was sacrificed. Patient demographics and clinical outcomes were obtained through chart review. Radiographs immediately post-operatively, at six-weeks, three-months, and final follow-up were reviewed. Results: Eleven consecutive paediatric patients underwent bilateral C1 lateral mass screw fixation for a variety of conditions including C1-C2 instability, deformity, congenital malformation, trauma, as well as revision surgery. The average age was 10 years (range 4 to 16 years) with a mean follow-up of 11 months (range 6 – 18 months). There were no iatrogenic vertebral artery, hypoglossal nerve or spinal cord injuries. All 11 patients had solid fusion clinically and radiographically, with no loss of fixation. The C2 dorsal root ganglion was sacrificed in all patients with resulting minor occipital parasthaesia that progressively diminished in severity. Conclusion: This is the largest series of consecutive patients reported in the literature to date showing that the technique is safe and effective, with acceptable morbidity when applied to the paediatric population. We believe that C1 lateral mass screws offer significant advantages over traditional fixation techniques when the C1 vertebra is to be included in an upper cervical instrumented construct.
Algorithmic Vibe in Information Retrieval (2023)

When information retrieval systems return a ranked list of results in response to a query, they may be choosing from a large set of candidate results that are equally useful and relevant. This means we might be able to identify a difference between rankers A and B, where ranker A systematically prefers a certain type of relevant results. Ranker A may have this systematic difference (different “vibe”) without having systematically better or worse results according to standard information retrieval metrics. We first show that a vibe difference can exist, comparing two publicly available rankers, where the one that is trained on health-related queries will systematically prefer health-related results, even for non-health queries. We define a vibe metric that lets us see the words that a ranker prefers. We investigate the vibe of search engine clicks vs. human labels. We perform an initial study into correcting for vibe differences to make ranker A more like ranker B via changes in negative sampling during training.
Changes in the plasma concentration of arginine vasotocin during oviposition in sea turtles (1987)

Due to the character of the original source materials and the nature of batch digitization, quality control issues may be present in this document. Please report any quality issues you encounter to digital@library.tamu.edu, referencing the URI of the item.
Leucovorin rescue allows effective high-dose pralatrexate treatment and an increase in therapeutic index in mesothelioma xenografts (2014)

High-dose PDX with subsequent LV rescue may be a viable treatment strategy in mesothelioma and other cancers. The inclusion of LV rescue into new and existing PDX treatment protocols should be explored as a way to expand the tolerability and effectiveness of PDX in the clinic.
Parametric Response Mapping of Bronchiolitis Obliterans Syndrome Progression After Lung Transplantation (2016)

Bronchiolitis obliterans syndrome (BOS) remains a major complication after lung transplantation. Air trapping and mosaic attenuation are typical radiological features of BOS; however, quantitative evaluation remains troublesome. We evaluated parametric response mapping (PRM, voxel-to-voxel comparison of inspiratory and expiratory computed tomography [CT] scans) in lung transplant recipients diagnosed with BOS (n = 20) and time-matched stable lung transplant recipients (n = 20). Serial PRM measurements were performed prediagnosis, at time of BOS diagnosis, and postdiagnosis (T<sub>pre</sub> , T<sub>0</sub> , and T<sub>post</sub> , respectively), or at a postoperatively matched time in stable patients. PRM results were correlated with pulmonary function and confirmed by microCT analysis of end-stage explanted lung tissue. Using PRM, we observed an increase in functional small airway disease (fSAD), from T<sub>pre</sub> to T<sub>0</sub> (p = 0.006) and a concurrent decrease in healthy parenchyma (p = 0.02) in the BOS group. This change in PRM continued to T<sub>post</sub> , which was significantly different compared to the stable patients (p = 0.0002). At BOS diagnosis, the increase in fSAD was strongly associated with a decrease in forced expiratory volume in 1 s (p = 0.011). Micro-CT confirmed the presence of airway obliteration in a sample of a BOS patient identified with 67% fSAD by PRM. We demonstrated the use of PRM as an adequate output to monitor BOS progression in lung transplant recipients.
Characterization of Supported Vanadium Oxide Catalysts. Nature of the Vanadium Species in Reduced Catalysts (2002)

The nature and redox properties of vanadium species on metal oxide supported vanadium catalysts have been studied. The calcined metal oxidesAl2O3, MgO, Mg−Al−hydrotalcite (Al/Mg = 0.33), and Mg−Al−Spinel (Al/Mg = 3.0)have been employed as supports. TPR and IR spectra of adsorbed CO show a different reducibility of the vanadium species related to the acid−base character of the metal oxide support. This is also confirmed by the EPR results of both calcined and reduced catalysts. A reduction of V5+ to the V3+ species seems to be more favored on acid metal oxides. On basic metal oxide supports, the reducibility seems to be hindered, leading preferentially to the formation of V4+, although V3+ ions are also formed at higher reduction temperatures. A shift in the carbonyl frequency of the V4+−CO and V3+−CO complexes to lower frequencies by increasing the basicity of the support could be related to an electron donor effect of the support on the electron density of the vanadium species. In addition, a higher reoxidation ability of the V4+ and V3+ species is observed on the more acidic supports than on the basic ones.
Exosomal miRNAs: Biological Properties and Therapeutic Potential (2012)

MicroRNAs (miRNAs), small non-coding regulatory RNAs that regulate gene expression at the post-transcriptional level, are master regulators of a wide array of cellular processes. Altered miRNA expression could be a determinant of disease development and/or progression and manipulation of miRNA expression represents a potential avenue of therapy. Exosomes are cell-derived extracellular vesicles that promote cell-cell communication and immunoregulatory functions. These "bioactive vesicles" shuttle various molecules, including miRNAs, to recipient cells. Inappropriate release of miRNAs from exosomes may cause significant alterations in biological pathways that affect disease development, supporting the concept that miRNA-containing exosomes could serve as targeted therapies for particular diseases. This review briefly summarizes recent advances in the biology, function, and therapeutic potential of exosomal miRNAs.
Aromatic l‐Amino Acid Decarboxylase Activity of the Rat Retina Is Modulated In Vivo by Environmental Light Maria Hadjiconstantinou (1988)

Aromatic L-amino acid decarboxylase (AAAD) activity of rat retina is low in animals placed in the dark. When the room lights are turned on, activity rises for almost 3 h and reaches values that are about twice the values found in the dark. A study of the kinetics of the enzyme revealed that the apparent Km values for L-3,4-dihydroxyphenylalanine and pyridoxal-5'-phosphate were unchanged in light- and dark-exposed animals, whereas the Vmax increased in the light. Treating the animals with cycloheximide before exposure to light prevented the increase of enzyme activity. Immunotitration with antibodies to AAAD suggested that more enzyme molecules are present in the light than in the dark. When the room lights are turned off AAAD activity drops rapidly at first and then more slowly, suggesting that at least two processes are responsible for the fall of enzyme activity. Exposure to short periods of dark followed by light results in a rapid increase of AAAD activity. Mixing homogenates from light- and dark-exposed rats results in activity values that are less than expected, suggesting the presence of an endogenous inhibitor(s). These studies demonstrate that AAAD activity is modulated in vivo.
FLAVR: Flow-Agnostic Video Representations for Fast Frame Interpolation (2023)

Most modern frame interpolation approaches rely on explicit bidirectional optical flows between adjacent frames, thus are sensitive to the accuracy of underlying flow estimation in handling occlusions while additionally introducing computational bottlenecks unsuitable for efficient deployment. In this work, we propose a flow-free approach that is completely end-to-end trainable for multi-frame video interpolation. Our method, FLAVR, leverages 3D spatio-temporal kernels to directly learn motion properties from unlabeled videos and greatly simplifies the process of training, testing and deploying frame interpolation models. As a result, FLAVR delivers up to 6× speed up compared to the current state-of-the-art methods for multi-frame interpolation while consistently demonstrating superior qualitative and quantitative results compared with prior methods on popular benchmarks including Vimeo-90K, Adobe-240FPS, and GoPro. Finally, we show that frame interpolation is a competitive self-supervised pre-training task for videos via demonstrating various novel applications of FLAVR including action recognition, optical flow estimation, and video object tracking. Code and trained models are provided in the supplementary material.