gebhart/patrepeval huggingface dataset:
Computationally efficient approach to three-dimensional point cloud reconstruction from video image sequences (2014)

This paper presents a computationally efficient solution to three-dimensional point cloud reconstruction from video image sequences that are captured by a hand-held camera. Our solution starts with a frame selection step to remove frames that cause physically nonrealizable reconstruction outcomes. Then, a computationally efficient approach for obtaining the absolute camera pose is introduced based on pairwise relative camera poses. This is followed by a computationally efficient rotation registration to update the absolute camera pose. The reconstruction results obtained based on actual video sequences indicate lower computation times and lower reprojection errors of the introduced approach compared to the conventional approach.
Noninvasive Prediction of Graft-Verus-Host Disease Following Allogeneic Hematopoietic Cell Transplantation by Gene Expression Profiling (2011)

Chronic graft-versus-host disease (cGvHD) and immunosuppressive medications for its treatment result in significant morbidity and mortality, limiting the benefit of allogeneic hematopoietic cell transplantation (HCT). A noninvasive, diagnostic and prognostic test is needed to determine which patients have active cGvHD at present and which subset will have active cGvHD in the future. We performed peripheral blood gene expression profiling to identify transcriptional biomarkers that discriminate active cGvHD requiring immunosuppression. 63 patients (median age 50 yrs;19-64) following allogeneic HCT (median 475 days post) on an IRB approved protocol. Samples were randomly selected into a training set (23 cGvHD/19 without cGvHD) and test set (12 cGvHD/9 without cGvHD) and processed on the Agilent platform. AILUN, GeneSpring, SAM, and PAM were used to select a minimum gene-set (FDR < 5%) to predict cGvHD in the training set. Patient characteristics in the two groups were collected for confounder/interaction analysis across the following parameters: age, gender, disease histology, disease status at HCT, graft source, conditioning regimen, white blood count (WBC) at sample, and follow-up status including relapse and survival. Type, grade, and activity of acute GvHD and cGvHD at time of sample and at most recent follow-up were determined by two independent investigators by standard clinical criteria. There is considerable heterogeneity among cGvHD patients, not attributable to confounding factors, suggesting molecular heterogeneity in the development and progression of cGvHD. A minimum of 10 unique genes selected from SAM and PAM predict active cGvHD at the time of the sample with 95% sensitivity and 78% specificity in the training set, and 75% sensitivity and 78% specificity in the test set. Eight and four of ten genes are enriched in NK and CD4 T cells, respectively, and involved in the IL-10 signaling pathway (p < 0.01). The 10 gene-set predicted the active cGvHD at last follow-up (median 849 days post) with 85% sensitivity and 83% specificity. Peripheral blood gene-expression across a 10 gene-set shows strong correlation of the predictive probability of cGvHD. Given reasonable diagnostic accuracy and sensitivity for prediction of future cGvHD, additional longitudinal studies of this cohort and a prospective cohort are underway to further improve the accuracy of this approach and predictive power of this gene-set.
Real-Time Measurement of Multi-Component Velocity Vectors Within Abdominal Aortic Aneurysms Using Echo PIV: Comparison of In Vitro and Computational Results (2007)

Abdominal aortic aneurysms (AAAs) are localized balloon-shaped expansions commonly found in the infrarenal segment of the abdominal aorta, between the renal arteries and the iliac bifurcation. Abdominal aortic aneurysm rupture has been estimated to occur in as much as 3%–9% of the population, and represents the 13th leading cause of death in the United States, producing more than 10,000 deaths annually [1]. Thus, determining the significant factors for aneurysm growth and rupture has become an important clinical goal. From a biomechanical standpoint, AAA rupture risk is related to certain mechanical and hemodynamic factors such as localized flow fields and velocity patterns, and flow-induced stresses within the fluid and in the aneurysm structure [2]. Disturbed flow patterns at different levels have also been found to trigger responses within medial and adventitial layers by altering intercellular communication mechanisms. Thus, localized hemodynamics proximal, within and distal to AAA formations play an important role in modulating the disease process, and non-invasive and easy-to-implement methods to characterize and quantify these complex hemodynamics would be tremendously useful.
Role of Side‐Chain Hydroxyl Groups in Pyrolytic Reaction of Phenolic β‐Ether Type of Lignin Dimer (2007)

Abstract Role of side‐chain hydroxyl groups in pyrolytic reaction of phenolic β‐ether type of lignin dimer was studied with several regiospecifically methylated dimers under the pyrolysis conditions (N2/400°C/1 min). Methylation of both Cα‐ and Cγ‐hydroxyl groups reduced the Cβ‐O cleavage reactivity up to the level of the non‐phenolic type. To maintain the high reactivity of guaicylglycerol‐β‐guaiacyl ether, at least one hydroxyl group was required in the side‐chain. These results indicate that one hydroxyl group at Cα‐ or Cγ‐position acts as a hydrogen donor during pyrolysis. Influence on the product formation also indicated that the hydrogen bond types affect the reaction sequences between the Cγ‐elimination followed by the Cβ‐O cleavage and the Cβ‐O cleavage via quinone methide intermediate.
Chemical Synthesis of Glycoproteins with the Specific Installation of Gradient‐Enriched 15N‐Labeled Amino Acids for Getting Insights into Glycoprotein Behavior (2017)

Elucidating the effects of oligosaccharides on glycoprotein properties, such as local conformational changes, stability, and dynamics, has still been challenging. In this paper, a novel partial <sup>15</sup> N-labeling method for the amide backbone of a synthetic glycoprotein is proposed. Using solid-phase peptide synthesis (SPPS) and native chemical ligation (NCL), thirteen <sup>15</sup> N-labeled amino acids were inserted at specific positions of the protein backbone, while intentionally varying the enrichment of <sup>15</sup> N atoms. This idea discriminated even the same type of amino acid based on the intensities of <sup>1</sup> H-<sup>15</sup> N HSQC signals, combined with classic homonuclear TOCSY and NOESY methods, thus allowing for understanding the dynamics of the local conformation of a synthetic homogeneous glycoprotein. Results suggested that the attachment of an oligosaccharide of either a bi-antennary complex-type or a high-mannose-type did not disturb protein conformation. However, T<sub>1</sub> values suggested that the oligosaccharide influenced dynamics at the local conformation. Temperature-varied circular dichroism (CD) spectra and T<sub>1</sub> values clearly indicated that oligosaccharides appeared to inhibit protein fluctuation or, in other words, stabilize protein structure. This insight into oligosaccharide behavior suggests some further effects on binding affinity between a glycoprotein and its receptor.
Novel Heterocyclic Thyromimetics. Part 2. (2007)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract, please click on HTML or PDF.
13C and 15N solid-state MAS NMR study of the conversion of methanol and ammonia over H-RHO and H-SAPO-34 microporous catalysts (1998)

13 C and 15N MAS NMR have been used to study the conversion of methanol and ammonia over H-SAPO-34 and H-RHO usingsealed glass ampoules as microreactors under static batch conditions. The product peaks were well resolved in the 13C NMRspectra whereas the 15N NMR spectra gave only a single broad peak making it impossible to follow the reaction by observing this nucleus. Both catalysts give the tetramethyammonium cation whereas only zeolite H-RHO produces the monomethylammonium cation.
High temperature polymer research at NASA Langley (1979)

Toughness properties of existing and modified resins were investigated for adhesive and matrix resin applications. Crosslinking systems, scale-up and screening, and the stability and processability of matrix resins were also investigated.
Sill Crazy—After All These Years (2018)

This is a survey of design and construction practices of window and door installations after 17 years of ASTM E2112—Standard Practice for Installation of Exterior Windows, Doors, and Skylights as the nationally recognized, consensus reference. Design professionals have the opportunity to avoid liability for leaky buildings following sound (but often ignored) drainage principles, avoiding common design mistakes, and including simple but basic specification requirements. The focus on window and door opening sill pan flashing options will illustrate critical problem conditions and provide examples for detailed solutions to avoid moisture problems. Examples of various sheet metal sill pan flashings will be used to show design principles, detailing recommendations, and specifications for fenestration installations with different water resistive barriers and cladding types.
Magnetic Field Measurement and Compensation in the Recycler Electron Cooler (2006)

Cooling of 8.9‐GeV/c antiprotons in the Recycler Electron Cooler requires a round 4.34‐MeV electron beam with a small angular spread propagating through a 20‐m long cooling section. To confine the electron beam tightly and to keep its total transverse angles below 0.2 mrad the cooling section is immersed in a solenoidal field of 50–200 G. The field was measured with a compass‐based sensor (transversal) and a hall‐probe (longitudinal) after installation of the solenoids into the Recycler tunnel. For the field strength of 105 G, the transverse field components were compensated to the level that provided corresponding dipole beam oscillations below 0.1 mrad, which in turn allowed the first cooling of antiprotons in the GeV energy range. This paper discusses the field measurements and compensation scheme including the results of dipole oscillation measurements.
Current Orthopaedic Surgeon Use of Bioresorbable Beads for Antibiotic Delivery (2020)

Current orthopedic foot and ankle surgery involves frequent patient issues of soft-tissue infection and osteomyelitis, the treatment of which often involves both systemic and local antibiotics. Treatment options have advanced over the past 25 years from antibiotics in polymethylmethacrylate beads to antibiotics in resorbable carriers such as calcium sulfate and calcium phosphate. Current preference is the use of vancomycin and gentamycin mixed in with a calcium sulfate powder that crystalizes in a standard fashion to beads. The newer generation of antibiotic beads offers reliable elution of antibiotics and slow resorption of carriers. Prior beads, mixed with a different calcium sulfate, produced beads that delivered antibiotics but with significant drainage for weeks after implantation. While some of the information about these bead formulations is public, standards for bead composition, crystalline structure, elution, and resorption have yet to be developed. The various antibiotics may have profound effects on the beads as well. Current use of antibiotic calcium sulfate beads includes intraoperative implantation into bone or soft-tissue voids, or both. The time frame for observation and repeat implantation remains a clinical decision. The beads have also enjoyed use in our offices for placement in postoperative wound infections or minor wound dehiscence. This “off-label” use of antibiotic beads has significantly reduced the need for reoperation and has treated many minor infections in a major orthopedic foot and ankle training program. Such treatments are difficult subjects for academic papers given the various clinical presentations, but certainly a better understanding of the physical properties of the antibiotic beads would be helpful in guiding clinical practice. In addition, as other companies produce new formulations, physicians need a method of comparison.
Al-2.89 Pattern Collapse (2021)

As increasingly smaller molecular materials and material structures are devised or developed for technological applications, the demands on the processes of lithography now routinely include feature sizes that are of the order of 10 nm. In reaching such a fine level of resolution, the methods of lithography have increased markedly in sophistication and brought into play 2terminology that is unfamiliar, on the one hand, to scientists tasked with the development of new lithographic materials or, on the other, to the engineers who design and operate the complex equipment that is required in modern-day processing. Publications produced by scientists need to be understood by engineers and vice versa, and these commonly arise from collaborative research that draws heavily on the terminology of two or more of the traditional disciplines. It is developments in polymer science and material science that lead progress in areas that cross traditional boundaries, such as microlithography. This document provides the exact definitions of a selection of unfamiliar terms that researchers and practitioners from different disciplines might encounter.
Changes in Gene and microRNA Expression with Progression of Emphysematous Destruction in COPD. (2009)

Rationale: To gain insights into the molecular processes that contribute to the progression of COPD, we used resected whole lungs from individuals undergoing lung transplantation for severe COPD to identify gene and microRNA expression between regions of the same lungs exhibiting increasingly severe COPD pathologies. Methods: Explanted lungs from 6 GOLD 4 COPD and 2 donor (control) patients were inflated to TLC, frozen in liquid N2 fumes, examined by HRCT, and cut into 2cm thick slices from apex to base. Frozen tissue cores (D=8mm, n=8 cores/lung) were removed from each lung, fixed and scanned at 16μm resolution in a GE μCT specimen scanner to measure mean linear intercept (Lm). One μg of RNA was extracted from adjacent non−fixed cores and analyzed on the Genechip Human Exon 1.0 ST arrays measuring >17,000 core transcripts. 400ng of 600 human microRNA. Genes and microRNAs that varied as a function of Lm were identified using mixed−model ANOVA. Results: Lm ranged from 250−450um in control lungs and from 250−1450um in COPD lungs. We identified 110 genes and 40 microRNAs whose expression levels associate with Lm after controlling for lung position and patient effects (FDR< 0.1) and 763 genes associated with lung position (FDR<0.1). Conclusion: These studies have identified genes and microRNA whose expression varies with progressive emphysematous destruction and suggest physiological processes and regulatory networks associated with COPD progression. J.C. Hogg, A. Spira, and M. Lenburg contributed equally as senior authors.
Diphenylene Iodonium Inhibits the Induction of Erythropoietin and Other Mammalian Genes by Hypoxia (1995)

Recent studies on the induction of erythropoietin gene expression by hypoxia have indicated that erythropoietin forms part of a widely operative system of gene regulation by oxygen. Similar responses to hypoxia, cobaltous ions and desferrioxamine have indicated that the action of these agents is closely connected with the mechanism of oxygen sensing. To consider further the mechanisms underlying these responses, the effect of iodonium compounds was tested on five genes which show oxygen-regulated expression; erythropoietin, vascular endothelial growth factor (VEGF), lactate dehydrogenase-A (LDH-A), glucose transporter-1 (GLUT-1) and placental growth factor (PLGF). In each case, the response to hypoxia was specifically inhibited by low doses of diphenylene iodonium (Ph1I+). This occurred irrespective of whether the hypoxic response was induction of gene expression (erythropoietin, vascular endothelial growth factor, lactate dehydrogenase-A, glucose transporter-1) or inhibition of gene expression (PLGF). In contrast, the induction of gene expression by cobaltous ions or desferrioxamine was not inhibited by Ph2I+. The differential action of Ph2I+ on the response to hypoxia versus the response to cobaltous ions or desferrioxamine must reflect a difference in the mechanism of action of these stimuli, which will require accommodation in any model of the oxygen-sensing mechanism. Based on the known properties of Ph2I+, the implication of these findings is that the mechanism of oxygen sensing most probably involves the operation of a flavoprotein oxidoreductase.
Government procurement: An opportunity for energy efficiency (1997)

This panel presents information on four approaches to energy-efficient procurement: the Federal Procurement Challenge, the Energy-Efficient Procurement Collaborative, the ENERGY STAR program, and Green Seal. To provide a context for these presentations, the authors present an overview and background on the significance of and recent trends in government procurement. In the United States, the combined annual expenditures by the Federal government for energy-consuming equipment and appliances have been estimated at $10-$20 billion. The Energy Policy Act of 1992 and Executive Order 12902 direct Federal agencies to exercise leadership as the world`s largest customer to promote the purchase of energy-efficient, renewable energy, and water conserving products. The Department of Energy`s Federal Energy Management Program, through the Federal Procurement Challenge, offers Federal agencies the opportunity to coordinate these purchasing activities through a broad-based program that also links efforts at the Federal level with state and local purchasing. The Challenge is designed to use the buying power of the Federal government to: support and expand markets for today`s `best practice` energy-efficient, renewable energy, and water-conserving products; create new entry markets for advanced energy-saving technologies and products; and lower the cost of efficient products for all consumers by providing a large, reliable market. Othermore » program objectives include: reducing operating costs for Federal agencies; reducing Federal energy use and greenhouse gas emissions; and providing a model for other levels of government, corporate, and institutional purchasers. Purchases of energy-related products by state and local governments are estimated at 3-4 times those of the entire Federal market. The multi-state Energy-Efficient Procurement Collaborative affords state and local governments the opportunity to share information and technical information on energy-efficient purchasing.« less
Fixed-point frequency measurements of an intracavity etalon-based coupled optoelectronic oscillator (2008)

The comb dynamics of an etalon-based coupled optoelectronic oscillator are determined in terms of fixed-point frequencies. These measurements result in a stabilization scheme where changes to the optoelectronic phase and the laser cavity are decoupled.
Lime (2010)

The halt in clock frequency scaling has forced architects and language designers to look elsewhere for continued improvements in performance. We believe that extracting maximum performance will require compilation to highly heterogeneous architectures that include reconfigurable hardware.
Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily (2004)

Agmatine is the product of arginine decarboxylation and can be hydrolyzed by agmatinase to putrescine, the precursor for biosynthesis of higher polyamines, spermidine, and spermine. Besides being an intermediate in polyamine metabolism, recent findings indicate that agmatine may play important regulatory roles in mammals. Agmatinase is a binuclear manganese metalloenzyme and belongs to the ureohydrolase superfamily that includes arginase, formiminoglutamase, and proclavaminate amidinohydrolase. Compared with a wealth of structural information available for arginases, no three-dimensional structure of agmatinase has been reported. Agmatinase from Deinococcus radiodurans, a 304-residue protein, shows approximately 33% of sequence identity to human mitochondrial agmatinase. Here we report the crystal structure of D. radiodurans agmatinase in Mn(2+)-free, Mn(2+)-bound, and Mn(2+)-inhibitor-bound forms, representing the first structure of agmatinase. It reveals the conservation as well as variation in folding, oligomerization, and the active site of the ureohydrolase superfamily. D. radiodurans agmatinase exists as a compact homohexamer of 32 symmetry. Its binuclear manganese cluster is highly similar but not identical to the clusters of arginase and proclavaminate amidinohydrolase. The structure of the inhibited complex reveals that inhibition by 1,6-diaminohexane arises from the displacement of the metal-bridging water.
A completely transformation-defective point mutant of polyomavirus middle T antigen which retains full associated phosphatidylinositol kinase activity (1990)

By using a random mutagenesis procedure combined with a recombinant retrovirus vector, mutants of polyomavirus middle T antigen (MTAg) were generated. Three new MTAg mutants with various degrees of transformation competence were more thoroughly characterized. All of the mutants produced a stable MTAg, as assessed by metabolic labeling or immunoblotting, and each mutant possessed wild-type levels of associated tyrosine kinase activity and associated phosphatidylinositol-3 (PI-3) kinase activity. One of these mutants, with a substitution of leucine for proline at amino acid 248 of MTAg (248m) was completely transformation defective, as measured in a focus-forming assay. Furthermore, the pattern of phosphorylation of 248m in vivo was identical to that of wild-type MTAg, and the kinetics of association of MTAg with an 85-kilodalton protein, the putative PI kinase, was not altered. Similarly, the pattern of PI derivatives obtained in an in vitro kinase assay was not altered by the substitution at amino acid 248. Since the single base pair mutation at amino acid 248 resulted in an MTAg that was completely transformation defective despite possessing wild-type levels of kinase activities, this suggests that neither tyrosine kinase nor PI-3 kinase activity nor the combination of both are sufficient for transformation by MTAg.
Multiphoton excited hemoglobin fluorescence and third harmonic generation for non-invasive microscopy of stored blood (2016)

Red blood cells (RBC) in two-photon excited fluorescence (TPEF) microscopy usually appear as dark disks because of their low fluorescent signal. Here we use 15fs 800nm pulses for TPEF, 45fs 1060nm pulses for three-photon excited fluorescence, and third harmonic generation (THG) imaging. We find sufficient fluorescent signal that we attribute to hemoglobin fluorescence after comparing time and wavelength resolved spectra of other expected RBC endogenous fluorophores: NADH, FAD, biliverdin, and bilirubin. We find that both TPEF and THG microscopy can be used to examine erythrocyte morphology non-invasively without breaching a blood storage bag.
Hamming-weight constrained coded arrays based on covering codes (2013)

We present a framework based on covering codes over the set of binary n-words for coding data into n × n binary arrays with a prescribed upper bound on the Hamming weight (i.e., number of 1's) in each row and column. We obtain previously presented schemes for the case when the upper bound is n/2 as special cases of this framework and we study also another potentially practically relevant specialization when the underlying covering code is the first-order Reed-Muller code. Like the previous schemes for the n/2 case, the proposed framework and schemes may have applications in improving the performance of a next-generation memory based on programmable resistive devices arranged in a crossbar architecture.