gebhart/patrepeval huggingface dataset:
The DARPA compact superconducting x-ray lithography source features. [Defense Advanced Research Projects Agency (DARPA)] (1991)

Under DARPA sponsorship, a compact Superconducting X-ray Lithography Source (SXLS) is being designed and built by the Brookhaven National Laboratory (BNL) with industry participation from Grumman Corporation and General Dynamics. This source is optimized for lithography work for sub-micron high density computer chips, and is about the size of a billiard table (1.5 m {times} 4.0 m). The machine has a racetrack configuration with two 180{degree} bending magnets being designed and built by General Dynamics under a subcontract with Grumman Corporation. The machine will have 18 photon ports which would deliver light peaked at a wave length of 10 Angstroms. Grumman is commercializing the SXLS device and plans to book orders for delivery of industrialized SXLS (ISXLS) versions in 1995. This paper will describe the major features of this device. The commercial machine will be equipped with a fully automated user-friendly control systems, major features of which are already working on a compact warm dipole ring at BNL. This ring has normal dipole magnets with dimensions identical to the SXLS device, and has been successfully commissioned. 4 figs., 1 tab.
3D Line Mapping Revisited (2023)

In contrast to sparse keypoints, a handful of line segments can concisely encode the high-level scene layout, as they often delineate the main structural elements. In addition to offering strong geometric cues, they are also omnipresent in urban landscapes and indoor scenes. Despite their apparent advantages, current line-based reconstruction methods are far behind their point-based counterparts. In this paper we aim to close the gap by introducing LIMAP, a library for 3D line mapping that robustly and efficiently creates 3D line maps from multi-view imagery. This is achieved through revisiting the degeneracy problem of line triangulation, carefully crafted scoring and track building, and exploiting structural priors such as line coincidence, parallelism, and orthogonality. Our code integrates seamlessly with existing point-based Structure-from-Motion methods and can leverage their 3D points to further improve the line reconstruction. Furthermore, as a byproduct, the method is able to recover 3D association graphs between lines and points / vanishing points (VPs). In thorough experiments, we show that LIMAP significantly outperforms existing approaches for 3D line mapping. Our robust 3D line maps also open up new research directions. We show two example applications: visual localization and bundle adjustment, where integrating lines alongside points yields the best results. Code is available at https://github.com/cvg/limap.
Pluraflavins, Potent Antitumor Antibiotics from Saccharothrix sp. DSM 12931. (2001)

The new pluramycin-type antibiotics pluraflavin A, C43H54N2O14, pluraflavin B, C43H56N2O15, and pluraflavin E, C36H41NO14 were isolated from cultures of the Saccharothrix species DSM 12931. The structures of the novel compounds were elucidated with the aid of 2D NMR and mass spectrometric investigations. The characteristic structural element of pluraflavins A and B is an additional 4-epi-vancosamine unit at position 13 of the anthraquinone-gamma-pyrone ring system. Pluraflavin E has a carboxyl group in this position. Pluraflavin A has a reactive dimethyl epoxide side chain at position 2 of the anthraquinone-gamma-pyrone aglycon, which may explain the high activity of the antibiotic. The outstanding biological characteristic of pluraflavin A is its powerful, organ-dependent cytostatic action: the IC50 in the colon carcinoma proliferation assay is in the subnanomolar range.
Isochoric supercooled preservation and revival of human cardiac microtissues (2021)

Low-temperature biopreservation and 3D tissue engineering present two differing routes towards eventual on-demand access to transplantable biologics, but recent advances in both fields present critical new opportunities for crossover between them. In this work, we demonstrate sub-zero centigrade preservation and revival of autonomously beating three-dimensional human induced pluripotent stem cell (hiPSC)-derived cardiac microtissues via isochoric supercooling, without the use of chemical cryoprotectants. We show that these tissues can cease autonomous beating during preservation and resume it after warming, that the supercooling process does not affect sarcomere structural integrity, and that the tissues maintain responsiveness to drug exposure following revival. Our work suggests both that functional three dimensional (3D) engineered tissues may provide an excellent high-content, low-risk testbed to study complex tissue biopreservation in a genetically human context, and that isochoric supercooling may provide a robust method for preserving and reviving engineered tissues themselves.
Strategies for Effective Use of Genomic Information in Crop Breeding Programs Serving Africa and South Asia (2020)

Much of the world's population growth will occur in regions where food insecurity is prevalent, with large increases in food demand projected in regions of Africa and South Asia. While improving food security in these regions will require a multi-faceted approach, improved performance of crop varieties in these regions will play a critical role. Current rates of genetic gain in breeding programs serving Africa and South Asia fall below rates achieved in other regions of the world. Given resource constraints, increased genetic gain in these regions cannot be achieved by simply expanding the size of breeding programs. New approaches to breeding are required. The Genomic Open-source Breeding informatics initiative (GOBii) and Excellence in Breeding Platform (EiB) are working with public sector breeding programs to build capacity, develop breeding strategies, and build breeding informatics capabilities to enable routine use of new technologies that can improve the efficiency of breeding programs and increase genetic gains. Simulations evaluating breeding strategies indicate cost-effective implementations of genomic selection (GS) are feasible using relatively small training sets, and proof-of-concept implementations have been validated in the International Maize and Wheat Improvement Center (CIMMYT) maize breeding program. Progress on GOBii, EiB, and implementation of GS in CIMMYT and International Crops Research Institute for the Semi-Arid Tropics (ICRISAT) breeding programs are discussed, as well as strategies for routine implementation of GS in breeding programs serving Africa and South Asia.
Azimuthal Charged-Particle Correlations and Possible Local Strong Parity Violation (2009)

Parity-odd domains, corresponding to nontrivial topological solutions of the QCD vacuum, might be created during relativistic heavy-ion collisions. These domains are predicted to lead to charge separation of quarks along the system's orbital momentum axis. We investigate a three-particle azimuthal correlator which is a P even observable, but directly sensitive to the charge separation effect. We report measurements of charged hadrons near center-of-mass rapidity with this observable in Au + Au and Cu + Cu collisions at square root of s(NN) = 200 GeV using the STAR detector. A signal consistent with several expectations from the theory is detected. We discuss possible contributions from other effects that are not related to parity violation.
<title>ESI: a new spectrograph for the Keck II telescope</title> (1997)

The ESI (echellette spectrograph and imager) is a multi-mode Cassegrain spectrograph currently funded and under construction at UCO/Lick Observatory for the Keck II telescope. The ESI instrument has three modes. The 170.0-mm collimated beam can be sent directly into the camera for imaging, through a prism disperser, or to an echellette grating with prism cross-dispersion. An all-refracting Epps camera and a single 2 K by 4 K detector are used for all three modes. The direct-imaging mode has a 2.0 multiplied by 8.0- arcmin field of view with 0.15-arcsec pixels. Filters may be placed either near the focal surface of the telescope or in the parallel beam, and the option of a future upgrade including a Fabry-Perot at the pupil image is available. The low-dispersion prism-only mode has a dispersion of 50 to 300 km/sec/pix, depending on wavelength, and this mode can be used with a 8.0-arcmin long slit or in a multi-slit mode with user- made slit-masks. The high-dispersion echellette mode gives the entire spectrum from 0.39 to 1.09 microns with a 20.0-arcsec slit length in a single exposure, with a dispersion of 9.6 to 12.8 km/sec/pix.
A drug‐resistant variant of topoisomerase IIα in human HL‐60 cells exhibits alterations in catalytic pH optimum, DNA binding and sub‐nuclear distribution (1993)

Anion-exchange chromatography of partially purified human HL-60 topoisomerase II resolves the known alpha (170 kDa) and beta (180 kDa) isoenzymes at 150 mM NaCl and 230 mM NaCl, respectively. An additional topoisomerase II fraction was eluted by > 300 mM NaCl. It could be identified by Western blotting as a late-eluting variant of topoisomerase II alpha, which is functionally altered as compared to the early-eluting form, having the following properties: a shift in the catalytic optimum to pH 9; increased stability in DNA complex formation; approximately 100-fold resistance to orthovanadate; approximately 1000-fold resistance to the cytostatic substances N-[4-(9-acridinylamino)-3-methoxyphenyl]-methanesulphonamide (amsacrine) and the podophyllotoxin etoposide (VP 16). 80% of the late-eluting topoisomerase II alpha could be captured by SDS on calf thymus DNA without further enhancement by drugs. In contrast, the early-eluting topoisomerase II alpha exhibits 10% complex formation with SDS alone, and an increase to 90% complex formation in the presence of drugs. A HL-60 subline (HL-60/R), approximately 1000-fold resistant to etoposide and amsacrine, has equivalent proportions of topoisomerase II alpha and topoisomerase II beta and similar levels of both isoenzymes, as compared to the drug-sensitive HL-60/WT cells. However, determination of the cellular levels of the early-eluting and late-eluting forms of topoisomerase II alpha revealed that the HL-60/R cell line contains approximately 80% of the late-eluting topoisomerase II alpha, whereas the sensitive HL-60/WT cell line contains only 15-20% of this form. The nuclear distribution of the two forms also differs. Sensitive HL-60/WT cells show a diffuse nuclear distribution but in resistant cells the distribution is localized in the nucleoli. Apparently two functionally distinct subforms of topoisomerase II alpha coexist in drug-sensitive and drug-resistant HL-60 cells and changes in their relative levels affect the cellular sensitivity to topoisomerase-II-targeting drugs.
A dynamic quasi-newton method for model independent visual servoing (1999)

This thesis develops and demonstrates a dynamic quasi-Newton method for model independent, vision-guided robotic tracking control. This method does not require precisely calibrated kinematic and camera models. Robotic control is achieved using a method that minimizes a nonlinear objective function by taking quasi-Newton steps and estimating the composite Jacobian at each step. The composite Jacobian combines the image and robot Jacobians and relates differential changes in the robot joint angles to differential changes in the image plane. Two types of Jacobian estimation schemes are investigated, a dynamic Broyden's method and a recursive least squares algorithm. The recursive least squares estimation scheme is found to be more stable in the presence of noise. 
This method can be applied to vision-guided robotic control by comparing points on the robot with goal points. If the goal points are moving, the objective function must be considered as a function of time. Previous work uses Broyden's method to servo the robot to a static point. It is shown that Broyden's method is not capable of tracking a moving goal. A more appropriate dynamic quasi-Newton method is derived with recursive least squares Jacobian estimation for moving target tracking. Simulation and experimental results demonstrate the dynamic quasi-Newton method for model vision-guided robotic tracking control.
Genetic Regulation ofAspergillusSecondary Metabolites and Their Role in Fungal Pathogenesis (2014)

With respect to fungal pathogenesis and virulence, fungal secondary metabolites are primary virulence factors in several fungus-plant interactions. This chapter explores the current state of knowledge on the production of secondary metabolites by the opportunistic human pathogen Aspergillus fumigatus. Several types of secondary metabolites have been isolated from A. fumigatus in vitro cultures, including fumitremorgins, verruculogen, fumigaclavines, fumagillin, helvolic acid, and gliotoxin, among other, less-studied compounds. Importantly, gliotoxin has been detected in the serum of patients with invasive pulmonary aspergillosis (IPA) and in experimental murine models of IPA. Overexpression of the nonribosomal peptide synthetase (NRPS) ftmA in A. fumigatus AF293.1 and A. nidulans resulted in accumulation of brevianamide F, the likely precursor of fumitremorgin biosynthesis. Like many other A. fumigatus-produced secondary metabolites, the potential role of helvolic acid in aspergillosis is unknown. Production of secondary metabolites is an energetically costly process involving many enzymatic steps. In fungi, signals generated in response to the environment are typically relayed through DNA-binding Cys2His2 zinc-finger proteins, including CreA for carbon signaling, AreA for nitrogen signaling, and PacC for pH signaling. Insight into signaling pathways linking growth, development, and secondary metabolism came from a key study in A. nidulans showing heterotrimeric G-protein activation simultaneously inhibits sporulation and production of the mycotoxin sterigmatocystin while promoting vegetative growth. Fungal secondary metabolites are important biomolecules with significant biological activities.
RNase E Maintenance of Proper FtsZ/FtsA Ratio Required for Nonfilamentous Growth of Escherichia coli Cells but Not for Colony-Forming Ability (2006)

Inactivation or deletion of the RNase E-encoding rne gene of Escherichia coli results in the growth of bacterial cells as filamentous chains in liquid culture (K. Goldblum and D. Apirion, J. Bacteriol. 146:128-132, 1981) and the loss of colony-forming ability (CFA) on solid media. RNase E dysfunction is also associated with abnormal processing of ftsQAZ transcripts (K. Cam, G. Rome, H. M. Krisch, and J.-P. Bouché, Nucleic Acids Res. 24:3065-3070, 1996), which encode proteins having a central role in septum formation during cell division. We show here that RNase E regulates the relative abundances of FtsZ and FtsA proteins and that RNase E depletion results in decreased FtsZ, increased FtsA, and consequently an altered FtsZ/FtsA ratio. However, while restoration of the level of FtsZ to normal in rne null mutant bacteria reverses the filamentation phenotype, it does not restore CFA. Conversely, overexpression of a related RNase, RNase G, in rne-deleted bacteria restores CFA, as previously reported, without affecting FtsZ abundance. Our results demonstrate that RNase E activity is required to maintain a proper cellular ratio of the FtsZ and FtsA proteins in E. coli but that FtsZ deficiency does not account for the nonviability of cells lacking RNase E.
Control of Synthesized Vibrato during Portamento Musical Pitch Transitions (2008)

Vibrato, the natural oscillation of musical pitch that is commonly associated with music performed by skilled singers and instrumentalists in certain musical styles, is an important aspect of realistic music synthesis. For synthesized singing particular care must be taken to ensure that the synthesized vibrato behaves naturally, especially in the vicinity of portamento
Comparative Protein Modeling of 1-Deoxy-d-xylulose-5-phosphate Reductoisomerase Enzyme from Plasmodium falciparum:  A Potential Target for Antimalarial Drug Discovery (2006)

Plasmodium falciparum 1-deoxy-D-xylulose-5-phosphate reductoisomerase (Pf-DXR) is a potential target for antimalarial chemotherapy. The three-dimensional model (3D) of this enzyme was determined by means of comparative modeling through multiple alignment followed by intensive optimization, minimization, and validation. The resulting model demonstrates a reasonable topology as gauged from the Ramachandran plot and acceptable three-dimensional structure compatibility as assessed by the Profiles-3D score. The modeled monomeric subunit consists of three domains: (1) N-terminal NADPH binding domain, (2) connective or linker domain (with most of the active site residues located in this domain), and (3) a C-terminal domain. This structure proved to be consistent with known DXR crystal structures from other species. The predicted active site compared favorably with those of the templates and appears to have an active site with a highly conserved architecture. Additionally, the model explains several site-directed mutagenesis data. Besides using several protein structure-checking programs to validate the model, a set of known inhibitors of DXR were also docked into the active site of the modeled Pf-DXR. The docked scores correlated reasonably well with experimental pIC50 values with a regression coefficient (R2) equal to 0.84. Results of the current study should prove useful in the early design and development of inhibitors by either de novo drug design or virtual screening of large small-molecule databases leading to development of new antimalarial agents.
Two dimensional gradient-index beam shapers fabricated using ultrafast laser inscription (2022)

In this paper gradient-index beam shapers are fabricated using the ultrafast laser inscription method. This method enables the fabrication of two-dimensional refractive index profiles inside silica glass, resulting in highly robust and compact beam shapers. The magnitude of this refractive index change can be tailored by adjusting the laser pulse energy, enabling arbitrary two-dimensional refractive index profiles to be manufactured. The process is then demonstrated by fabricating planar waveguides with quadratic index profiles that predictably resize Gaussian beams. Then a more complex two-dimensional refractive index profile is fabricated to transform an input Gaussian beam into a super-Gaussian (flat-top) beam.
Future Wireless Communication based on Multi-Radio Access (2004)

In future we will see a multitude of wireless networking technologies deployed, based on a variety of radio access technologies (RATs) and standards. The availability of multiple access alternative ...
Perivenular brain lesions in a primate multiple sclerosis model at 7-tesla magnetic resonance imaging (2013)

BACKGROUND Magnetic resonance imaging (MRI) can provide in vivo assessment of tissue damage, allowing evaluation of multiple sclerosis (MS) lesion evolution over time--a perspective not obtainable with postmortem histopathology. Relapsing-remitting experimental autoimmune encephalomyelitis (EAE) is an experimental model of MS that can be induced in the common marmoset, a small new world primate, and that causes perivenular white matter (WM) lesions similar to those observed in MS. METHODS Brain lesion development and evolution were studied in vivo and postmortem in four marmosets with EAE through serial T2- and T2*-weighted scans at 7-tesla. Supratentorial WM lesions were identified and characterized. RESULTS Of 97 lesions observed, 86 (88%) were clearly perivenular, and 62 (72%) developed around veins that were visible even prior to EAE induction. The perivenular configuration was confirmed by postmortem histopathology. Most affected veins, and their related perivascular Virchow-Robin spaces, passed into the subarachnoid space rather than the ventricles. CONCLUSION As in human MS, the intimate association between small veins and EAE lesions in the marmoset can be studied with serial in vivo MRI. This further strengthens the usefulness of this model for understanding the process of perivenular lesion development and accompanying tissue destruction in MS.
Copy detection for intellectual property protection of VLSI designs (2003)

We give the first study of copy detection techniques for VLSI CAD applications; these techniques are complementary to previous watermarking-based IP protection methods in finding and proving improper use of design IP. After reviewing related literature (notably in the text processing domain), we propose a generic methodology for copy detection based on determining basic elements within structural representations of solutions (IPs), calculating (context-independent) signatures for such elements, and performing fast comparisons to identify potential violators of IP rights. We give example implementations of this methodology in the domains of scheduling, graph coloring and gate-level layout; experimental results show the effectiveness of our copy detection schemes as well as the low overhead of implementation. We remark on open research areas, notably the potentially deep and complementary interaction between watermarking and copy detection.
Adaptive Irregular Constellations for Full-Duplex Relaying With Residual Self-Interference (2021)

We propose the use of adaptive optimized irregular constellation to enhance the performance of full duplex (FD) wireless radio systems which suffer from residual self-interference (RSI). Specifically, an error performance expression which takes into account the RSI level and signal-to-noise ratio is first derived for a single FD relay link. During the search for optimal constellation for a given parameter set, there are no predefined assumptions on symbol point locations. The optimization framework yields adaptive irregular constellations depending on RSI levels and power budget values. It is shown that the proposed adaptive transmission along with optimized irregular constellations achieves better error performance than the conventional <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$M$ </tex-math></inline-formula> -QAM constellations and other <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$M$ </tex-math></inline-formula> -ary improper Gaussian signaling (IGS) constellations.
Microlensed vertical-cavity surface-emitting laser for stable single fundamental mode operation (2002)

We propose and demonstrate a vertical-cavity surface-emitting laser structure that operates predominantly in the single fundamental transverse mode over a wide operation current range. In this laser structure, a microlens is integrated on top of an otherwise ordinary surface-emitting laser so that a small portion of laser output is fed back into the cavity, forcing the lasing to occur in the fundamental mode. Model calculations reproduce the observed mode selection effect.