gebhart/patrepeval huggingface dataset:
Exploiting parallax in panoramic capture to construct light fields (2014)

We show that the parallax motion resulting from non-nodal rotation in panorama capture can be exploited for light field construction from commodity hardware. Automated panoramic image capture typically seeks to rotate a camera exactly about its nodal point, for which no parallax motion is observed. This can be difficult or impossible to achieve due to limitations of the mounting or optical systems, and consequently a wide range of captured panoramas suffer from parallax between images. We show that by capturing such imagery over a regular grid of camera poses, then appropriately transforming the captured imagery to a common parameterisation, a light field can be constructed. The resulting four-dimensional image encodes scene geometry as well as texture, allowing an increasingly rich range of light field processing techniques to be applied. Employing an Ocular Robotics REV25 camera pointing system, we demonstrate light field capture,refocusing and low-light image enhancement.
Deletion of collapsin response mediator protein 4 results in abnormal layer thickness and elongation of mitral cell apical dendrites in the neonatal olfactory bulb (2016)

Collapsin response mediator protein 4 (CRMP4), a member of the CRMP family, is involved in the pathogenesis of neurodevelopmental disorders such as schizophrenia and autism. Here, we first compared layer thickness of the olfactory bulb between wild-type (WT) and CRMP4-knockout (KO) mice. The mitral cell layer (MCL) was significantly thinner, whereas the external plexiform layer (EPL) was significantly thicker in CRMP4-KO mice at postnatal day 0 (PD0) compared with WTs. However, differences in layer thickness disappeared by PD14. No apoptotic cells were found in the MCL, and the number of mitral cells (MCs) identified with a specific marker (i.e. Tbx21 antibody) did not change in CRMP4-KO neonates. However, DiI-tracing showed that the length of mitral cell apical dendrites was greater in CRMP4-KO neonates than in WTs. In addition, expression of CRMP4 mRNA in WT mice was most abundant in the MCL at PD0 and decreased afterward. These results suggest that CRMP4 contributes to dendritic elongation. Our in vitro studies showed that deletion or knockdown of CRMP4 resulted in enhanced growth of MAP2-positive neurites, whereas overexpression of CRMP4 reduced their growth, suggesting a new role for CRMP4 as a suppressor of dendritic elongation. Overall, our data suggest that disruption of CRMP4 produces a temporary alteration in EPL thickness, which is constituted mainly of mitral cell apical dendrites, through the enhanced growth of these dendrites.
Characterization of Conserved Toxicogenomic Responses in Chemically Exposed Hepatocytes across Species and Platforms (2015)

Our integrative analysis of toxicogenomics data provides a comprehensive overview of biochemical perturbations affected by a large panel of chemicals. Furthermore, we show that the early toxicological response occurring in animals is recapitulated in human and rat primary hepatocyte cultures at the molecular level, indicating that these models reproduce key pathways in response to chemical stress. These findings expand our understanding and interpretation of toxicogenomics data from human hepatocytes exposed to environmental toxicants.
Single carrier transmission with two-stage overlap frequency domain equalisation for long-haul optical systems (2009)

Two-stage overlap frequency domain equalisation (OFDE) is proposed to compensate for chromatic dispersion and polarisation mode dispersion in practical long-haul optical systems. The transmission performance of 25 Gbit/s coherent optical single carrier transmission (SC) with two-stage OFDE is evaluated. The results show that SC using two-stage OFDE attains the Q factor of 11.4 dB over 4320 km of singlemode fibre using 16-point FFT for demodulation.
Bacterial GCN5-RelatedN-Acetyltransferases: From Resistance to Regulation (2016)

The GCN5-related N-acetyltransferases family (GNAT) is an important family of proteins that includes more than 100000 members among eukaryotes and prokaryotes. Acetylation appears as a major regulatory post-translational modification and is as widespread as phosphorylation. N-Acetyltransferases transfer an acetyl group from acetyl-CoA to a large array of substrates, from small molecules such as aminoglycoside antibiotics to macromolecules. Acetylation of proteins can occur at two different positions, either at the amino-terminal end (αN-acetylation) or at the ε-amino group (εN-acetylation) of an internal lysine residue. GNAT members have been classified into different groups on the basis of their substrate specificity, and in spite of a very low primary sequence identity, GNAT proteins display a common and conserved fold. This Current Topic reviews the different classes of bacterial GNAT proteins, their functions, their structural characteristics, and their mechanism of action.
Re-programming of Pseudomonas syringae pv. actinidiae gene expression during early stages of infection of kiwifruit (2018)

The results from this study indicate that there is a complex remodeling of the transcriptome during the early stages of infection, with at least three distinct phases of coordinated gene expression. These include genes induced during the immediate contact with the host, those involved in the initiation of infection, and finally those responsible for nutrient acquisition.
Expression of VE‐cadherin in zebrafish embryos: A new tool to evaluate vascular development (2004)

We have identified the zebrafish homologue of VE-cadherin and documented its expression in the developing vascular system. The zebrafish VE-cadherin gene is specifically expressed in the vascular endothelial cell lineage beginning with the differentiation and migration of angioblasts and persists throughout vasculogenesis, angiogenesis, and endocardium development. Staining zebrafish embryos by whole-mount in situ hybridization with the VE-cadherin probe provides a method to screen embryos for vascular defects. To illustrate this utility, we used VE-cadherin expression to demonstrate a conservation of vascular endothelial growth factor-A (VEGF-A) function. The morpholino antisense oligonucleotide knockdown of VEGF-A function in zebrafish embryos results in a loss of angiogenic blood vessels, as indicated by the lack of VE-cadherin expression in the intersegmental vasculature. This loss can be restored in embryos supplemented with either zebrafish or human VEGF-A, the latter indicating that genes crucial to angiogenesis have highly conserved functional activities in vertebrates.
Fibronectin tetrapeptide is target for syphilis spirochete cytadherence. (1985)

The syphilis bacterium, Treponema pallidum, parasitizes host cells through recognition of fibronectin (Fn) on cell surfaces. The active site of the Fn molecule has been identified as a four-amino acid sequence, arg-gly-asp-ser (RGDS), located on each monomer of the cell-binding domain. The synthetic heptapeptide gly-arg-gly-asp-ser-pro-cys (GRGDSPC), with the active site sequence RGDS, specifically competed with 125I-labeled cell-binding domain acquisition by T. pallidum. Additionally, the same heptapeptide with the RGDS sequence diminished treponemal attachment to HEp-2 and HT1080 cell monolayers. Related heptapeptides altered in one key amino acid within the RGDS sequence failed to inhibit Fn cell-binding domain acquisition or parasitism of host cells by T. pallidum. The data support the view that T. pallidum cytadherence of host cells is through recognition of the RGDS sequence also important for eukaryotic cell-Fn binding.
A Simple Method to Prepare Polymer Dispersed Liquid Crystals (1992)

Abstract A simple method of dispersing nematics in poly (vinyl alcohol) and other polymers is presented. This method may be used for fundamental studies of different dispersed nematic materials. Key Words: nematicspolymerspolymer-dispersed-liquid-crystal displays
Nanosize-Induced Optically Isotropic Nematic Phase (2011)

We fabricated, in a polymer matrix, liquid crystal (LC) nanosized droplets with a correlation length ξ of about 140 nm, which appear as an optically isotropic film. Differential scanning calorimetry (DSC) and light scattering measurements gave unambiguous evidences of an existence of nematic LC (NLC) order and fluctuation over a wide temperature range. The correlation length obtained by light scattering was consistent to the droplet size determined by a scanning electron microscope (SEM). The dynamic electro-optic (EO) response in such an isotropic NLC (IsoN) phase was found to be very fast, tens of µs, in a confined geometry because of the local short-range nematic order in the IsoN phase. This type of EO effect is very attractive for next-generation LC displays and light waveguides because of (1) very dark view in the absence of a field, (2) very fast response being independent of temperature and applied electric field, (3) gray-scale display capability with a constant response time, and (4) unnecessity of any surface treatment.
64Cu-CTS: A Promising Radiopharmaceutical for the Identification of Low-Grade Cardiac Hypoxia by PET (2015)

The hypoxic threshold that induced survivable metabolic and functional compromise was 30% O2. At this threshold, only (64)Cu-CTS delivered a hypoxic-to-normoxic contrast of 3:1, and it therefore warrants in vivo evaluation for imaging chronic cardiac ischemic syndromes.
Performance evaluation of reliable multicast transport protocol for large-scale delivery (1997)

This paper analyzes the performance of a reliable multicast transport protocol and discusses experimental test results. The Reliable Multicast Transport Protocol has been proposed to support “reliable” information delivery from a server to thousands of receivers over unreliable networks via IP-multicast. The protocol provides high-performance for most receivers through the advantage of IP multicast while also supporting temporarily unavailable or performance impaired receivers. Its applicability to large scale delivery is examined using an experimental network and the backoff time algorithm which avoids ACK implosion. The two types of flow control with the protocol are also examined. Separate retransmission is used to offset the local performance decline limited to a small number of receivers. Monitor-based rate control is used to offset the global performance declines due to causes such as network congestion.
Leucocyte-associated plasma proteins in leucocytes during disease states, and in leukaemic cells (1984)

The concentrations and molecular forms of prealbumin, orosomucoid, albumin, alpha 1-antitrypsin and haptoglobin in leucocytes were studied in patients with alpha 1-antitrypsin deficiency, in acute phase and with leukaemia, by rocket and crossed immunoelectrophoresis. Alpha 1-antitrypsin was the only protein being synthesized by bone marrow cells, blast cells and leucocytes present in the blood during cytotoxic treatment. The other proteins are taken up by the cells. The concentration of alpha 1-antitrypsin in serum and cells was correlated in alpha 1-antitrypsin deficiency and the acute phase, suggesting either that the same signal for synthesis is used in the liver and leucocytes, or that a balance is kept by means of leucocyte uptake. Chronic lymphocytic leukaemia lymphocytes contained only traces of albumin, which may be related to the decreased membrane mobility of these cells. Polycythemia leucocytes, however, contained increased concentrations of all plasma proteins, especially orosomucoid and haptoglobin2 . These two protein forms were found to be markers of mature granulocytes. The cellular concentrations of prealbumin, albumin and transferrin were about 35% of normal in acute myeloid leukaemia cells and no orosomucoid2 and haptoglobin2 was present. Alpha 1-antichymotrypsin was present in a heterogeneous form and the molecular form of alpha 1-antitrypsin (alpha 1 AT4 ) was the same as in monocytes. These findings suggest the existence of a distinct 'AML'-type protein pattern which could be of functional and diagnostic importance.
Optimized scalar promotion with load and splat SIMD instructions (2023)

Mechanisms for optimizing scalar code executed on a single instruction multiple data (SIMD) engine are provided. Placement of vector operation-splat operations may be determined based on an identification of scalar and SIMD operations in an original code representation. The original code representation may be modified to insert the vector operation-splat operations based on the determined placement of vector operation-splat operations to generate a first modified code representation. Placement of separate splat operations may be determined based on identification of scalar and SIMD operations in the first modified code representation. The first modified code representation may be modified to insert or delete separate splat operations based on the determined placement of the separate splat operations to generate a second modified code representation. SIMD code may be output based on the second modified code representation for execution by the SIMD engine.
An Optical and Terahertz Instrumentation System at the FAST Linac at Fermilab (2018)

FAST is a facility at Fermilab that consists of a photoinjector, two superconducting capture cavities, one superconducting ILC-style cryomodule, and a small ring for studying non-linear, integrable beam optics called IOTA. This paper discusses the layout for the optical transport system that provides optical radiation to an externally located streak camera for bunch length measurements, and THz radiation to a Martin-Puplett interferometer, also for bunch length measurements. It accepts radiation from two synchrotron radiation ports in a chicane bunch compressor and a diffraction/transition radiation screen downstream of the compressor. It also has the potential to access a transition radiation screen after the spectrometer magnet for measurements of energy-time correlations. Initial results from both the streak camera and Martin-Puplett will be presented.
Separation of Polybutylene Glycols on C18and C4Stationary Phases (1994)

Abstract Polybutylene glycol (PBG) samples largely differing in molecular weight Mr are separated by gradient reversed-phase high performance liquid chromatgraphy on C18 and C4 stationary phases by use of either acetonitrile or methanol as organic modifiers and signal monitoring by means of evaporative light scattering detection. Neither acetonitrile nor methanol are sufficient for the quantitative elution of all samples from the extremely hydrophobic C18 matrix. However, the elution potency of methanol is markedly better compared with acetonitrile presumably attributable to a solubility increase of sample molecules via hydrogen bonding between its hydroxy group and the ether oxygens of the solutes. Marked lower retention of high Mr oligomers is observed on the more polar C4 matrix and the elution power of acetonitrile is now sufficient for the quantitative release of all investigated polyether samples. A substantial increase of signals eluting at higher retention times and thus representing oligomers with higher Mr becomes evident in the range PBG 650 < PBG 1000 < PBG 2000 < PBG 3000. Although the PBGs exhibit a broad “within-sample” oligomeric Mr distribution and thus substantial peak overlapping by superposition of the individual chromatograms a clear assignment to individual samples can be done on the basis of the different chromatographic patterns.
Cell manipulation by nodal circle resonance vibration of a cell cultivation substrate (2015)

In this paper, we propose a novel cell culture method to generate an organ without scaffold. The concept of our study is to apply the principle of Chladni's figures in cell manipulation. To confirm this concept, we developed cell cultivation device that can excite resonance vibration of the cell cultivation substrate. After the fabrication of the device, we estimated the resonance frequency and vibration amplitude distribution of our device. Since the fabricated device successfully produced the designed vibration mode, we conducted cell manipulation experiment to confirm our concept. In our experiment, we varied the initial number of cells that were seeded into our device. Cells were manipulated by resonance vibration for 120 min. After the manipulation, we checked cell distribution on the substrate. As a result, cells were successfully manipulated by the resonance vibration when the initial number of cells was appropriate.
Look-Ahead Monte Carlo with People (2012)

Investigating people's representations of categories of complicated objects is a difficult challenge, not least because of the large number of ways in which such objects can vary.To make progress we need to take advantage of the structure of object categories -one compelling regularity is that object categories can be described by a small number of dimensions.We present Look-Ahead Monte Carlo with People, a method for exploring people's representations of a category where there are many irrelevant dimensions.This method combines ideas from Markov chain Monte Carlo with People, an experimental paradigm derived from an algorithm for sampling complicated distributions, with hybrid Monte Carlo, a technique that uses directional information to construct efficient statistical sampling algorithms.We show that even in a simple example, our approach takes advantage of the structure of object categories to make experiments shorter and increase our ability to accurately estimate category representations.
Use and outcomes of the PK Papyrus covered stent in France: SOS PK Papyrus Registry (2020)

The principal indication for PKP was CAP. PKP had high rates of delivery and procedural success. At long-term follow-up, there was a high rate of TLR, mainly due to ISR and ST. These results are consistent with previously reported data in these clinical settings.
Laser-actuated hermetic seals for integrated atomic devices (2022)

Atomic devices such as atomic clocks and optically-pumped magnetometers rely on the interrogation of atoms contained in a cell whose inner content has to meet high standards of purity and accuracy. Glass-blowing techniques and craftsmanship have evolved over many decades to achieve such standards in macroscopic vapor cells. With the emergence of chip-scale atomic devices, the need for miniaturization and mass fabrication has led to the adoption of microfabrication techniques to make millimeter-scale vapor cells. However, many shortcomings remain and no process has been able to match the quality and versatility of glass-blown cells. Here, we introduce a novel approach to structure, fill and seal microfabricated vapor cells inspired from the century-old approach of glass-blowing. In particular we demonstrate opening and closing single-use zero-leak microfabricated valves, actuated exclusively by laser, and operating in the same way as the "make-seals" and "break-seals" found in the filling apparatus of traditional cells. Such structures are employed to fill cesium vapor cells at the wafer-level. The make-seal structure consists of a glass membrane that can be locally heated and deflected to seal a microchannel. The break-seal is obtained by breaching a silicon wall between cavities. This new approach allows adapting processes previously restricted to glass-blown cells. It can also be extended to vacuum microelectronics and vacuum-packaging of micro-electro-mechanical systems (MEMS) devices.
Limitations of a thermal camera in measuring surface temperature of laser‐irradiated tissues (1990)

Thermal cameras are used in research laboratories to measure tissue temperature during laser irradiation. This study was an evaluation of the accuracy of a 3-5 microns thermal camera and two 8-12 microns cameras in detecting the maximum temperatures of small targets. The size of the targets was within the range of laser spot diameters which are used for vessel welding, angioplasty, and dermatology. The response to a sharp thermal edge was measured and analyzed for the three cameras, which had a scanning rate of 30 frames per second. The response of the 3-5 microns camera to reference black body targets of different sizes was also studied. It was found that the detector system required an average of 2.44 microseconds to reach 90% of maximum step response for the 8-12 microns system and 5.85 microseconds for the 3-5 microns system. With a 3 x telescope and a 9.5 inch focal distance close-up lens, the 3-5 microns camera underestimated the temperature of targets smaller than 2.0 mm because of its slow detector response. Although the 8-12 microns camera provides more accurate measurements due to its faster detector response, it still underestimates the temperature of targets smaller than 900 microns, when similar magnification and focal distance are used. Methods to compensate for the inaccuracies are discussed, including empirical correction factors and the inverse filtering technique.
Novel approach to extract candidate outcomes from literature for a standard outcome set: A case- and simulation study (2023)

Abstract Aims Standard outcome sets enable the value-based evaluation of health care delivery. Whereas the attainment of expert opinion has been structured using methods such as the modified-Delphi process, standardized guidelines for extraction of candidate outcome measures from literature are lacking. As such, we aimed to describe a novel methodology to obtain a comprehensive list of candidate outcome measures for potential inclusion in standard outcome datasets. Methods We designed a three-key steps to develop a list of candidate outcome measures to evaluate healthcare and applied these steps for the development of the international consortium of health outcome measures Heart valve disease dataset to illustrate the method. Our methodological approach involves: 1) Benchmark review of relevant registries and Clinical Practice Guidelines; 2) Applying machine learning to screen (using frequent words in abstracts) the studies that have been extracted from a systematic search of the literature using only the disease term; and 3) Extracting the candidate outcome measures from randomly selected batches of the retrieved studies iteratively until saturation is reached. Batch cutoff choices were investigated using data of 1000 simulated cases. Results Simulation showed that on average 98% (range 92% to 100%) saturation is reached using a 100-article batch initially, with 25 articles in the subsequent batches. On average 1.7 repeating rounds (range 1-5) of 25 new articles were necessary to achieve saturation. Conclusion In this paper a standardized three-pillar approach is proposed to identify relevant outcome measures for a standard dataset. This approach creates a balance between comprehensiveness and feasibility in conducting literature reviews for the identification of candidate outcome measures.