gebhart/patrepeval huggingface dataset:
High resolution deletion analysis of constitutional DNA from neurofibromatosis type 2 (NF2) patients using microarray-CGH (2001)

Neurofibromatosis type 2 (NF2) is an autosomal dominant disorder whose hallmark is bilateral vestibular schwannoma. It displays a pronounced clinical heterogeneity with mild to severe forms. The NF2 tumor suppressor (merlin/schwannomin) has been cloned and extensively analyzed for mutations in patients with different clinical variants of the disease. Correlation between the type of the NF2 gene mutation and the patient phenotype has been suggested to exist. However, several independent studies have shown that a fraction of NF2 patients with various phenotypes have constitutional deletions that partly or entirely remove one copy of the NF2 gene. The purpose of this study was to examine a 7 Mb interval in the vicinity of the NF2 gene in a large series of NF2 patients in order to determine the frequency and extent of deletions. A total of 116 NF2 patients were analyzed using high-resolution array-comparative genomic hybridization (CGH) on an array covering at least 90% of this region of 22q around the NF2 locus. Deletions, which remove one copy of the entire gene or are predicted to truncate the schwannomin protein, were detected in 8 severe, 10 moderate and 6 mild patients. This result does not support the correlation between the type of mutation affecting the NF2 gene and the disease phenotype. This work also demonstrates the general usefulness of the array-CGH methodology for rapid and comprehensive detection of small (down to 40 kb) heterozygous and/or homozygous deletions occurring in constitutional or tumor-derived DNA.
Frailty, Inflammation, and Mortality Among Persons Aging With HIV Infection and Injection Drug Use (2015)

A recently validated, simple, biologically informed inflammatory index is independently associated with frailty and mortality risk among aging HIV-infected and uninfected injection drug users.
Magnetoresistive effects in perpendicularly magnetized Tb-Co alloy based thin films and spin valves (2012)

Tb-Co ferrimagnetic alloy thin films and spin valves have been grown to study their magnetoresistance response in various geometries. The studied Tb-Co alloys show strong perpendicular anisotropy and tunable magnetization by several orders of magnitude. Magnetoresistance signals such as giant magnetoresistance (GMR), anisotropic magnetoresistance (AMR), extraordinary Hall effect (EHE), and magnon magnetoresistance (MMR) have been studied. The angular dependence of those magnetoresistive effects is also investigated. Finally we demonstrate that by adjusting the Tb-Co layer composition in a spin valve structure, the sign and the amplitude of the GMR and EHE signal can be tuned.
Rotational analysis of the 1B2u(ππ) ←1A1g, (61) band of benzene and helium–benzene van der Waals complexes in a supersonic jet (1979)

The fluorescence excitation spectrum of benzene at a rotational temperature of 0.3 K has been observed using both pulsed and continuously operated supersonic free jets. Individual lines of the 1B2u(ππ) ←1A1g, (610) band at 259 nm have been clearly resolved and analyzed. Rotational and Coriolis constants as derived from these resolved spectra are in agreement with those derived from previous band contour analyses of room temperature spectra. Rotational analyses of the corresponding spectral band for the He–benzene and He2–benzene van der Waals complexes are also reported. In both complexes the helium atoms are found to lie on the C6 symmetry axis approximately 3.5 Å above (and/or below) the plane of the benzene ring. Sufficient rotational cooling is achieved in these supersonic expansions so that ≳95% of all benzene molecules are relaxed to the lowest rotational state available (consistent with nonrelaxation of nuclear spins).
Multisite microprobes for neural recordings (1991)

Multisite, passive microprobes have been developed to allow simultaneous recording of action potential activity from multiple neurons at different locations in the brain. The microprobes were fabricated using standard integrated circuit techniques. The probe is a planar structure that consists of gold electrodes sandwiched between two polyimide dielectric layers and bonded to a molybdenum structural support. Windows in the top dielectric layer expose the electrode sites and bonding pads. In two distinct versions of the probe four or six recordings sites, respectively, of approximately 25 microns 2 are arranged on a dagger-shaped structure which can penetrate the pia. The bonding pads and interconnect wires at the probe head are entirely encapsulated in a tubular fixture that is packed with silicone RTV and sealed with epoxy to protect the interconnections from contact with body fluids. The site impedances at 1 kHz are typically between 2 and 4 M omega. Probe lifetimes for continuous immersion in physiological saline solution, as measured by impedance, have exceeded 750 h. The failure mechanism is believed to be due to moisture and ion absorption in the top dielectric layer. In acute neurophysiological experiments using the four site probes, action potential activity was recorded from physiologically identified neurons in the dorsal column nuclei of anesthetized rat.
Looking-Glass Synergistic Pharmacological Chaperones: DGJ and L-DGJ from the Enantiomers of Tagatose (2011)

The enantiomers of tagatose are converted to L-DGJ [a noncompetitive inhibitor of human lysosome α-galactosidase A (α-Gal A), K(i) 38.5 μM] and DGJ [a competitive inhibitor of α-Gal A, K(i) 15.1 nM] in 66% yield. L-DGJ and DGJ provide the first examples of pharmacological chaperones that (a) are enantiomeric iminosugars and (b) have synergistic activity with implications for the treatment of lysosomal storage disorders and other protein deficiencies.
Framework of Operations, Administration, and Maintenance (OAM) for Deterministic Networking (DetNet) (2024)

https://datatracker.ietf.org/doc/rfc9551/
Bromoacetophenone-Based Photonucleases:  Photoinduced Cleavage of DNA by 4‘-Bromoacetophenone−Pyrrolecarboxamide Conjugates (1999)

[formula: see text] 4'-Bromoacetophenone derivatives which upon excitation can generate monophenyl radicals capable of hydrogen atom abstraction were investigated as photoinducible DNA cleaving agents. Pyrrolecarboxamide-conjugated 4'-bromoacetophenones were synthesized, and their DNA cleaving activities and sequence selectivities were determined.
Predictors of Endotoxin Levels in U.S. Housing (2008)

Increased endotoxin in household reservoir dust is principally associated with poverty, people, pets, household cleanliness, and geography.
Investigations of Performance and Bias in Human-AI Teamwork in Hiring (2022)

In AI-assisted decision-making, effective hybrid (human-AI) teamwork is not solely dependent on AI performance alone, but also on its impact on human decision-making. While prior work studies the effects of model accuracy on humans, we endeavour here to investigate the complex dynamics of how both a model's predictive performance and bias may transfer to humans in a recommendation-aided decision task. We consider the domain of ML-assisted hiring, where humans---operating in a constrained selection setting---can choose whether they wish to utilize a trained model's inferences to help select candidates from written biographies. We conduct a large-scale user study leveraging a re-created dataset of real bios from prior work, where humans predict the ground truth occupation of given candidates with and without the help of three different NLP classifiers (random, bag-of-words, and deep neural network). Our results demonstrate that while high-performance models significantly improve human performance in a hybrid setting, some models mitigate hybrid bias while others accentuate it. We examine these findings through the lens of decision conformity and observe that our model architecture choices have an impact on human-AI conformity and bias, motivating the explicit need to assess these complex dynamics prior to deployment.
Age and Gender Impact the Measurement of Myocardial Interstitial Fibrosis in a Healthy Adult Chinese Population: A Cardiac Magnetic Resonance Study (2018)

<b>Background:</b> Diffuse myocardial fibrosis is a common pathological process in many cardiovascular diseases. In order to determine disease, we must have standard normal imaging values. We investigated myocardial interstitial fibrosis of the left ventricle (LV) in a healthy population of Chinese adults and explored the impact of gender, age, and other physiological factors using a T1 mapping technique of cardiac magnetic resonance imaging (CMR). <b>Materials and Methods:</b> We recruited 69 healthy adult Chinese subjects (35 males; age 18-76). LV function and global strain were obtained from functional imaging. T1 mapping was performed using a modified look-locker sequence. Global and segmental native T1 and extracellular volume (ECV) were calculated using dedicated software. Gender, age, and segmental variation of both native myocardial T1 and ECV of the LV were analyzed. <b>Results:</b> The global myocardial native T1 and ECV of the LV in this Chinese adult healthy population was 1,202 ± 45 ms and 27 ± 3% at 3T field strength, respectively. Females had a higher myocardial native T1 and ECV of the LV compared to males [1,210 (1,188-1,264) ms vs. 1,182 (1,150-1,211) ms, <i>P</i> < 0.001; 28 ± 3 vs. 26 ± 3%, <i>P</i> = 0.027, respectively]. ECV in older group was higher than younger group [27 (26-29)% vs. 25 (24-29), <i>P</i> = 0.019]. The multi-variate linear regression analysis showed that only gender (Beta = -0.512, <i>P</i> < 0.001) was independently related with global native T1 of LV while gender (Beta = -0.278, <i>P</i> = 0.017) and age (Beta = 0.303, <i>P</i> = 0.010) were independently related with global ECV of LV. From the base to apex of the LV, myocardial native T1 (<i>P</i> = 0.020) and ECV (<i>P</i> < 0.001) significantly increased. Within the same slice of the LV, there were significant segmental variations of both myocardial native T1 (<i>P</i> < 0.001) and ECV (<i>P</i> < 0.001) values. <b>Conclusion:</b> Gender and age have significant impacts on the imaging markers of myocardial interstitial fibrosis in healthy adult Chinese volunteers. Segmental variation of myocardial interstitial fibrosis was also observed.
Molecular cloning of cDNA for rat L-type pyruvate kinase and aldolase B. (1983)

Two double-stranded cDNA recombinant pBR322 plasmid libraries were constructed starting from high carbohydrate diet rat liver poly(A)+ mRNA, either fractionated by denaturing sucrose gradient centrifugation for the cloning of L-type pyruvate kinase cDNA, or nonfractionated for aldolase B. Both libraries were screened with single-stranded cDNA probes reverse transcribed from fasted or high carbohydrate diet rat liver mRNAs. mRNAs from fasted animals were also fractionated by sucrose gradient centrifugation and mRNAs from the fed animals were, in addition, further purified by high performance liquid gel filtration chromatography. Those clones hybridizing with the "positive" probe (from animals fed the high carbohydrate diet) and not with the "negative" one (from fasted animals) were preselected and their plasmid DNA was purified and analyzed by positive hybridization-selection. Thirty of 4500 bacteria colonies transformed by recombinant plasmids were preselected by differential screening for pyruvate kinase, and 8 of 864 colonies for aldolase B. Twenty-two recombinant plasmids for pyruvate kinase and two for aldolase B were shown to contain specific cDNA inserts by positive hybridization-selection. Plasmids DNAs of some pyruvate kinase and aldolase B clones (whose inserts ranged from 700 to 1050 bases in length) were labeled by nick translation and used as probes for Northern blot hybridization. The pyruvate kinase cDNA probes recognized mainly a 3400-base RNA species which was detected in high carbohydrate diet rat liver, but not in fasted rat liver and in tissues which do not synthesize L-type pyruvate kinase. In addition, some pyruvate kinase probes hybridized with minor RNA species of about 2000 bases in length, only observed after carbohydrate diet. For aldolase B, the recombinant plasmid DNA hybridized with a single RNA species of 1750 bases. This RNA, detected in kidney, small intestine and liver, was induced by a high carbohydrate diet and increased with liver development. The rat probe cross-hybridized with human aldolase B messenger RNA.
Wavelength modulation over 500 kHz of micromechanically tunable InP-based VCSELs with Si-MEMS technology (2008)

The wavelength modulation over 500 kHz of a micromechanically tunable VCSEL that consists of a InP-based half VCSEL chip and a micromachined SOI chip with a concave movable mirror has been demonstrated for the first time.
Optical NNI inter-working demonstration (2003)

A network-to-network interface (NNI) offers multi-domain interworking via standard protocols, extending provisioning and restoration capabilities end-to-end. Our contributions are: (a) a fully functional NNI prototype (the first to our knowledge), (b) the demonstration that existing distributed protocols suffice, augmented with a few simple, novel extensions.
Table S1 from Impaired HLA Class I Antigen Processing and Presentation as a Mechanism of Acquired Resistance to Immune Checkpoint Inhibitors in Lung Cancer (2023)

&lt;p&gt;Table with Details of Patient Characteristics&lt;/p&gt;
Capillary Electrophoresis-Fourier Transform Ion Cyclotron Resonance Mass Spectrometry for the Identification of Cationic Metabolites via a pH-Mediated Stacking-Transient Isotachophoretic Method (2008)

Capillary electrophoresis-mass spectrometry (CE-MS) is still widely regarded as an emerging tool in the field of metabolomics and metabolite profiling. A major reason for this is a reported lack of sensitivity of CE-MS when compared to gas chromatography-mass spectrometry GC/MS and liquid chromatography-mass spectrometry. The problems caused by the lack of sensitivity are exacerbated when CE is coupled to Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS), due to the relatively low data acquisition rate of FT-ICR MS. Here, we demonstrate the use of an online CE sample preconcentration method that uses a combination of pH-mediated stacking and transient isotachophoresis, coupled with FT-ICR MS to improve the overall detection of cationic metabolites in the bacterium Desulfovibrio vulgaris Hildenborough. This method showed a significant increase in signal-to-noise ratio when compared to CE normal sample stacking, while providing good separation efficiency, reproducibility, and linearity. Detection limits for selected amino acids were between 0.1 and 2 microM. Furthermore, FT-ICR MS detection consistently demonstrated good mass resolution and sub-ppm mass accuracy.
Mixed Effects Models for Single-Trial ERP Detection in Noninvasive Brain Computer Interface Design (2012)

Single-trial evoked response potential detection is a fundamental problem that needs to be solved with high accuracy before noninvasive brain computer interfaces (BCI) can become a widely used practical tool that enables seamless communication with and control of a computer and any peripheral devices that can be connected to it. While in current BCI prototypes multi-trial inference is utilized with some success to convey user’s intent to the computer for various applications, speed of such communication is inherently limited by the number of stimulus repetitions the subject has to go through before one command selection can be transmitted to the computer. Consequently, number of stimulus repetitions (i.e., number of trials) is inversely proportional to the speed of communication and control that the subject can achieve. In this chapter, we provide a review of our recent work on using mixed effects models, a parametric modeling approach to statistically model trial-responses in electroencephalography in a generative fashion. Emerging from this generative model, we also develop a Fisher kernel that is in turn utilized in the support vector machine framework to develop a discriminative model for single-trial evoked response potential detection. Our results demonstrate that across multiple subjects and multiple sessions, the Fisher kernel detector outperforms its likelihood ratio test counterpart based on the generative model as well as other benchmark classifiers, specifically support vector machines with linear and Gaussian kernels.
Multiplex Raman induced Kerr effect microscopy (2012)

We report spectrally-resolved chemical imaging based on Raman induced Kerr effect spectroscopy (RIKES). When used with circularly-polarized pump excitation, multiplex RIKES offers the potential for spectrally-resolved imaging free of the nonresonant background that plagues coherent anti-Stokes Raman scattering. RIKES does however have a highly sample-dependent birefringent background that limits its sensitivity and can introduce spectral distortions. We demonstrate that in low birefringence samples multiplex RIKES microscopy offers an enhanced signal-to-noise ratio compared to multiplex stimulated Raman scattering (SRS) when implemented in a high polarization-purity, low frequency chopping scheme.
Ultrastructural Characterization of Serially Passaged Amastigote Like Forms of Leishmania (Leishmania) Donovani (1996)

The present study was done to establish an in vitro axenic culture of amastigote like forms of Leishmania (Leishmania) donovani (Dd-8 strain), the causative agent of Indian kala-azar. Transformation of promastigotes to amastigote like forms was induced by temperature shift from 26±1℃ to 34±1℃ at pH 7.0 in NNN medium. These forms were dividing as evidenced by flow cytometry. Scanning and transmission electron microscopic studies revealed a remarkable ultrastructural similarity of these in vitro cultured amastigotes with intracellular amastigotes. These forms have been successfully maintained for a period of more than one year, during which they have remained infective. On subjecting these forms to temperature of 26±1℃, they reverted back to the promastigote forms. Thus a simple NNN medium, free from foetal calf serum has been developed to generate large amounts of amastigote like forms which can be used for further biochemical, immunological and chemotherapeutic studies.
The Discovery of the Bone-Active Agent Risedronate, and Bisphosphonate Structure-Activity Considerations Including the Aminophenylethane Phosphonate Series (1999)

Abstract Risedronate was selected for clinical development from a library of more than 200 bisphosphonate analogs for the treatment of a variety of bone diseases. It is a pyridinyl bisphosphonate and is therefore characterized by a nitrogen residue in its structure. Our studies have increased the understanding of the optimal spatial arrangement of the nitrogen and phosphonate moieties required to give the bisphosphonate molecules the geometry necessary for potent antiresorptive activity on bone. A series of aminophenylethane phosphonates have been studied to further demonstrate these geometric requirements. Keywords:: bisphosphonatesrisedronateantiresorptive activitybone diseasestructure-activity relationshipsaminophenylethane phosphonates
Surface and Intercalation Chemistry of Polycarboxylate Copolymers in Cementitious Systems (2009)

The Ca–Al‐layered double hydroxide, the so‐called AFm phase, is a product of cement hydration. It is shown that the interaction of this phase with anionic polycarboxylate ether (PCE)‐based dispersant polymers is not a simple adsorption but a more complex intercalation phenomenon leading to the transient sequestration of the PCE within the AFm crystallites. As a result, part of the PCE is immobilized, forming a layered organo‐mineral composite, and does not play its role of a dispersing agent. This article presents, along general considerations on the links between cement chemistry and rheology, a detailed investigation of the formation, structure, and stability of a pure poly(methacrylate‐g‐PEO)/hydrocalumite composite obtained by coprecipitation. The predictions of scaling laws derived from models of conformation of comb copolymers in solution were tested against small‐angle X‐ray diffraction, transfer of populations by double‐resonance nuclear magnetic resonance, and small‐angle neutron scattering experimental results. A model of adsorbed polymers in a configuration of a flexible chain of hemispheric cores is proposed and appears to be compatible with the observed interlayer spacings in the range of several nanometers. Finally, these phases are shown to persist for several hours in the presence of sulfate ions.
Ionic Nanowires at 600 °C: Using Nanoarchitecture to Optimize Electrical Transport in Nanocrystalline Gadolinium‐Doped Ceria (2007)

The impact of nanoarchitecture on the electrical properties of sol–gel-derived Ce0.9Gd0.1O2 (CGO) is evaluated in O2 from 350 to 600 °C. The high degree of interconnectivity established between the < 10 nm crystallites in CGO aerogels (see figure) yields an electroceramic that responds as though it contains no grain boundaries and which exhibits long-range pathways for ionic diffusion (ca. 0.5 mm).
Halato-telechelic polymers. 4. Synthesis and dilute-solution behavior (1982)

peer reviewed
Antibody Radiolabeling Techniques To Optimize Cellular Retention (2013)

Radiolabeling of antibodies and antibody fragments facilitates the development of new targeted therapeutics or tracking and validation of biosimilars. The typical metal ion chelators that can be used for radiolabeling reactions have residualizing properties in tissues/tumors. A team at Genentech has developed an elegant new technique for combining iodine radiolabeling with an azamacrocyclic chelator to confer residualizing properties on the radioiodine metabolites. Robust protocols, such as this example, are required for the future development of protein based drugs.
New Repetitive Control With Improved Steady-State Performance and Accelerated Transient (2013)

In repetitive control (RC), the enhanced servo performance at the fundamental frequency and its higher order harmonics is usually followed by undesired error amplifications at other frequencies. In this paper, we discuss a new structural configuration of the internal model in RC, wherein designers have more flexibility in the repetitive loop-shaping design, and the amplification of nonrepetitive errors can be largely reduced. Compared to conventional RC, the proposed scheme is especially advantageous when the repetitive task is subject to large amounts of nonperiodic disturbances. An additional benefit is that the transient response of this plug-in RC can be easily controlled, leading to an accelerated transient with reduced overshoots. Verification of the algorithm is provided by simulation of a benchmark regulation problem in hard disk drives, and by tracking-control experiments on a laboratory testbed of an industrial wafer scanner.
A comparative worst-case error analysis of some proposed six-port designs (1988)

A detailed analysis of the accuracy in complex-reflection coefficient measurement by the six-port technique is discussed. The expression of the relative error in amplitude measurement of the complex reflection due to power-reading errors are derived in worst-case situation using both the basic six-port and sensitivity analysis theories. The precision of measurement of any point in the Smith chart is obtained by reference to lines of constant errors (amplitude and phase) drawn on the Smith chart for various proposed six-port correlators (junctions). A comparison of three proposed six-port designs shows that the Engens six-port design presents the best performance for a given power measurement accuracy. A maximum dynamic range of 60 dB seems to be a limit for six-port reflectometers using a good-quality power detector ( alpha =0.1%).< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>