gebhart/patrepeval huggingface dataset:
The A-superfamily of Conotoxins (2004)

The generation of functional novelty in proteins encoded by a gene superfamily is seldom well documented. In this report, we define the A-conotoxin superfamily, which is widely expressed in venoms of the predatory cone snails (Conus), and show how gene products that diverge considerably in structure and function have arisen within the same superfamily. A cDNA clone encoding alpha-conotoxin GI, the first conotoxin characterized, provided initial data that identified the A-superfamily. Conotoxin precursors in the A-superfamily were identified from six Conus species: most (11/16) encoded alpha-conotoxins, but some (5/16) belong to a family of excitatory peptides, the kappaA-conotoxins that target voltage-gated ion channels. alpha-Conotoxins are two-disulfide-bridged nicotinic antagonists, 13-19 amino acids in length; kappaA-conotoxins are larger (31-36 amino acids) with three disulfide bridges. Purification and biochemical characterization of one peptide, kappaA-conotoxin MIVA is reported; five of the other predicted conotoxins were previously venom-purified. A comparative analysis of conotoxins purified from venom, and their precursors reveal novel post-translational processing, as well as mutational events leading to polymorphism. Patterns of sequence divergence and Cys codon usage define the major superfamily branches and suggest how these separate branches arose.
New Methodology and Instrumentation for Follicular Unit Extraction: Lower Follicle Transection Rates and Expanded Patient Candidacy (2008)

It appears that the SAFE System provides the methodology and instrumentation to enhance current FUE techniques and expand patient candidacy. The transection rate of this method compares favorably with traditional microscope graft dissection. Physicians with a modicum of technical skills can use the technique, and there does not appear to be a significant adverse reaction rate.
3D integrated monolayer graphene–Si CMOS RF gas sensor platform (2017)

Abstract Integration of a complementary metal-oxide semiconductor (CMOS) and monolayer graphene is a significant step toward realizing low-cost, low-power, heterogeneous nanoelectronic devices based on two-dimensional materials such as gas sensors capable of enabling future mobile sensor networks for the Internet of Things (IoT). But CMOS and post-CMOS process parameters such as temperature and material limits, and the low-power requirements of untethered sensors in general, pose considerable barriers to heterogeneous integration. We demonstrate the first monolithically integrated CMOS-monolayer graphene gas sensor, with a minimal number of post-CMOS processing steps, to realize a gas sensor platform that combines the superior gas sensitivity of monolayer graphene with the low power consumption and cost advantages of a silicon CMOS platform. Mature 0.18 µm CMOS technology provides the driving circuit for directly integrated graphene chemiresistive junctions in a radio frequency (RF) circuit platform. This work provides important advances in scalable and feasible RF gas sensors specifically, and toward monolithic heterogeneous graphene–CMOS integration generally.
Biomimetic smart sensors for autonomous robotic behavior I: acoustic processing (2009)

Robotics are rapidly becoming an integral tool on the battlefield and in homeland security, replacing humans in hazardous conditions. To enhance the effectiveness of robotic assets and their interaction with human operators, smart sensors are required to give more autonomous function to robotic platforms. Biologically inspired sensors are an essential part of this development of autonomous behavior and can increase both capability and performance of robotic systems. Smart, biologically inspired acoustic sensors have the potential to extend autonomous capabilities of robotic platforms to include sniper detection, vehicle tracking, personnel detection, and general acoustic monitoring. The key to enabling these capabilities is biomimetic acoustic processing using a time domain processing method based on the neural structures of the mammalian auditory system. These biologically inspired algorithms replicate the extremely adaptive processing of the auditory system yielding high sensitivity over broad dynamic range. The algorithms provide tremendous robustness in noisy and echoic spaces; properties necessary for autonomous function in real world acoustic environments. These biomimetic acoustic algorithms also provide highly accurate localization of both persistent and transient sounds over a wide frequency range, using baselines on the order of only inches. A specialized smart sensor has been developed to interface with an iRobot Packbot® platform specifically to enhance its autonomous behaviors in response to personnel and gunfire. The low power, highly parallel biomimetic processor, in conjunction with a biomimetic vestibular system (discussed in the companion paper), has shown the system's autonomous response to gunfire in complicated acoustic environments to be highly effective.
Genetic and molecular analysis of tomato <i>Cf</i> genes for resistance to <i>Cladosporium fulvum</i> (1998)

In many plant-pathogen interactions resistance to disease is controlled by the interaction of plant-encoded resistance (R) genes and pathogen-encoded avirulence (Avr) genes. The interaction between tomato and the leaf mould pathogen Cladosporium fulvum is an ideal system to study the molecular basis of pathogen perception by plants. A total of four tomato genes for resistance to C. fulvum (Cf-2, Cf-4, Cf-5 and Cf-9) have been isolated from two genetically complex chromosomal loci. Their gene products recognize specific C. fulvum-encoded avirulence gene products (Avr2, Avr4, Avr5 and Avr9) by an unknown molecular mechanism. Cf genes encode extracellular membrane-anchored glycoproteins comprised predominantly of 24 amino acid leucine-rich repeats (LRRs). Cf genes from the same locus encode proteins which are more than 90% identical. Most of the amino-acid sequence differences correspond to the solvent-exposed residues within a beta-strand/beta-turn structural motif which is highly conserved in LRR proteins. Sequence variability within this motif is predicted to affect the specificity of ligand binding. Our analysis of Cf gene loci at the molecular level has shown they comprise tandemly duplicated homologous genes, and suggests a molecular mechanism for the generation of sequence diversity at these loci. Our analysis provides further insight into the molecular basis of pathogen perception by plants and the organization and evolution of R gene loci.
Influence of dietary protein and lipid on weight loss in obese ovariohysterectomized cats (2000)

Cats can lose 25 to 30% of their obese body weight over 7 to 9 weeks without developing overt clinical signs of HL, provided that weight-reduction diets are highly palatable, contain a high quality protein, have a source of LCEFA, and are fortified with vitamins and microminerals. However, rapid weight loss may increase risk factors associated with development of diabetes mellitus.
Genetic evidence supports the development of SLC26A9 targeting therapies for the treatment of lung disease (2022)

Over 400 variants in the cystic fibrosis (CF) transmembrane conductance regulator (CFTR) are CF-causing. CFTR modulators target variants to improve lung function, but marked variability in response exists and current therapies do not address all CF-causing variants highlighting unmet needs. Alternative epithelial ion channel/transporters such as SLC26A9 could compensate for CFTR dysfunction, providing therapeutic targets that may benefit all individuals with CF. We investigate the relationship between rs7512462, a marker of SLC26A9 activity, and lung function pre- and post-treatment with CFTR modulators in Canadian and US CF cohorts, in the general population, and in those with chronic obstructive pulmonary disease (COPD). Rs7512462 CC genotype is associated with greater lung function in CF individuals with minimal function variants (for which there are currently no approved therapies; p = 0.008); and for gating (p = 0.033) and p.Phe508del/ p.Phe508del (p = 0.006) genotypes upon treatment with CFTR modulators. In parallel, human nasal epithelia with CC and p.Phe508del/p.Phe508del after Ussing chamber analysis of a combination of approved and experimental modulator treatments show greater CFTR function (p = 0.0022). Beyond CF, rs7512462 is associated with peak expiratory flow in a meta-analysis of the UK Biobank and Spirometa Consortium (p = 2.74 × 10<sup>-44</sup>) and provides p = 0.0891 in an analysis of COPD case-control status in the UK Biobank defined by spirometry. These findings support SLC26A9 as a therapeutic target to improve lung function for all people with CF and in individuals with other obstructive lung diseases.
Nonlinear observer design and experimental verification for heat exchangers during the start-up process (2005)

In this paper, a nonlinear observer design is proposed to estimate the two-phase section length in the evaporator during the start-up process for the use of oil monitoring of air conditioning systems. The dynamic system is non-autonomous due to the time-varying parameters such as heat transfer coefficients. The convergence of the observer is proved using contraction theory which is applicable to non-autonomous systems and the experiment testing demonstrates the accuracy and convergence of the nonlinear observer.
Design and Synthesis of Systemically Active Metabotropic Glutamate Subtype-2 and -3 (mGlu<sub>2/3</sub>) Receptor Positive Allosteric Modulators (PAMs): Pharmacological Characterization and Assessment in a Rat Model of Cocaine Dependence (2014)

As part of our ongoing small-molecule metabotropic glutamate (mGlu) receptor positive allosteric modulator (PAM) research, we performed structure-activity relationship (SAR) studies around a series of group II mGlu PAMs. Initial analogues exhibited weak activity as mGlu2 receptor PAMs and no activity at mGlu3. Compound optimization led to the identification of potent mGlu2/3 selective PAMs with no in vitro activity at mGlu1,4-8 or 45 other CNS receptors. In vitro pharmacological characterization of representative compound 44 indicated agonist-PAM activity toward mGlu2 and PAM activity at mGlu3. The most potent mGlu2/3 PAMs were characterized in assays predictive of ADME/T and pharmacokinetic (PK) properties, allowing the discovery of systemically active mGlu2/3 PAMs. On the basis of its overall profile, compound 74 was selected for behavioral studies and was shown to dose-dependently decrease cocaine self-administration in rats after intraperitoneal administration. These mGlu2/3 receptor PAMs have significant potential as small molecule tools for investigating group II mGlu pharmacology.
Balanced excitation and inhibition in a spiking model of V1 (2013)

Experimental studies have shown that neuronal excitation is balanced with inhibition and spikes are triggered only when that fine balance is perturbed. It is also known that inhibition is critical for receptive field tuning, yet it is not clear what role is played by different types of inhibitory interneurons and how the corresponding balanced circuitry could emerge via spike timing dependent plasticity (STDP). To study these questions we have constructed a large-scale detailed spiking model of V1 involving a variety of simulated neurons: fast-spiking (FS) interneurons, low threshold spiking (LTS) interneurons and regular spiking (RS) neurons. We modeled layer 4 and layer 2/3 of the primary visual cortex and a number of projections between cell types in agreement with anatomical data.

Synaptic dynamics is governed by a set of STDP and activity dependent plasticity mechanisms for both inhibitory and excitatory synapses. The plasticity rules have been chosen to be in quantitative agreement with experiment where the data is available. For many of connections however, the data is either unavailable or noisy. In these cases plasticity rules were chosen based on a guided guess constrained by the requirement of structural stability of the system and expected response properties of cells to probing stimuli. Together, the plasticity rules lead to stable neuronal response and formation of orientation-selective receptive fields. The network learns simple and complex cells of a broad range of orientations and spatial frequencies.

The model converges to a balanced neurodynamics and biologically reasonable firing rates. Our study shows that in the presence of strong thalamic drive, plastic inhibition is necessary for feature selectivity. The FS cells remove DC component of the input while firing of the LTS cells imposes sparse response and balances out feedback excitation.
Susceptibility genes for gentamicin‐induced vestibular dysfunction (2007)

PURPOSE: To identify susceptibility genes associated with gentamicin‐ (GM; an aminoglycoside antibiotic) induced vestibular dysfunction. METHODS: A case/control analysis was performed. White cases (n=137; 55 men, 82 women) were recruited based on physician‐confirmed unilateral or bilateral vestibular dysfunction attributed to GM administration. Controls (n=126; 54 men, 72 women) were healthy, age‐matched individuals without vestibular dysfunction or balance impairment. Buccal cell samples were obtained from all subjects and DNA was genotyped for 15 polymorphisms in 9 genes. Statistical analyses included the multi‐dimensionality reduction (MDR) method for identifying gene × gene interactions across multiple candidate genes. RESULTS: Both single gene and MDR analyses revealed that the ENOS Glu298Asp polymorphism was significantly associated with GM‐induced vestibular dysfunction (both P<0.05). MDR analysis revealed a three‐gene combination, consisting of ENOS (Glu298Asp), GSTZ1 (Lys32Glu), and GSTP1 (Ile105Val), that provided the highest predictive model for GM‐induced vestibular dysfunction (64% accuracy; p=0.001). CONCLUSION: The results indicate that carriers of risk alleles at three oxidative stress‐related genes have increased susceptibility to GM‐induced vestibular dysfunction.
Bonelike Hydroxyapatite Induction by a Gel‐Derived Titania on a Titanium Substrate (1994)

Gel‐derived titania coating on commercial pure (c.p.) titanium induces hydroxyapatite formation onto its surface from a simulated body fluid (SBF, a metastable calcium phosphate solution). The induced apatite is similar to bone apatite in that it is poorly crystallized, calcium‐deficient, and carbonate‐containing. Furthermore, the carbonate (CO 2–3 ) groups go into the apatite lattice and lie at the positions of PO 3–4 and OH – to replace these ionic groups, resembling the (CO 2–3 ) groups of bone apatite. Therefore, the apatite induced by the gel‐derived titania is said to be bonelike. A chemical stimulation, stemming from abundant hydroxyl groups and negative charges at the surface of the titania gel, is believed to be responsible for the bonelike apatite induction. The potential of bone‐bonding is predicted for the gel‐derived titania, for it is an efficient bonelike apatite inducer in the SBF.
Synthesis of Dual Two-Phase Ni<SUB>3</SUB>Al-Ni<SUB>3</SUB>V Intermetallic Alloys Containing Nb by Pulse Current Sintering (2011)

A dual two-phase Ni3Al-Ni3V intermetallic alloy with a nominal composition of Ni75.0Al7.5V15.0Nb2.5 (at%) doped with 50 mass ppm boron was synthesized by the powder metallurgy process using elemental powders. Raw powder mixture was sintered at temperatures from 1073 K to 1373 K by the pulse current sintering method and then annealed in a vacuum at 1553 K for 3 h. The dual two-phase intermetallic alloy whose microstructure exhibits the cuboidal primary Ni3Al phase and the surrounding channel region composed of Ni3Al and Ni3V phases, and contains neither voids nor intermediate products were obtained by sintering at a high temperature of 1373 K and by subsequent annealing at 1553 K. Also, the well synthesized and annealed samples showed finer grain sizes, i.e., about 30 μm than the cast alloys fabricated by the ingot metallurgy process. The hardness of the synthesized samples increased with increasing sintering temperature and also by the subsequent annealing at 1553 K.
The Bw4 public epitope of HLA-B molecules confers reactivity with natural killer cell clones that express NKB1, a putative HLA receptor. (1995)

Although inhibition of natural killer (NK) cell-mediated lysis by the class I HLA molecules of target cells is an established phenomenon, knowledge of the features of class I molecules which induce this effect remains rudimentary. Using class I alleles HLA-B*1502 and B*1513 which differ only at residues 77-83 which define the Bw4 and Bw6 serological epitopes, we tested the hypothesis that the presence of the Bw4 epitope on class I molecules determines recognition by NKB1+ NK cells. HLA-B*1513 possesses the Bw4 epitope, whereas B*1502 has the Bw6 epitope. Lysis by NKB1+ NK cell clones of transfected target cells expressing B*1513 as the only HLA-A, -B, or -C molecule was inhibited, whereas killing of transfectants expressing B*1502 was not. Addition of an an anti-NKB1 monoclonal antibody reconstituted lysis of the targets expressing B*1513, but did not affect killing of targets bearing B*1502. The inhibitory effect of B*1513 could be similarly prevented by the addition of an anti-class I monoclonal antibody. These results show that the presence of the Bw4 epitope influences recognition of HLA-B molecules by NK cells that express NKB1, and suggest that the NKB1 molecule may act as a receptor for Bw4+ HLA-B alleles. Sequences outside of the Bw4 region must also affect recognition by NKB1+ NK cells, because lysis of transfectants expressing HLA-A*2403 or A*2501, which possess the Bw4 epitope but are in other ways substantially different from HLA-B molecules, was not increased by addition of the anti-NKB1 antibody. Asparagine 86, the single site of N-linked glycosylation on class I molecules, is in close proximity to the Bw4/Bw6 region. The glycosylation site of the Bw4-positive molecule B*5801 was mutated, and the mutant molecules tested for inhibition of NKB1+ NK cells. Inhibition that could be reversed by addition of the anti-NKB1 monoclonal antibody was observed, showing the presence of the carbohydrate moiety is not essential for class I recognition by NKB1+ NK cell clones.
Three-dimensional deep tissue multiphoton frequency-domain fluorescence lifetime imaging microscopy via phase multiplexing and adaptive optics (2019)

We propose and demonstrate a novel multiphoton frequency-domain fluorescence lifetime imaging microscopy (MPM-FD-FLIM) system that is able to generate 3D lifetime images in deep scattering tissues. The imaging speed of FD-FLIM is improved using phase multiplexing, where the fluorescence signal is split and mixed with the reference signal from the laser in a multiplexing manner. The system allows for easy generation of phasor plots, which not only address multi-exponential decay problems but also clearly represent the dynamics of the fluorophores being investigated. Lastly, a sensorless adaptive optics setup is used for FLIM imaging in deep scattering tissues. The capability of the system is demonstrated in fixed and living animal models, including mice and zebrafish.
High-resolution contact Denisyuk holography (1992)

The configurations, to assure high resolution in contact Denisyuk holography, are investigated by varying the construction and the viewing angles in the recording and the reconstruction setups, respectively. A range of optimized angles, obtained with Agfa 8E75 HD plates is given. These results are compared with another holographic material. To introduce this holographic technique in medical diagnostics, we made holograms of various stained-tissue samples. These holograms have been improved by the selection of tissue-staining dyes and their concentrations.
A distance-immune low-power 4-Mbps inductively-coupled bidirectional data link (2017)

A distance-immune inductively coupled link is based on a free-running oscillator tuned by coupled resonators. It can transfer data at up to 4 Mbps and 2 Mbps in half duplex with an LSK uplink and ASK downlink, respectively (at BER<; 5 × 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-8</sup> ). In uplink direction, the implanted unit consumes less than 0.1 pJ/bit while transmitting.
Video based non-cooperative iris segmentation (2008)

Iris segmentation is one of the most important steps in an iris recognition system. Its accuracy can directly affect the recognition accuracy. For non-cooperative users, the obtained images often do not have good quality. Under such conditions, the iris may be deformed, out-of-focus, or motion blurred. Sometimes, images do not have a valid iris. It is very challenging to segment the iris efficiently and accurately under a non-cooperative scenario. In this paper, we proposed a novel segmentation method that uses a coarse to fine approach to extract the iris region. The preliminary result shows the proposed method is efficient and accurate.
A New Soybean Aphid (Hemiptera: Aphididae) Biotype Identified (2010)

Shortly after its arrival, the soybean aphid, Aphis glycines Matsumura (Hemiptera: Aphididae), became established as the most important insect pest of soybean, Glycine max L. (Merr.), in the northern part of the North American soybean production region. Soybean resistance is an environmentally sustainable method to manage the pest and new soybean aphid resistant cultivars are beginning to be deployed into production. However, an earlier study identifying a soybean aphid biotype that could colonize plants with the Rag1 resistance gene has raised concerns about the durability of soybean aphid resistance genes. Choice and nonchoice tests conducted in this study characterized the colonization of a soybean aphid isolate, collected from the overwintering host Frangula alnus P. Mill in Springfield Fen, IN, on different aphid resistant soybean genotypes. This isolate readily colonized plants with the Rag2 resistance gene, distinguishing it from the two biotypes previously characterized and indicating that it represented a new biotype named biotype 3. The identification of soybean aphid biotypes that can overcome Rag1 and Rag2 resistance, even before soybean cultivars with the resistance genes have been deployed in production, suggests that there is high variability in virulence within soybean aphid populations present in North America. Such variability in virulence gives the pest a high potential to adapt to and reduce the effective life of resistance genes deployed in production. The search for new soybean aphid resistance genes must, therefore, continue, along with the development of alternative sustainable strategies to manage the pest.
Aluminum Lithium Alloy 2195 Fusion Welding Improvements with New Filler Wire (2000)

A viewgraph presentation outlines NASA Marshall Space Flight Center, Lockheed Martin Michoud Space Systems, and McCook Metals' development an aluminum-copper weld filler wire for fusion welding 2195 aluminum lithium. The aluminum-copper based weld filler wire has been identified as B218, which is the result of six years of weld filler wire development funded by NASA, Lockheed Martin, and McCook Metals. The Super Lightweight External Tank for the NASA Space Shuttle Program consists of 2195 welded with 4043 aluminum-silicon weld filler wire. The B218 filler wire chemistry was developed to produce enhanced 2195 weld and repair weld mechanical properties. An initial characterization of the B218 weld filler wire was performed consisting of initial weld and repair weld evaluation comparing B218 and 4043. The testing involved room temperature and cryogenic tensile testing along with fracture toughness testing. B218 weld filler wire proved to produce enhanced initial and repair weld tensile and fracture properties over 4043. B218 weld filler wire has proved to be a superior weld filler wire for welding 2195 and other aluminum lithium alloys over 4043.