gebhart/patrepeval huggingface dataset:
Abstract PL-1: Genome-Directed Therapeutics for Endocrine Therapy Resistant ER+ Breast Cancer (2015)

Abstract As a result of improvements in DNA and RNA sequencing techniques the genomic structure of estrogen receptor positive breast cancer is increasingly well documented, but extracting clinically actionable information from these complex data sets has proved fraught with difficulties. Barriers to progress include the lack of pharmacological hypotheses for novel luminal breast cancer tumor suppressor genes (e.g. MAP3K1, MLL3, SF3B1); 2) a lack of a full understanding of interactions between mutation status, the prognosis of ER+ breast cancer, and the effectiveness of endocrine therapy; 3) an inadequate collection of patient-derived xenograft (PDX) models for luminal breast cancer that fully encompass the heterogeneity of the disease; 4) the logistical barriers of developing adjuvant strategies to exploit rare drivers present in less than 5% of tumor samples; 5) insufficient genomic discovery efforts directed towards samples accrued from patients suffering from endocrine therapy resistant disease progression and 6) an incomplete understanding of how complex somatic genotypes drive the biochemical events responsible for the “hallmarks” of luminal cancer. To better address these issues, five areas of investigation will be discussed: 1) somatic mutation diagnosis in DNA from primary breast cancer samples from patients treated with adjuvant tamoxifen and followed for over 20 years; 2) DNA and RNA sequencing of samples accrued from patients treated with neoadjuvant endocrine therapy to define the molecular origins of intrinsic aromatase inhibitor resistance and to identify pharmacological hypothesis; 3) efforts to expand and catalog patient-derived xenografts from ER+ breast cancers, including the use of mass spectrometry-based analysis of their proteomes and phosphoproteomes to expand our knowledge of the biochemistry of individual tumors; 4) a functional and pharmacological investigation of mutations in ESR1, including resistance-activating chromosomal translocations, and 5) the development of a neoadjuvant endocrine therapy strategy that identifies patients with intrinsic endocrine therapy resistance within a month of starting treatment so that they can be triaged to mutation-matched investigational treatment. Citation Format: Matthew J. Ellis. Genome-Directed Therapeutics for Endocrine Therapy Resistant ER+ Breast Cancer [abstract]. In: Proceedings of the Thirty-Seventh Annual CTRC-AACR San Antonio Breast Cancer Symposium: 2014 Dec 9-13; San Antonio, TX. Philadelphia (PA): AACR; Cancer Res 2015;75(9 Suppl):Abstract nr PL-1.
A Generic Digital $nk \pm m$-Order Harmonic Repetitive Control Scheme for PWM Converters (2013)

In this paper, a generic digital nk ± m-order harmonic repetitive control ( nk ± m RC) scheme is presented for constant-voltage constant-frequency pulsewidth-modulation (PWM) converters to track/remove any nk ± m-order harmonic frequencies efficiently, e.g., 4k ± 1-order harmonics for single-phase converters or 6k ± 1-order harmonics for three-phase converters. Compared with conventional RC, the proposed nk ± m RC occupies less data memory and can achieve zero-error tracking or perfect disturbance rejection of nk ± m-order harmonics at much faster error convergence rate. What is more, the proposed RC provides a unified formula for various RC schemes. Application examples of 6k ± 1-RC-controlled three-phase PWM inverter and 4k ± 1-RC-controlled single-phase PWM inverter demonstrate the effectiveness and advantages of the proposed RC scheme.
Track-Related Injuries in Children and Adolescents Treated in US Emergency Departments from 1991 Through 2008 (2012)

There are several age-, sex-, and activity-specific patterns of track-related injuries. Given the increased participation and corresponding increase in track-related injuries, more research is needed to determine how best to prevent these injuries.
Antimalarial Activity of New Dihydroartemisinin Derivatives. 7. 4-(p-Substituted phenyl)-4(R or S)-[10(α or β)-dihydroartemisininoxy]butyric Acids1-6 (1997)

To search for water soluble dihydroartemisinin derivatives with higher efficacy and longer plasma half-life than artesunic or artelinic acid, a series of new stereoisomers of 4-(p-substituted phenyl)-4(R or S)-[10(α or β)-dihydroartemisininoxy]butyric acids were synthesized as new potential antimalarial agents. Two approaches were taken in the design of these new molecules in an attempt to (a) increase the lipophilicity of the molecule and (b) decrease the rate of oxidative dealkylation of the target compounds. The new compounds showed a 2−10-fold increase in in vitro antimalarial activity against D-6 and W-2 clones of Plasmodium falciparum than artemisinin or artelinic acid. R-diastereomers are, in general, more potent than the corresponding S-diastereomers. p-Chlorophenyl and p-bromophenyl derivatives showed in vivo oral antimalarial activity against P. berghei (with 3/8 cured) superior to that of artelinic acid (1/8 cured), whereas p-fluorophenyl and p-methoxyphenyl analogs demonstrated activity only comparable (1/8 cured) to that of artelinic acid at the same dosage level (64 mg/kg twice a day). The in vivo antimalarial activity of these new compounds correlates with their SD50 (50% parasitemia suppression dose). The biological results suggested that an electronic effect, besides the lipophylicity, may play a role in determining the efficacy of this class of compounds.
Protein Folding Intermediates: Native-State Hydrogen Exchange (1995)

The hydrogen exchange behavior of native cytochrome c in low concentrations of denaturant reveals a sequence of metastable, partially unfolded forms that occupy free energy levels reaching up to the fully unfolded state. The step from one form to another is accomplished by the unfolding of one or more cooperative units of structure. The cooperative units are entire omega loops or mutually stabilizing pairs of whole helices and loops. The partially unfolded forms detected by hydrogen exchange appear to represent the major intermediates in the reversible, dynamic unfolding reactions that occur even at native conditions and thus may define the major pathway for cytochrome c folding.
A study of non-parallel and nonlinear effects on the localized receptivity of boundary layers (1995)

The acoustic receptivity due to localized surface suction in a two-dimensional boundary layer is studied using a finite-Reynolds-number theory and direct numerical simulation of the Navier-Stokes equations. Detailed comparisons between the two methods are used to determine the bounds for application of the theory. Results show a 4% difference between the methods for receptivity in the neighbourhood of branch I with low suction levels, low acoustic levels, and a moderate frequency; we attribute this difference to non-parallel effects, not included in the theory. The difference is larger for receptivity upstream of branch I, and smaller for receptivity downstream of branch I. As the peak suction level is increased to 1% of the free-stream velocity, the simulations show a nonlinear deviation from the theory. Suction levels as small as 0.1% are shown to have a significant effect on the instability growth between branch I and branch II. Increasing the acoustic amplitude to 1% of the steady free-stream velocity produces no significant nonlinear effect.
CMOS time-to-digital converter structures for the integrated receiver of a pulsed time-of-flight laser rangefinder (2011)

The aim of this thesis was to develop time-to-digital converters (TDC) for the integrated receiver of a pulsed time-of-flight (TOF) laser rangefinder aiming at cm-level accuracy over an input range of 10 m – 15 m. A simple structure, a high integration level and low power consumption are the desired features for such a TDC. From the pulsed TOF laser rangefinder point of view an integrated receiver consisting of both the TDC and the receiver channel on the same die offers the possibility of manufacturing these laser rangefinders with a high integration level and at a low price to fulfil the needs of mass industrial markets. The heart of the TDC is a CMOS ring oscillator, the clock frequency of which is used to calculate the full clock cycles between timing signals, the positions of the timing signals inside the clock period being determined by storing the state of the phase of the ring oscillator for each timing signal. This will improve the resolution of the TDC. Also, additional delay lines are used to generate multiple timing signals, each having a time difference of a fraction of that of the ring oscillator. This will further improve the resolution of the whole TDC. To achieve stable results regardless of temperature and supply voltage variations, the TDC is locked to an on-chip reference voltage, or the resolution of the TDC is calibrated before the actual time interval measurement. The systematic walk error in the receiver channel caused by amplitude variation in the received pulse is compensated for by the TDC measuring the slew rate of the received pulse. This time domain compensation method is not affected by the low supply voltage range of modern CMOS technologies. Three TDC prototypes were tested. A single-shot precision standard deviation of 16 ps (2.4 mm) and a power consumption of 5.3 mW/channel were achieved at best over an input range of 100 ns (15 m). The temperature drifts of an on-chip voltage reference-locked TDC and a TDC based on the calibration method were 90 ppm/°C and 0.27 ps/°C, respectively. The results also showed that a pulsed TOF laser rangefinder with cm-level accuracy over a 0 – 15 m input range can be realized using the integrated receiver with the time domain walk error compensation described here.
Reliable Two-Hop Device-To-Device Communications For UAVs (2019)

With the development of UAV (Unmanned Aerial Vehicle) applications, reliable control on the UAV group is believed to be an important issue. One of the decisive elements for the ground node to perform reliable control is UAV communication. However, when a UAV with a poor link to the ground node, it may suffer from low communication reliability. In order to maintain communication reliability, it is beneficial for UAV networks to introduce relay and form the two-hop UAV network structure. As a result, we propose a cellular D2D (Device-to-Device Communications) based MAC design for UAV network supporting high reliable communication and two-hop topology in this paper. To further enhance reliability, four feedback mechanisms are compared to find a better solution for the two-hop UAV network. Simulation and analysis are provided to evaluate the performance of UAV network in cellular D2D technology.
Protocol for Ultralow-Temperature Ceramic Sintering: An Integration of Nanotechnology and the Cold Sintering Process (2016)

The sintering process is an essential step in taking particulate materials into dense ceramic materials. Although a number of sintering techniques have emerged over the past few years, the sintering process is still performed at high temperatures. Here we establish a protocol to achieve dense ceramic solids at extremely low temperatures (<200 °C) via integrating the particle nanotechnology into the recently developed cold sintering process (CSP). The sintering path has been appropriately tailored via effectively utilizing the large surface-to-volume ratio of nanoparticles. BaTiO<sub>3</sub> ceramics have been used for the illustration, given its importance in extensive electronic device applications, as well as its scientific interest, being a model material for many of the ferroelectric materials. Together with detailed experimental studies, the trends are also analyzed with a fundamental thermodynamic consideration. Such an impactful technique could have widespread application prospects in a wide variety of materials and would also provide a clear roadmap to guide future studies on ultralow-temperature ceramic sintering, ceramic materials related integration, and sustainable manufacturing practices.
[Decompressive craniectomy in acute encephalitis]. (2006)

We report a patient with acute encephalitis of unknown causation who underwent hemicraniectomy because of threatening herniation. The patient recovered uneventfully and three weeks later, findings on neurological examination were normal. Hemicraniectomy should be considered in all patients with encephalitis and threatening herniation.
A 617 TOPS/W All Digital Binary Neural Network Accelerator in 10nm FinFET CMOS (2020)

A 10nm digital Binary Neural Network (BNN) chip implements 1b activations and weights for compute density of 418TOPS/mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> and memory density of 414KB/mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> . The chip achieves an energy efficiency of 617TOPS/W by leveraging Compute Near Memory (CNM), parallel inner product compute, and Near-Threshold Voltage (NTV) operation. The digital BNN design approaches the energy efficiency of analog in-memory techniques while also ensuring deterministic, scalable, and precise operation.
FALSE ANEURYSM OF THE LEFT VENTRICLE: CASE REPORT WITH PRE- AND POSTOPERATIVE EVALUATION. (1978)

A 66-year-old woman developed chronic congestive heart failure after myocardial infarction of the anterior wall of the left ventricle. Angiographic studies revealed total proximal occlusion of the left anterior descending coronary artery and a large saccular aneurysm located on the anteroapical aspect of the left ventricle. Resection of a false aneurysm at operation resulted in improved cardiac function, and the patient made an uneventful recovery. Repeat evaluation six months later confirmed normal cardiac hemodynamics and left ventricular angiographic characteristics. To our knowledge, this is the first documented case of normalized heart function resulting from resection of a false aneurysm of the left ventricle. Functional classification according to the New York Heart Association improved dramatically, rising from Class IV preoperatively to Class I after operation.
Optimization of the optical parameters in Fabry-Perot interferometer (2017)

Due to insensitivity to the environmental disturbances, Fabry-Perot interferometers are suitable for displacement measurements under ordinary conditions. In the structure of folded Fabry-Perot interferometer, the results of the signal subdivision are affected by the optical parameters in the resonant cavity. In this paper, the analysis of the Fabry-Perot interferometer for the measurement of the micro-displacement and the long-distance are investigated. By considering the reflectance of the planar mirror and the intensity loss in the resonant cavity, the parameters of systematic optimization which are suitable for the measurement of the micro-displacement and the long-distance are proposed. The experimental and simulated results reveal that the intensity loss in the resonant cavity is 86% and the optimized reflectance of the planar mirror is 12%.
Clinical outcomes in statin treatment trials: a meta-analysis. (1999)

Patients who received statin treatment demonstrated a 20% to 30% reduction in death and major cardiovascular events compared with patients who received placebo. This advantage was generally present across study types and statin treatment types and for patients with less severe dyslipidemias. The benefit in clinical outcomes was noticeable as early as 1 year.
TCRβ repertoire of CD4+ and CD8+ T cells is distinct in richness, distribution, and CDR3 amino acid composition (2015)

The TCR repertoire serves as a reservoir of TCRs for recognizing all potential pathogens. Two major types of T cells, CD4(+) and CD8(+), that use the same genetic elements and process to generate a functional TCR differ in their recognition of peptide bound to MHC class II and I, respectively. However, it is currently unclear to what extent the TCR repertoire of CD4(+) and CD8(+) T cells is different. Here, we report a comparative analysis of the TCRβ repertoires of CD4(+) and CD8(+) T cells by use of a 5' rapid amplification of cDNA ends-PCR-sequencing method. We found that TCRβ richness of CD4(+) T cells ranges from 1.2 to 9.8 × 10(4) and is approximately 5 times greater, on average, than that of CD8(+) T cells in each study subject. Furthermore, there was little overlap in TCRβ sequences between CD4(+) (0.3%) and CD8(+) (1.3%) T cells. Further analysis showed that CD4(+) and CD8(+) T cells exhibited distinct preferences for certain amino acids in the CDR3, and this was confirmed further by a support vector machine classifier, suggesting that there are distinct and discernible differences between TCRβ CDR3 in CD4(+) and CD8(+) T cells. Finally, we identified 5-12% of the unique TCRβs that share an identical CDR3 with different variable genes. Together, our findings reveal the distinct features of the TCRβ repertoire between CD4(+) and CD8(+) T cells and could potentially be used to evaluate the competency of T cell immunity.
Laser-induced shock effects in Plexiglas and 6061-T6 aluminum (1973)

The mass removal per unit area from Plexiglas and 6061-T6 aluminum targets irradiated in air with a giant pulsed laser is presented as a function of incident fluence. This quantity appears to be a strong function of the focal length of the focusing lens. Air breakdown in the presence of a target occurs at fluences greater than 380 J/cm2 for Plexiglas targets and 159 J/cm2 for aluminum targets. Photographic evidence of the back-face spallation of a 0.1-cm-thick aluminum sample irradiated in vacuum is presented. The mirror-finished target was inclined at 45° to the incident beam and irradiated with a fluence of approximately 5000 J/cm2.
Defect of Receptor–Cyclase Coupling Protein in Pseudohypoparathyroidism (1980)

Hormone-sensitive adenylate cyclase contains a recently discovered protein component that is required for stimulation of cyclic AMP synthesis by hormones and guanine nucleotides; the component presumably couples the membrane receptor to the cyclase. We studied this protein (termed "N") in erythrocyte membranes of patients with pseudohypoparathyroidism, using assays of the protein's biochemical activity and of its susceptibility to radiolabeling in the presence of [32P]NAD and cholera toxin. By both assays, the protein's activity was reduced by 40 to 50 per cent in erythrocytes of five of 10 patients with Type I pseudohypoparathyroidism as compared with those of normal and hypoparathyroid subjects and one patient with Type II pseudohypoparathyroidism. If activity of the N protein is reduced in other tissues, this deficiency could cause the resistance of target organs in pseudohypoparathyroidism to parathyroid hormone and other hormones that work via cyclic AMP. Erythrocytes of five patients with Type I pseudohypoparathyroidism, all in one family, showed no defect in activity of the N protein; the biochemical defect of this family remains undefined.
Analytical Ground-Water Flow Solutions for Channel-Aquifer Interaction (1999)

A general solution scheme for determining ground-water levels for channel/group-water systems with recharge is developed and verified. The analytical solution uses the Laplace transform method to solve a linearized form of the Boussinesq equation. Unlike other solutions, this scheme allows for both boundaries and sources/sinks to vary as a function of time and space. To verify the analytical scheme, three one-dimensional case studies of flow between two line sources in an unconfined aquifer were explored through a base run and a set of sensitivity analyses. These runs involved comparisons to MODFLOW and changes in the boundary conditions and dimensions. As noted, the flow equations were linearized about a point called the representative flow depth. A value of havg, defined as the average water depth between the initial and steady flow conditions, was used as the representative flow depth. Results of the proposed method matched very well with MODFLOW solutions for all times and locations using an optimal linearization point. In addition, using havg improved the solutions compared to those obtained previously.
Size-dependent evolution of the atomic vibrational density of states and thermodynamic properties of isolated Fe nanoparticles (2012)

We have gained insight into the internal degree of atomic disorder in isolated size-selected Fe nanoparticles (NPs) (\ensuremath{\sim}2--6 nm in size) supported on SiO${}_{2}$/Si(111) and Al${}_{2}$O${}_{3}$(0001) from precise measurements of the low-energy (low-$E$) part of the phonon density of states [PDOS, $g$($E$)] via ${}^{57}$Fe nuclear resonant inelastic x-ray scattering (NRIXS) combined with transmission electron microscopy (TEM) measurements. An intriguing size-dependent trend was observed, namely, an increase of the low-$E$ excess density of phonon states (as compared to the PDOS of bulk bcc Fe) with increasing NP size. This is unexpected, since usually the enhancement of the density of low-$E$ phonon modes is attributed to low-coordinated atoms at the NP surface, whose relative content increases with decreasing NP size due to the increase in the surface-to-volume ratio. Our NPs are covered by a Ti-coating layer, which essentially restores the local neighborhood of surface Fe atoms towards bulk-like coordination, reducing the surface effect. Our data can be qualitatively explained by the existence of low-coordinated Fe atoms located at grain boundaries or other defects with structural disorder in the interior of the large NPs (\ensuremath{\sim}3--6 nm), while our small NPs (\ensuremath{\sim}2 nm) are single grain and, therefore, characterized by a higher degree of structural order. This conclusion is corroborated by the observation of Debye behavior at low energy [$g$($E$) \ensuremath{\sim} ${E}^{n}$ with $n$ \ensuremath{\sim} 2] for the small NPs, but non-Debye behavior (with $n$ \ensuremath{\sim} 1.4) for the large NPs. The PDOS was used to determine thermodynamic properties of the Fe NPs. Finally, our results demonstrate that, in combination with TEM, NRIXS is a suitable technique to investigate atomic disorder/defects in NPs. We anticipate that our findings are universal for similar NPs with bcc structure.
Thermopile as THz detector (2010)

A novel MEMS thermopile structure is presented, in which the thermopairs act as dipole antennas. The induced current heats the hot point of the thermopairs. The thermoelectric output voltage is proportional to the absorbed radiation power. The antenna-like feature of the device is demonstrated by the dependence of the sensitivity on the polarization. 5.58 V/W responsivity was achieved at 0.1 THz without optimizing the structure and the measuring conditions.
Giardiasis surveillance--United States, 1998-2002. (2005)

Giardiasis surveillance provides data to educate public health practitioners and health-care providers about the epidemiologic characteristics and the disease burden of giardiasis in the United States. These data are used to improve reporting of cases, plan prevention efforts, and establish research priorities.