gebhart/patrepeval huggingface dataset:
Systematic performance status assessment by primary care providers in patients with advanced cancer and its impact on referral to palliative care and cost in a value-based practice. (2022)

6595 Background: Value Based (VB) Care model has been growing in the primary care (PrC) Medicare population, its role in oncology and integration with VB PrC has not been well defined. Key initiatives in VB include reducing hospitalizations by multidisciplinary management of chronic conditions. Earlier Palliative Care (PaC) has shown to favorably impact outcomes. Eastern Cooperative Oncology Group Performance Status (ECOG-PS) is a validated tool used for decision making. Poor PS is associated with worse outcomes and futile end of life care; Guidelines recommend using ECOG-PS to decide on involvement of PaC in patients (pts) with metastatic cancer (mCa). ECOG-PS is subject to significant variability among oncologists and rarely used by PrC providers (PCPs). We created a standardized system for ECOG-PS documentation and monitoring by PCPs in a VB model in a large Medicare Advantage (MA) population with the goal of increasing earlier PaC referrals. Methods: Pts with mCa managed by PCPs in a multi-state MA practice were identified via EMR from February 2021 to September 2021. At every visit, an automated alert asked PCPs to determine pts’ ECOG-PS and for those ≥ 2, recommendation to refer to PaC. PCPs were trained on use of the tool and were given a script to discuss with pts the role of PaC. Hospital admissions as well as total cost of care was measured in pts comanaged by PCP’s &amp; PaC versus those managed by PCPs &amp;Oncology without PaC. Statistical analysis between the groups was done using Pearson's Chi-squared test with Yates' continuity correction. Results: An ECOG-PS was measured in a total of 565 pts with mCa during the study period. Median age was 73 years, 40% were ≥75 yrs. 55% were female. Breast, Prostate, Lung, Colorectal and Gyn ca accounted for 75% cases. ECOG was documented in 97% of patients; 250 (44%) had ECOG ≥ 2, 124 (22%) had ECOG ≥ 3. Of those PaC referral was done by the PCP in 70%, in total 69 patients were comanaged by PC vs 181 who did not. Pts that had PaC involvement were 43% less likely (RR 0.57 [95%CI 0.33,0.98 p = 0.043]) to be admitted compared to patients without PC. Pts without PaC that were admitted had 238% higher admission days per 1,000 pts compared to pts comanaged by PaC. Total medical costs of pts comanaged by PaC was 86% lower after PaC involvement $18,541 3-months prior vs $2,742 3-months after PaC involvemen, driven by lower part A and part B costs (p=0.001) Conclusions: ECOG PS monitoring of pts with mCa by PCPs was very successful, easy to perform and implement in a PrC. Poor PS is common in this medicare advantage population. PaC involvement in pts with poor ECOG-PS was associated with lower admission rates at the end of life, and significantly lower total medical costs. [Table: see text]
An IPv6 Distributed Client Mobility Management approach using existing mechanisms (2017)

The use of centralized mobility management approaches -- such as
Mobile IPv6 -- poses some difficulties to operators of current and
future networks, due to the expected large number of mobile users and
their exigent demands. All this has triggered the need for distributed
mobility management alternatives, that alleviate operators'
concerns allowing for cheaper and more efficient network deployments.
This draft describes a possible way of achieving a distributed
mobility behavior with Client Mobile IP, based on Mobile IPv6 and the
use of Cryptographic Generated Addresses.
A single-stage cryogenic LNA with low power consumption using a commercial SiGe HBT (2014)

A cryogenically cooled low noise amplifier (LNA) has been designed, built and tested at the Astronomy Instrumentation Laboratory at Arizona State University. The LNA uses low cost, off the shelf commercially available low noise SiGe hetero junction bipolar transistor (HBT) in a single stage surface mount package. The built LNA has been measured in a calibrated noise/gain/S-parameters setup and the data shows the LNA has a noise temperature of as low as 5K (or about 0.074dB noise figure) and more than 20dB of Gain on the 100MHz-1GHz band. The input and output of the LNA are matched to 50 Ohm, an S11 and S22 of less than -10dB at most frequencies have been measured. All these parameters were measured at different transistor bias points and power dissipations. The amplifier was operated at as low as 0.7mW power dissipation with a measured 8K of noise (or about 0.12dB Noise figure) and 20dB of Gain at 500MHz. The developed amplifier offered good performance at an extremely low cost and with a very short development time, this amplifier can be useful to a variety low temperature physics experiments.
Investigation of Advanced Dicing Technologies for Ultra Low-k and 3D Integration (2016)

The introduction and use of ultra low-k dielectric materials in an attempt to achieve better die performance brought new challenges to the wafer singulation / dicing process. Ultra low-k dielectric materials can easily get damaged during conventional blade dicing due to their brittleness. Thus, there is a need to investigate alternative or more advanced dicing techniques that can deliver successful dicing processes without inducing stress or damage. Apart from looking at the compatibility of the different dicing techniques with (ultra) low-k dielectric materials, the integration of these different dicing techniques into the different 3D-technology configurations was also investigated. This paper reports on the post dicing results and the challenges for 3D technology for the following different dicing technologies: blade dicing, laser grooving + blade dicing, laser grooving + plasma dicing, stealth dicing, plasma dicing, and laser full cut dicing.
DNA methylation profiling in the Carolina Breast Cancer Study defines cancer subclasses differing in clinicopathologic characteristics and survival (2019)

Abstract Introduction Breast cancer is a heterogeneous disease, with several intrinsic subtypes differing by hormone receptor (HR) status, molecular profiles, and prognosis. However, the role of DNA methylation in breast cancer development and progression and its relationship with the intrinsic tumor subtypes are not fully understood. Methods A microarray targeting promoters of cancer-related genes was used to evaluate DNA methylation at 935 CpG sites in 517 breast tumors from the Carolina Breast Cancer Study, a population-based study of invasive breast cancer. Results Consensus clustering using methylation (β) values for the 167 most variant CpG loci defined four clusters differing most distinctly in HR status, intrinsic subtype (luminal versus basal-like), and p53 mutation status. Supervised analyses for HR status, subtype, and p53 status identified 266 differentially methylated CpG loci with considerable overlap. Genes relatively hypermethylated in HR+, luminal A, or p53 wild-type breast cancers included FABP3, FGF2, FZD9, GAS7, HDAC9, HOXA11, MME, PAX6, POMC, PTGS2, RASSF1, RBP1, and SCGB3A1, whereas those more highly methylated in HR-, basal-like, or p53 mutant tumors included BCR, C4B, DAB2IP, MEST, RARA, SEPT5, TFF1, THY1, and SERPINA5. Clustering also defined a hypermethylated luminal-enriched tumor cluster 3 that gene ontology analysis revealed to be enriched for homeobox and other developmental genes (ASCL2, DLK1, EYA4, GAS7, HOXA5, HOXA9, HOXB13, IHH, IPF1, ISL1, PAX6, TBX1, SOX1, and SOX17). Although basal-enriched cluster 2 showed worse short-term survival, the luminal-enriched cluster 3 showed worse long-term survival but was not independently prognostic in multivariate Cox proportional hazard analysis, likely due to the mostly early stage cases in this dataset. Conclusions This study demonstrates that epigenetic patterns are strongly associated with HR status, subtype, and p53 mutation status and may show heterogeneity within tumor subclass. Among HR+ breast tumors, a subset exhibiting a gene signature characterized by hypermethylation of developmental genes and poorer clinicopathologic features may have prognostic value and requires further study. Genes differentially methylated between clinically important tumor subsets have roles in differentiation, development, and tumor growth and may be critical to establishing and maintaining tumor phenotypes and clinical outcomes.
Pulsating Tandem Microbubble for Localized and Directional Single-Cell Membrane Poration (2010)

The interaction of laser-generated tandem microbubble (maximum diameter of about $50\text{ }\text{ }\ensuremath{\mu}\mathrm{m}$) with single (rat mammary carcinoma) cells is investigated in a $25\mathrm{\text{\ensuremath{-}}}\ensuremath{\mu}\mathrm{m}$ liquid layer. Antiphase and coupled oscillation of the tandem microbubble leads to the formation of alternating, directional microjets (with max microstreaming velocity of $10\text{ }\text{ }\mathrm{m}/\mathrm{s}$) and vortices (max vorticity of $350\text{ }000\text{ }\text{ }{\mathrm{s}}^{\ensuremath{-}1}$) in opposite directions. Localized and directional membrane poration (200 nm to $2\text{ }\text{ }\ensuremath{\mu}\mathrm{m}$ in pore size) can be produced by the tandem microbubble in an orientation and proximity-dependent manner, which is absent from a single oscillating microbubble of comparable size and at the same stand-off distance.
Clinical Importance of the lncRNA NEAT1 in Cancer Patients Treated with Immune Checkpoint Inhibitors (2023)

These findings suggest an association between NEAT1 expression and patient response to anti-PD-1/PD-L1 therapy in melanoma and GBM and have important implications for the role of lncRNAs in the tumor microenvironment.
Periodical Surface Structuring of Metals by Laser Interference Metallurgy as a New Fabrication Method of Textured Solar Selective Absorbers (2006)

Spectral emittance and absorptance of copper and stainless steel surface gratings for photo‐thermal solar absorbers were studied. The samples were produced by Laser Interference Metallurgy which is an alternative to produce periodical structures with remarkable advantages. Spectral properties of the structured samples indicates that the larger the aspect ratio, the better the solar absorptance. Due to the small period of the structures, thermal emittance didn't increase considerably at room temperature.
Platanus acerifolia pollinosis and food allergy (2002)

Cross-reactivity was observed among P. acerifolia pollen and plant-derived foods. OAS in these patients may have been caused by primary respiratory sensitization.
Observation of the Mass Difference between Neutral Charm-Meson Eigenstates (2021)

A measurement of mixing and CP violation in neutral charm mesons is performed using data reconstructed in proton-proton collisions collected by the LHCb experiment from 2016 to 2018, corresponding to an integrated luminosity of 5.4 fb^{-1}. A total of 30.6 million D^{0}→K_{S}^{0}π^{+}π^{-} decays are analyzed using a method optimized for the measurement of the mass difference between neutral charm-meson eigenstates. Allowing for CP violation in mixing and in the interference between mixing and decay, the mass and decay-width differences are measured to be x_{CP}=[3.97±0.46(stat)±0.29(syst)]×10^{-3} and y_{CP}=[4.59±1.20(stat)±0.85(syst)]×10^{-3}, respectively. The CP-violating parameters are measured as Δx=[-0.27±0.18(stat)±0.01(syst)]×10^{-3} and Δy=[0.20±0.36(stat)±0.13(syst)]×10^{-3}. This is the first observation of a nonzero mass difference in the D^{0} meson system, with a significance exceeding seven standard deviations. The data are consistent with CP symmetry and improve existing constraints on the associated parameters.
SENSE: Semantically Enhanced Node Sequence Embedding (2019)

Effectively representing graph node sequences in the form of vector embeddings is critical to many applications. We achieve this by (i) first learning vector embeddings of single graph nodes and (ii) then composing them to compactly represent node sequences. Specifically, we propose SENSE-S (Semantically Enhanced Node Sequence Embedding - for Single nodes), a skip-gram based novel embedding mechanism, for single graph nodes that co-learns graph structure as well as their textual descriptions. We demonstrate that SENSE-S vectors increase the accuracy of multi-label classification tasks by up to 50% and link-prediction tasks by up to 78% under a variety of scenarios using real datasets. Based on SENSE-S, we next propose generic SENSE to compute composite vectors that represent a sequence of nodes, where preserving the node order is important. We prove that this approach is efficient in embedding node sequences, and our experiments on real data confirm its high accuracy.
The Choice of MPEG-4 AAC encoding parameters as a direct function of the perceptual entropy of the audio signal (2006)

This paper proposes a new procedure of low-complexity to determine the encoding parameters for the MPEG-4 AAC encoder under real-time constraints. In particular, it addresses the optimization problem of minimizing the distortion subject to a rate constraint for an MPEG-4 AAC encoder. Existing implementations use the heuristic two loop search to solve this optimization problem. This paper presents a new solution algorithm which achieves distortion values significantly lower than the two loop search and which, due to its low computational complexity, is a promising technology for future AAC implementations. We show via simulations that the technology presented in this paper significantly outperforms previous technologies.
The Effect of Defects on Time Dependent Dielectric Breakdown Acceleration in TiN/ZrO 2 /Al 2 O 3 /p-Ge Gate Stacks (2017)

This work investigates the p-Ge/Al2O3/ZrO2/TiN gate stacks with thin GeO2 or GeOx layer, formed when the gate stack was exposed to pre- or post-deposition slot plane antenna plasma oxidation (SPAO). The post Al2O3/ZrO2 deposition SPAO forms relatively thicker GeO2 and post Al2O3 deposition SPAO forms thinner GeO2 whereas pre-deposition SPAO forms thin fragmented GeOx layer at the interface. By employing carrier transport mechanisms as a function of temperature in both gate and substrate injection mode we were able to identify the traps that contributes to the TDDB degradation. The SPAO treatment effectively removes the trap centers in ZrO2 and Al2O3 layers when SPAO was performed after the gate stack deposition. The trap center (Φt1 = 0.13 eV) observed in the ZrO2 when ZrO2 is not subjected to the SPAO, i.e. pre-deposition SPAO. This trap Φt1 (0.13 eV) was eliminated for post Al2O3/ZrO2 deposition SPAO. While defects in the ZrO2 layer determines the TDDB characteristics in gate injection mode the GeO2 or GeOx interfacial layer thickness determines the TDDB degradation in substrate injection mode. The TDDB characteristics in gate injection mode suggests that the SPAO can significantly affect the TDDB characteristics.
Transgene by Germplasm Interactions Can Impact Transgene Evaluation (2022)

ABSTRACT Transgenes have been successfully commercialized for qualitatively inherited insect and herbicide resistance traits that show similar effects across genetic backgrounds. However, for quantitative traits like yield, genetic background may affect the measured transgene value. In this paper, we evaluated whether different genetic backgrounds impact the estimated value of a transgene for grain yield, ear height, and anthesis-silking interval for maize by developing isogenic pairs of lines with and without a transgene and testing them in hybrid combination with non-transgenic lines from a complementary heterotic group across eleven environments in the USA. Over all hybrid combinations, the transgene increased yield by 0.2 Mg ha −1 . Across multiple non-transgenic lines of the opposing heterotic group, the transgene effect within a line pair ranged from an increase of 0.8 Mg ha −1 for the NSS4 and SS7 transgenic lines to a reduction of 0.3 Mg ha −1 for the NSS5 transgenic line when compared to their non-transgenic isoline. Transgenic hybrids were often taller than non-transgenic hybrids (P&lt;0.05). Anthesis to silking interval was reduced by 4□C growing degree units overall, but no transgene × genotype interaction was detected among line pairs. Our results show the importance of testing transgene efficacy across a large sample of elite hybrid pairs to assess the gene’s value. By only testing in a specific hybrid background, as may be done for qualitative traits like insect resistance, transgenes could be erroneously advanced or eliminated.
Abstract 5106: The addition of radiation therapy to simultaneous targeting of PD-1 and IL2Rβγ enhances antigen-specific CD8 T cell anti-tumor immunity in pancreatic cancer models (2023)

Abstract Although IL-2 has been shown to critically mediate NK and T cell effector functions, when used in clinical trials this cytokine has failed due to toxicity and severe side effects of the systemic treatment. Our lab has investigated the use of a next-generation IL-2 compound, murine PD1-IL2v, which consists of an anti-PD-1 antibody fused to a IL2-variant with abolished binding to IL2Rα. Previous work shows this molecule results in tumor-antigen specific T cell expansion and differentiation towards immune effectors. Here, we report for the first time that radiation therapy amplifies the anti-tumor effect observed with PD1-IL2v treatment of murine orthotopic models of local tumor growth and metastasis. This anti-tumor effect is correlated with increases in proliferative and polyfunctional CD8 T cells across tumor, lymph node, and blood compartments. Furthermore, using an OVA-antigen specific orthotopic model, we found that radiation in combination with PD1-IL2v treatment enhances infiltration and activation of antigen-specific CD8 T cells, which have been shown to be critical for immunotherapy clinical success. A portion of tumor-bearing mice treated with radiation and PD1-IL2v fully eradicated their primary tumors and tumor rechallenges, which we show correlates with increased markers of memory in CD8 T cells of these mice. To demonstrate the clinical relevance of these preclinical findings, we performed RNA sequencing on paired pancreatic adenocarcinoma (PDAC) patient tumor tissue samples prior to and following radiation. We observed enhanced IL2Rβ and IL2Rγ expression as well as IL2R signaling in PDAC-patient responders to radiation therapy compared to non-responders. In conclusion, the antigen-specific, lasting memory response to preclinical PDAC models demonstrated here provides rationale for the treatment of PDAC with a radiation and PD1-IL2v combination. Citation Format: Maureen Hoen, Miles Piper, Laurel B. Darragh, Diemmy Nugyen, Jacob Gadwa, Maria Amann, Greta Durini, Michael Knitz, Benjamin Van Court, Tiffany Pham, Ross Kedl, Pablo Umana, Laura Codarri-Deak, Christian Klein, Angelo D’Alessandro, Sana D. Karam. The addition of radiation therapy to simultaneous targeting of PD-1 and IL2Rβγ enhances antigen-specific CD8 T cell anti-tumor immunity in pancreatic cancer models. [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr 5106.
Manipulating Quorum Sensing to Control Bacterial Pathogenicity (2015)

Bacteria communicate with one another via the production and detection of secreted signal molecules called autoinducers. This cell-to-cell communication process, called “Quorum Sensing”, allows bacteria to synchronize behavior on a population-wide scale. Behaviors controlled by quorum sensing are usually ones that are unproductive when undertaken by an individual bacterium acting alone but become effective when undertaken in unison by the group. For example, quorum sensing controls virulence and biofilm formation. We developed small molecule quorum-sensing antagonists. Combined structural and genetic studies defined the mechanism underlying antagonism. Our most potent molecule protects animals from quorum-sensing-mediated killing by pathogenic bacteria and prevents biofilm formation in model microfluidics chambers that mimic medical devices. These results validate the notion that targeting quorum sensing has potential for antimicrobial drug development.
Evaluation of Reproducibility of Diffusion Tensor Imaging in the Brachial Plexus at 3.0 T (2017)

Diffusion tensor imaging metrics in the brachial plexus are reproducible. Future applications of DTI for a possible clinical use should be further investigated.
A Semi-Autonomous Robot for Stripping Paint from Large Vessels (2003)

The National Robotics Engineering Consortium and UltraStrip Systems Inc. have developed a highly flexible and productive robot to strip paint from large ships and other large ferro-magnetic structures based on the patents obtained by UltraStrip Systems, Inc. (US patents: 6,425,340; 5,849,099; 5,628,271). Removal of corrosion and coatings from large vessels has become a serious economic and environmental problem, and current practices are becoming infeasible. The M2000 robot removes paint from ships using ultrahigh pressure water jets and recovers the water and debris in an environmentally sound way. The addition of simple, easy-to-use, cruise control features to the robot has permitted significant increases in productivity, safety, and stripping quality.
Abstract 15948: Decreasing the Rate of Thromboembolism During Cardiac Radiofrequency Ablation: A Novel “Hood” Prototype Device (2018)

Introduction: Radiofrequency (RF) catheter ablation is an effective treatment modality for cardiac arrhythmias. Left-sided (systemic) ablation poses a risk for thromboembolic events, such as stroke...
Persistence of Marek's disease virus in a subpopulation of B cells that is transformed by avian leukosis virus, but not in normal bursal B cells (1992)

Previous studies have described an augmentation of avian leukosis virus (ALV)-induced lymphoid leukosis in chickens that were coinfected with a serotype 2 Marek's disease virus (MDV) strain, SB-1. As a first step toward understanding the mechanism of this augmentation, we have analyzed the tropism of the MDV for the ALV-transformed B cell. After hatching, chickens were coinfected with ALV and a nonpathogenic strain of MDV, SB-1. Seventy primary and metastatic ALV-induced lymphomas that developed in chickens between 14 and 20 weeks of age were found, with only one exception, to carry SB-1 DNA. The MDV genome was maintained in cell lines derived from the tumors. However, MDV DNA could not be detected in nontransformed bursal B cells from chickens carrying ALV lymphomas. Moreover, during and after the lytic phase of MDV infection, SB-1 DNA was near or below the level of detection in bursal cells, suggesting that MDV most likely infects only a small subpopulation of bursal cells. By contrast, ALV-transformed B cells from MDV-free chickens could be persistently infected with MDV in vitro. These findings indicate that ALV lymphoma cells, unlike nontransformed bursal B cells, are susceptible to persistent MDV infection and can serve as a reservoir of MDV that can potentially influence the physiology of the transformed cell.
An Annulative Approach to Highly Substituted Indoles: Unusual Effect of Phenolic Additives on the Success of the Arylation of Ketone Enolates. (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.