gebhart/patrepeval huggingface dataset:
Abstract LB216: Targeted brachyury degradation disrupts a highly specific autoregulatory program controlling chordoma cell identity (2021)

Abstract Chordomas are rare spinal tumors addicted to expression of the developmental transcription factor brachyury. In chordomas, brachyury is super-enhancer associated and preferentially downregulated by pharmacologic transcriptional CDK inhibition leading to cell death. To understand the underlying basis of this sensitivity, we dissect the brachyury transcription regulatory network and compare the consequences of brachyury degradation with transcriptional CDK inhibition. Brachyury defines the chordoma super-enhancer landscape, autoregulates through binding its super-enhancer, and its locus forms a transcriptional condensate. Both transcriptional CDK inhibition and brachyury degradation disrupt brachyury autoregulation, leading to loss of its transcriptional condensate and transcriptional program. Compared with transcriptional CDK inhibition which globally downregulates transcription leading to cell death, brachyury degradation is much more selective, inducing senescence and sensitizing cells to anti-apoptotic inhibition. These data suggest that brachyury downregulation is a core tenet of transcriptional CDK inhibition and motivates developing strategies to target brachyury and its autoregulatory feedback loop. Citation Format: Hadley E. Sheppard, Alessandra Dall'Agnese, Woojun D. Park, Hamza Shamim, Julien Dubrulle, Hannah L. Johnson, Fabio Stossi, Patricia Cogswell, Josh Sommer, Joan Levy, Tanaz Sharifnia, Mathias J. Wawer, Paul A. Clemons, Behnam Nabet, Nathanael S. Gray, Stuart L. Schreiber, Paul Workman, Richard A. Young, Charles Y. Lin. Targeted brachyury degradation disrupts a highly specific autoregulatory program controlling chordoma cell identity [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2021; 2021 Apr 10-15 and May 17-21. Philadelphia (PA): AACR; Cancer Res 2021;81(13_Suppl):Abstract nr LB216.
The professional and personal characteristics of effective psychotherapists: a systematic review (2019)

<b>Objective</b>: Psychotherapists differ notably in the outcomes their patients achieve, and the characteristics that may explain these differences have attracted increasing interest. We systematically review studies on therapist pre-treatment characteristics predicting patient outcomes. <b>Method:</b> Systematic searches on databases for psychotherapy research, clinical psychology, and medical science for the years 2000-2018 identified published research examining therapist characteristics and psychotherapy outcomes. Of 2041 studies, 31 met inclusion criteria. <b>Results</b>: Findings show a few direct effects of therapist intrapersonal variables (e.g., self-relatedness, attachment) and several interaction effects with other constructs (e.g., patient pathology) on outcome. There is little support for the relevance of self-rated social skills. However, more consistent evidence has recently emerged for performance-based measurements of professional interpersonal skills, especially when elicited in challenging situations. Patient outcomes were also predicted by therapists' self-rated professional characteristics, such as their experienced difficulties in practice, coping mechanisms, and attitudes towards therapeutic work, indicating that therapist self-perception also matters, although not always in the direction expected. <b>Conclusions</b>: More effective therapists seem characterized by professionally cultivated interpersonal capacities, which are likely rooted in their personal lives and attachment history. Research guidelines are proposed for moving this field forward (including larger samples, multilevel modeling, and in-depth qualitative work).
High-Performance Red Lasers With Low Beam Divergence (2009)

We report the design and fabrication of high-performance 650-nm lasers using a novel wafer structure that offers substantially independent control of the vertical far field and of the optical confinement factor. By incorporating a graded V-shaped layer into the epitaxial structure, a low divergence can be realized while retaining high optical overlap with the quantum wells and, therefore, a low threshold current. Broad-area lasers (BALs) were fabricated for a range of designs, and close agreement was obtained between the modeling and the experiment.
Farewell W ilfred (2015)

It is with great sadness that we announce the untimely death of our friend and colleague, Wilfred Röling, on September 25th. Wilfred was a truly inspirational scholar active in a range of topics within environmental microbiology and microbial biotechnology, and was one of only a handful of researchers worldwide able to effectively combine wet and in silico science. The loss to scholarly endeavour of his enormous potential is tragic. His dedication and generosity as an Editorial Board Member of this Journal was exemplary, and his reviews have seriously elevated the quality of many submitted papers, accepted or not by the Journal. He was one-of-a-kind and we shall all miss him and his council. Our thoughts are with his family, friends and colleagues at this difficult time.
MORC (2015)

Cache compression has largely focused on improving single-stream application performance. In contrast, this work proposes utilizing cache compression to improve application throughput for manycore processors while potentially harming single-stream performance. The growing interest in throughput-oriented manycore architectures and widening disparity between on-chip resources and off-chip bandwidth motivate re-evaluation of utilizing costly compression to conserve off-chip memory bandwidth. This work proposes MORC, a Many-core ORiented Compressed Cache architecture that compresses hundreds of cache lines together to maximize compression ratio. By looking across cache lines, MORC is able to achieve compression ratios beyond compression schemes which only compress within a single cache line. MORC utilizes a novel log-based cache organization which selects cache lines that are filled into the cache close in time as candidates to compress together. The proposed design not only compresses cache data, but also cache tags together to further save storage. Future manycore processors will likely have reduced cache sizes and less bandwidth per core than current multicore processors. We evaluate MORC on such future many-core processors utilizing the SPEC2006 benchmark suite. We find that MORC offers 37% more throughput than uncompressed caches and 17% more throughput than the next best cache compression scheme, while simultaneously reducing 17% of memory system energy compared to uncompressed caches.
Microwave Excited Low Temperature High Density Plasma Process. (2000)

Lowering process temperature of gate oxide formation process is essential to realize ultra-high integration devices. We have succeeded in substantially reducing a process temperature of silicon oxide film formation on (100) and (111) silicon substrate by Kr/O2 mixed microwave excited high-density plasma which have high-density and low electron temperature. The silicon oxide films exhibit high growth rate, high dielectric strength, charge-to-breakdown and low inter-face trap density enough to thermally grown silicon oxide.
Overview of Sonic Boom Reduction Efforts on the Lockheed Martin N+2 Supersonic Validations Program (2014)

Under the N+2 Supersonic Validations contract with NASA, Lockheed Martin has developed system-level solutions to the barriers to supersonic commercial flight, with a particular focus on the technology required to design and validate shaped sonic boom vehicles for acceptably quiet flight over land. LM’s past experience, commercial design and analysis tool advances, commercial partner expertise and NASA methodologies were successfully combined in the shaped boom design process. In the second phase of the N+2 program, we continued the work started in Phase 1 by improving low-boom performance over the full boom carpet and adding fidelity to the design in key areas including structures and aeroelastics. NASA’s support for extensive validation testing uncovered the cause of prior long-standing difficulties with sonic boom wind tunnel measurement, and resulted in the development of a “spatial averaging” solution that combines better than required accuracy with an order-of-magnitude improvement in productivity. The LM 1044 configuration designed and tested during this program has demonstrated that it is possible to develop an environmentally compliant, practical, and high efficiency supersonic transport aircraft for the next generation of air travelers.
Rheological determinants of red blood cell aggregation in diabetic patients in relation to their metabolic control (2002)

The degree of erythrocyte adhesiveness/aggregation and several variables of the acute-phase response in patients with diabetes mellitus are not directly related to the degree of metabolic control as evaluated by means of HbA(1c) concentration. Diabetic patients might benefit from rheological or anti-inflammatory interventions regardless of their metabolic control.
Higher levels of thymidylate synthase gene expression are observed in pulmonary as compared with hepatic metastases of colorectal adenocarcinoma. (1998)

High levels of TS enzyme may be the basis of the lack of response of pulmonary metastases to FUra treatment.
Mesenteric Panniculitis, Sclerosing Mesenteritis and Mesenteric Lipodystrophy: Descriptive Review of a Rare Condition (2022)

Abstract Mesenteric panniculitis (MP) is the preferred nomenclature for a continuum of inflammatory diseases of the mesentery. The diagnosis of MP is often based on the appearance of a mass-like structure at the root of the mesentery. Characteristic histology includes focal fat necrosis, chronic inflammation, and sometimes mesenteric fibrosis. At present, robust literature related to diagnosis and management of MP are limited. MP is postulated to be an immune-mediated chronic inflammatory and/or a paraneoplastic disease. A personal or family history of other autoimmune diseases is commonly apparent. Several inciting events have been identified that possibly act as triggers in the development of the disease. Trauma, abdominal surgery, infection, and various cancers have been associated with mesenteric panniculitis. There are several diagnostic and histologic criteria that aid in making the diagnosis of MP. The differential diagnosis for a mesenteric mass includes neoplastic disease, and a biopsy may be indicated to rule out other conditions. While cases of MP with a short duration of symptoms, or spontaneously regression may occur, some patients experience prolonged periods of pain, fever, and alterations in bowel habit, causing significant morbidity. A variety of medical therapies have been suggested for MP. Only two, thalidomide and low-dose naltrexone, have been prospectively evaluated. For patients with chronic MP, good responses to prolonged corticosteroid treatment have been reported. Novel therapies include thalidomide and low-dose naltrexone. Hormonal and immunomodulatory therapies are also used based on small case series, but these treatments may have significant side effects. Surgical intervention is not curative and is avoided except for relief of focal bowel obstruction secondary to fibrotic forms of the disease.
Optimum Resource Block Bandwidth for Frequency Domain Channel-Dependent Scheduling in Evolved UTRA Downlink OFDM Radio Access (2006)

This paper presents the optimum resource block (RB) bandwidth for frequency and time domain channel-dependent scheduling based on system-level simulations in the downlink orthogonal frequency division multiplexing (OFDM) based radio access. The simulation results clarifies that the optimum RB bandwidth is within the range of approximately 150 to 375 kHz assuming typical power delay profile models in a cellular system such as typical urban, pedestrian-B, and vehicular-A modes, from the viewpoint of the multiuser diversity effect gained in frequency domain channel-dependent scheduling. The results also show that considering the overhead loss by the control signaling bits for scheduling, adaptive modulation and coding and hybrid ARQ with packet combining, the optimal RB bandwidth is in the range of approximately 375 to 750 kHz
Ferroic Multipolar Order and Disorder in Cyanoelpasolite Molecular Perovskites (2018)

We use a combination of variable-temperature high-resolution synchrotron X-ray powder diffraction measurements and Monte Carlo simulations to characterise the evolution of two different types of ferroic multipolar order in a series of cyano elpasolite molecular perovskites. We show that ferroquadrupolar order in [C3N2H5]2Rb[Co(CN)6] is a first-order process that is well described by a 4-state Potts model on the simple cubic lattice. Likewise, ferrooctupolar order in [NMe4]2B[Co(CN)6] (B = K, Rb, Cs) also emerges via a first-order transition that now corresponds to a 6-state Potts model. Hence, for these particular cases, the dominant symmetry breaking mechanisms are well understood in terms of simple statistical mechanical models. By varying composition, we find that the effective coupling between multipolar degrees of freedom—and hence the temperature at which ferromultipolar order emerges—can be tuned in a chemically sensible manner.
New insights into the metal-induced oxidative degradation pathways of transthyretin (2019)

The amyloidogenic mechanism of transthyretin is still debated but understanding it fully could lend insight into disease progression and potential therapeutics. Transthyretin was investigated revealing a metal-induced (Cr/Cu) oxidation pathway leading to N-terminal backbone fragmentation and oligomer formation; previously hidden details were revealed only by FT-IM-Orbitrap MS and surface-induced dissociation.
Semisynthese von Taxol: eine hochenantio‐ und ‐diastereoselektive Synthese der Seitenkette und eine neue Methode zur Esterbildung an C13 unter Verwendung von Thioestern (1996)

Für die Herstellung von Taxol 2 im technischen Maßstab geeignet ist die neuartige Semisynthese aus natürlichem, leicht in größeren Mengen zugänglichem 10‐Desacetylbaccatin III und dem Baustein 1 . Entscheidend ist hierbei die bemerkenswert hohe Ausbeute für die gewöhnlich sehr schwierige 13‐O‐Acylierung des Terpengerüstes. Der Thioester 1 kann stufenarm mit der gewünschten relativen und absoluten Konfiguration durch Addition eines entsprechenden Borenolats an ein Imin aufgebaut werden. magnified image
Chlamydia muridarum T Cell Antigens and Adjuvants That Induce Protective Immunity in Mice (2012)

Major impediments to a Chlamydia vaccine lie in discovering T cell antigens and polarizing adjuvants that stimulate protective immunity. We previously reported the discovery of three T cell antigens (PmpG, PmpF, and RplF) via immunoproteomics that elicited protective immunity in the murine genital tract infection model against Chlamydia infection after adoptive transfer of antigen-pulsed dendritic cells. To expand the T cell antigen repertoire necessary for a Chlamydia vaccine, we evaluated 10 new Chlamydia T cell antigens discovered via immunoproteomics in addition to the 3 antigens reported earlier as a molecular subunit vaccine. We first tested five adjuvants, including three cationic liposome formulations (dimethyldioctadecylammonium bromide-monophosphoryl lipid A [DDA-MPL], DDA-trehalose 6,6'-dibehenate [DDA-TDB {CAF01}], and DDA-monomycolyl glycerol [DDA-MMG {CAF04}]), Montanide ISA720-CpG-ODN1826, and alum using the PmpG protein as a model T cell antigen in the mouse genital tract infection model. The results showed that the cationic liposomal adjuvants DDA-MPL and DDA-TDB elicited the best protective immune responses, characterized by multifunctional CD4(+) T cells coexpressing gamma interferon (IFN-γ) and tumor necrosis factor alpha (TNF-α), and reduced infection by more than 3 logs. Using DDA-MPL as an adjuvant, we found that 7 of 13 Chlamydia T cell antigens (PmpG, PmpE, PmpF, Aasf, RplF, TC0420, and TC0825) conferred protection better than or equal to that of the reference vaccine antigen, major outer membrane protein (MOMP). Pools of membrane/secreted proteins, cytoplasmic proteins, and hypothetical proteins were tested individually or in combination. Immunization with combinations protected as well as the best individual protein in that combination. The T cell antigens and adjuvants discovered in this study are of further interest in the development of a molecularly defined Chlamydia vaccine.
ChemInform Abstract: Total Synthesis of Optically Active Integerrimine, a Twelve‐Membered Dilactonic Pyrrolizidine Alkaloid of Retronecine Type. (1992)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
ChemInform Abstract: Highly Selective Catalytic Friedel—Crafts Acylation of Activated Aromatic Compounds Using the I2‐DMF Complex as Catalyst. (2009)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Differential Space-Time Block Code Modulation for DS-CDMA Systems (2002)

A differential space-time block code (DSTBC) modulation scheme is used to improve the performance of DS-CDMA systems in fast time-dispersive fading channels. The resulting scheme is referred to as the differential space-time block code modulation for DS-CDMA (DSTBC-CDMA) systems. The new modulation and demodulation schemes are especially studied for the down-link transmission of DS-CDMA systems. We present three demodulation schemes, referred to as the differential space-time block code Rake (D-Rake) receiver, differential space-time block code deterministic (D-Det) receiver, and differential space-time block code deterministic de-prefix (D-Det-DP) receiver, respectively. The D-Det receiver exploits the known information of the spreading sequences and their delayed paths deterministically besides the Rake type combination; consequently, it can outperform the D-Rake receiver, which employs the Rake type combination only. The D-Det-DP receiver avoids the effect of intersymbol interference and hence can offer better performance than the D-Det receiver.
RObust Header Compression (ROHC): A Link-Layer Assisted Profile for IP/UDP/RTP (2002)

This document defines a ROHC (Robust Header Compression) profile for compression of IP/UDP/RTP (Internet Protocol/User Datagram Protocol/Real-Time Transport Protocol) packets, utilizing functionality provided by the lower layers to increase compression efficiency by completely eliminating the header for most packets during optimal operation. The profile is built as an extension to the ROHC RTP profile. It defines additional mechanisms needed in ROHC, states requirements on the assisting layer to guarantee transparency, and specifies general logic for compression and decompression making use of this header-free packet.
Context- and Content-aware Embeddings for Query Rewriting in Sponsored Search (2015)

Search engines represent one of the most popular web services, visited by more than 85% of internet users on a daily basis. Advertisers are interested in making use of this vast business potential, as very clear intent signal communicated through the issued query allows effective targeting of users. This idea is embodied in a sponsored search model, where each advertiser maintains a list of keywords they deem indicative of increased user response rate with regards to their business. According to this targeting model, when a query is issued all advertisers with a matching keyword are entered into an auction according to the amount they bid for the query, and the winner gets to show their ad. One of the main challenges is the fact that a query may not match many keywords, resulting in lower auction value, lower ad quality, and lost revenue for advertisers and publishers. Possible solution is to expand a query into a set of related queries and use them to increase the number of matched ads, called query rewriting. To this end, we propose rewriting method based on a novel query embedding algorithm, which jointly models query content as well as its context within a search session. As a result, queries with similar content and context are mapped into vectors close in the embedding space, which allows expansion of a query via simple K-nearest neighbor search in the projected space. The method was trained on more than 12 billion sessions, one of the largest corpuses reported thus far, and evaluated on both public TREC data set and in-house sponsored search data set. The results show the proposed approach significantly outperformed existing state-of-the-art, strongly indicating its benefits and the monetization potential.
Measurement of Mechanical Deformations Induced by Enhanced Electromagnetic Stress on a Parallel Metallic-Plate System (2018)

We measured the electromagnetic stress-induced local strain distribution on a centimeter-sized parallel-plate metallic resonant unit illuminated with microwave radiation. Using a fiber interferometer, we found that the strain changes sign across the resonant unit, in agreement with theoretical predictions that the attractive electric and repulsive magnetic forces act at different locations. The enhancement of the corresponding maximum local electromagnetic stress is stronger than the enhancement of the net force, reaching a factor of >600 compared to the ordinary radiation pressure.
Promotion of Catalytic Activity and Suppression of Deactivation by Solvent Addition in the Hydrotreating of Atmospheric Residue (2004)

The effect of addition of several solvents on atmospheric residue (AR) hydrotreating was examined in the autoclave test. Higher hydrodesulfurization (HDS) activity was obtained by adding solvents in the order of H2O > light cycle oil (LCO) > tetralin > none (base) > 1-MN > phenol, using the same volume of solvent. The amount of deposited coke on the catalyst was reduced with all solvents. Larger amounts of tetralin enhanced HDS activity, but tetralin was still inferior to water for the enhancement of HDS in the same molar amounts. The specific effects of H2O were confirmed through the activity test. The amount of deposited coke on catalyst with tetralin was similar to that of H2O. Enhancement of asphaltene desorption reduces coke formation on the catalyst whereas the hydrogenative conversion of solvents with sulfur species in AR may indicate competitive occupation on the active sites. Solvents were not only hydrogenated but also contributed to inhibition of HDS when remaining for long periods on the active sites. Consequently, the inhibition effects of the solvents were considered based on the conversion and evaluation results. H2O enhances the desorption of asphaltene and desulfurized products from the catalyst compared with the other solvents. The remarkable effects of H2O addition are due to remaining on the active sites for short periods, without inhibiting the HDS activity.