gebhart/patrepeval huggingface dataset:
Supplementary Table 5B from AT13148 Is a Novel, Oral Multi-AGC Kinase Inhibitor with Potent Pharmacodynamic and Antitumor Activity (2023)

&lt;p&gt;XLS file - 703K, Gene expression data for CCT128930: Genes that showed at least a 1.5 Fold Change in at least one treated sample compared to vehicle control and were differentially expressed between the treatment groups (Welch ANOVA FDR5%)&lt;/p&gt;
Electrical and Thermal Simulation of SWIFT (TM) High-Density Fan-Out PoP Technology (2017)

The tremendous growth in smartphones and tablets has been fueled by consumer demand for increased mobility, functionality, and ease of use. This, in turn, has been driving an increase in functional convergence and 3D integration of integrated circuit (IC) devices, resulting in the need for more advanced and sophisticated packaging techniques. In particular, the integration of the application processor (AP) and dedicated memory has become increasingly complex. Smartphones and tablets have become virtual streaming devices requiring low power, high bandwidth memory (HBM). For quality, high-speed video and multi-tasking applications, the memory interface to the AP must have superior signal integrity to minimize crosstalk and insertion/return losses. In addition, the thermal management of the processor must allow the maximum clock speed and duty cycle for high-performance applications. Finally, to conserve battery life for the mobility device, the power distribution to the processor must be as efficient as possible. This creates a significant challenge for the semiconductor packaging industry to meet these demanding requirements for smartphone and tablet products. This paper introduces a leading-edge high-density fan-out (HD-FO) semiconductor packaging technology that addresses the need for higher levels of integration and improved electrical and thermal performance for mobile applications. This new innovative technique, called Silicon Wafer Integrated Fan-out Technology (SWIFT™) packaging, leverages the fine feature size and thin-film circuit patterning capabilities of wafer-level packaging. In addition, thin-film dielectric photolithography and pattern plating provides a significant reduction in package z-height, which is critical for advanced mobile devices. By incorporating a redistribution layer (RDL)-first/chip-last process flow, there is also an opportunity for yield optimization and cycle-time reduction. This work compares the electrical and thermal modeling results between a conventional Package-on-Package (PoP) and HD-FO SWIFT devices. The results reveal a highly integrated PoP structure with exceptional electrical, mechanical, and thermal performance benefits - compared to conventional organic laminate-based technologies - to meet the growing need for high-performance mobile applications.
Blind Docking of Manzamines into Glycogen Synthase Kinase-3? (2008)

Manzamine alkaloids show diverse pharmacological activities and are potential leads for the treatment of neurodegenerative disorders since they inhibit glycogen synthase kinase-3β (GSK-3β), an attractive target for anti-Alzheimer therapy [1]. Though it is known that manzamines inhibit GSK-3β [2], the binding site into the kinase is not known. This hampers rational structure-based drug design of more potent manzamine analogs. To address this issue, we performed blind docking of manzamine A (MA) and its 8-hydroxy derivative (8MA) into GSK-3β. This included exploration of the possible binding pockets of Protein Data Bank structures 1q5 k, 1h8 f and 1i09 by scanning the whole protein surface and docking of MA and 8MA into any detected pockets. The figure shows GSK-3β (1q5 k): A. Four detected solvent pockets (white, green, cyan and yellow); B. Binding mode of MA into the ATP binding site (white in A); C. Polar interaction of MA with Arg141. Using FlexX for docking into the rigid apo enzyme (1i09), the energetics for binding into the ATP-competitive pocket and ATP-noncompetitive pockets were very similar. References: [1] Hamann MT (2007) Curr. Pharm. Des. 13: 653–660. [2] Hamann MT, et al. (2007) J. Nat. Prod. 70: 1397–1405.
Activity and Neuromodulatory Input Contribute to the Recovery of Rhythmic Output After Decentralization in a Central Pattern Generator (2008)

Central pattern generators (CPGs) are neuronal networks that control vitally important rhythmic behaviors including breathing, heartbeat, and digestion. Understanding how CPGs recover activity after their rhythmic activity is disrupted has important theoretical and practical implications. Previous experimental and modeling studies indicated that rhythm recovery after central neuromodulatory input loss (decentralization) could be based entirely on activity-dependent mechanisms, but recent evidence of long-term conductance regulation by neuromodulators suggest that neuromodulator-dependent mechanisms may also be involved. Here we examined the effects of altering activity and the neuromodulatory environment before decentralization of the pyloric CPG in Cancer borealis on the initial phase of rhythmic activity recovery after decentralization. We found that pretreatments altering the network activity through shifting the ionic balance or the membrane potential of pyloric pacemaker neurons reduced the delay of recovery initiation after decentralization, consistent with the recovery process being triggered already during the pretreatment period through an activity-dependent mechanism. However, we observed that pretreatment with neuromodulators GABA and proctolin, acting via metabotropic receptors, also affected the initial phase of the recovery of pyloric activity after decentralization. Their distinct effects appear to result from interactions of their metabotropic effects with their effects on neuronal activity. Thus we show that the initial phase of the recovery process can be accounted for by the existence of distinct activity-and neuromodulator-dependent pathways. We propose a computational model that includes activity- and neuromodulator-dependent mechanisms of the activity recovery process, which successfully explains the experimental observations and predicts the results of key biological experiments.
OneFIT functional and system architecture - D2.2 (2011)

Deliverable D2.2 del projecte Europeu OneFIT (ICT-2009-257385)
Data dependency size estimation for use in memory optimization (2003)

A novel storage requirement estimation methodology is presented for use in the early system design phases when the data transfer ordering is only partly fixed. At that stage, none of the existing estimation tools are adequate, as they either assume a fully specified execution order or ignore it completely. This paper presents an algorithm for automated estimation of strict upper and lower bounds on the individual data dependency sizes in high-level application code given a partially fixed execution ordering. In the overall estimation technique, this is followed by a detection of the maximally combined size of simultaneously alive dependencies, resulting in the overall storage requirement of the application. Using representative application demonstrators, we show how our techniques can effectively guide the designer to achieve a transformed specification with low storage requirement.
Laparoscopic bile duct injuries: a single-institution experience spanning 8 years (1999)

Abstract Background This audit represents the authors' experience in the management of 42 bile duct injuries following laparoscopic cholecystectomy and is the largest series reported so far in the UK. Methods Between November 1990 and May 1998, 42 patients were referred for management of bile duct injury following laparoscopic cholecystectomy. The case notes of all patients were reviewed and follow-up information was obtained to provide a 100 per cent follow-up rate. Aspects of the cholecystectomy, presentation, investigation, definitive treatment and follow-up are discussed. Results The referral source was 25 surgeons from 17 different hospitals. The incidence peaked in 1992 (ten cases) and has been stable at four referrals per year over the past 4 years. The median age was 56 years and the M: F ratio 10: 32. Thirty-five laparoscopic operations were performed by consultants and seven by trainees. Intraoperative cholangiography was performed in three. Seventeen operations were converted to an open procedure because of intraoperative difficulty. Injury was noted at operation in nine and an immediate restorative procedure was attempted. Twelve patients had had a reconstructive procedure before referral to this unit and the remainder were referred with a fresh injury. Patients in whom the bile duct was transected (n = 34) presented mostly with jaundice; those with minor injuries not involving the common duct (n = 8) presented with peritonitis. Thirty patients required operation; 25 underwent hepaticojejunostomy reconstruction, two needed revision of a previous biliary–enteric anastomosis, two had primary bile duct repair over a T tube and one required relaparoscopy to clip a leaking cystic duct. At a median of 12 months four patients who had had a reconstruction were symptomatic for cholangitis. Percutaneous transhepatic dilatation was successful in two and a further two required revision of the anastomosis. Another four patients had asymptomatic stenosis and were treated successfully by a single episode of dilatation. Follow-up showed all patients to be asymptomatic at a median follow-up of 42 months; however, six had a raised level of alkaline phosphatase. The remaining patients were managed successfully by therapeutic endoscopic retrograde cholangiopancreatography or percutaneous transhepatic cholangiography. The overall median hospital stay was 18 days. Perioperative complications were seen in nine patients with no procedure-related deaths. Conclusion Although the initial learning curve seems to have been overcome, a steady state of problems now exists and seems likely to continue. Best results were obtained by hepaticojejunostomy. Most postrepair strictures were dealt with without operation.
Using stationary vehicles to enhance cooperative positioning in Vehicular Ad-hoc Networks (2014)

A new approach to enhance Cooperative Positioning (CP) in Vehicular Ad-hoc Networks (VANETs) using stationary vehicles is presented. Tests using SUMO simulations show some preliminary benefits of the approach.
Identification of NAB1, a repressor of NGFI-A- and Krox20-mediated transcription. (1995)

NGFI-A (also called Egr1, Zif268, or Krox24) and the closely related proteins Krox20, NGFI-C, and Egr3 are zinc-finger transcription factors encoded by immediate-early genes which are induced by a wide variety of extracellular stimuli. NGFI-A has been implicated in cell proliferation, macrophage differentiation, synaptic activation, and long-term potentiation, whereas Krox20 is critical for proper hindbrain segmentation and peripheral nerve myelination. In previous work, a structure/function analysis of NGFI-A revealed a 34-aa inhibitory domain that was hypothesized to be the target of a cellular factor that represses NGFI-A transcriptional activity. Using the yeast two-hybrid system, we have isolated a cDNA clone which encodes a protein that interacts with this inhibitory domain and inhibits the ability of NGFI-A to activate transcription. This NGFI-A-binding protein, NAB1, is a 570-aa nuclear protein that bears no obvious sequence homology to known proteins. NAB1 also represses Krox20 activity, but it does not influence Egr3 or NGFI-G, thus providing a mechanism for the differential regulation of this family of immediate-early transcription factors.
The ASM Journals Committee Values the Contributions of Black Microbiologists (2020)

Author(s): Schloss, Patrick D; Junior, Melissa; Alvania, Rebecca; Arias, Cesar A; Baumler, Andreas; Casadevall, Arturo; Detweiler, Corrella; Drake, Harold; Gilbert, Jack; Imperiale, Michael J; Lovett, Susan; Maloy, Stanley; McAdam, Alexander J; Newton, Irene LG; Sadowsky, Michael; Sandri-Goldin, Rozanne M; Silhavy, Thomas J; Tontonoz, Peter; Young, Jo-Anne H; Cameron, Craig E; Cann, Isaac; Fuller, A Oveta; Kozik, Ariangela J
Suppression of vibration due to transmission error of harmonic drives using peak filter with acceleration feedback (2008)

Harmonic drives are widely used in robotics and precision positioning systems because of their unique properties such as near-zero backlash, high speed reduction ratio. However, they possess a periodic positioning error known as the transmission error and it produces a speed ripple on the gear output shaft. This is critical when the frequency of the speed variation coincides with the resonant frequency of the control system. This paper presents a speed control system to suppress the vibrations caused by the transmission error from harmonic drives. First, a new analysis scheme is proposed to analyze the effects of the transmission error. Next, a peak filter using load side acceleration information is designed and added into the servo loop in parallel with the existing controller. Simulation and experimental results show that the proposed system regulates the load side velocity satisfactorily and suppresses the vibration caused by the transmission error effectively.
Analysis of near-field power transfer using scattering parameters (2013)

Numerical analysis of the near-field power transfer for multi-user is performed by using the multi-port scattering parameters. The transfer power efficiency is derived by using the multi-port scattering parameters. Since the multi-port scattering parameters are easily measured by a vector network analyzer and calculated by a full-wave numerical analysis, it is convenient to investigate the relation between the power transfer efficiency and the geometry of the power transfer system such as relative positions between transmitting antennas and receiving antennas, antenna geometry, impedance matching of the antennas, and ohmic loss in antennas, which are important parameters to develop a near-field power transfer system with high power transfer efficiency.
Immunohistochemical expression of CD68 antigen in human peripheral blood T cells (1994)

CD68 antigen is expressed by tissue macrophages and cells of myeloid/mononuclear lineage. CD68 is recognized by many monoclonal antibodies (mAbs), including KP1, EMB11, Y1/82A, Y2/131, Ki-M6, and Ki-M7. Using the labeled strept-avidin-biotin (LSAB) immunoperoxidase technique, we examined CD68 antigen expression in human peripheral blood T cells. The anti-CD68 mAbs KP1 and EMB11 stained virtually all fresh isolated gamma/delta T cells and CD3-CD56+ natural killer (NK) cells in a granular cytoplasmic pattern. In contrast, fresh isolated CD4+ and CD8+ T lymphocytes showed no detectable reactivity with these two anti-CD68 mAbs. However, in vitro stimulation with T-cell mitogen or recombinant interleukin-2 (rIL-2) induced expression of CD68 antigen in activated CD4+ and CD8+ T lymphocytes. Similarly, the lymphokine-activated killer (LAK) cells generated after long-term (14 to 21 days) culture of peripheral blood mononuclear cells (PBMC) in rIL-2 also showed strong granular cytoplasmic staining by the anti-CD68 antibodies. This study shows that the CD68 antigen is constitutively expressed in NK cells and gamma/delta T cells and that its expression is strongly induced in activated CD4+ and CD8+ T lymphocytes as well as LAK cells.
Flash vacuum pyrolysis of alkoxycarbonyl/sulfinyl stabilised phosphorus ylides: generation and intramolecular insertion of alkoxycarbonyl(sulfenyl)carbenes (1994)

Flash vacuum pyrolysis of phosphorus ylides stabilised both by ester and sulfinyl groups results mainly in extrusion of Ph3PO to generate alkoxycarbonyl(sulfenyl)carbenes; these undergo intramolecular insertion into CH of the alkoxycarbonyl group giving β-lactones which under the conditions lose CO2 to afford alkenyl sulfides.
Thermal recrystallization of short-range ordered WS2 films (2018)

The integration of van der Waals materials in nanoelectronic devices requires the deposition of few-layered MX2 films with excellent quality crystals covering a large area. In recent years, astonishing progress in the monolayer growth of WS2 and MoS2 was demonstrated, but multilayer growth resulted often in separated triangular or hexagonal islands. These polycrystalline films cannot fully employ the specific MX2 properties since they are not connected in-plane to the other domains. To coalesce separated islands, ultrahigh-temperature postdeposition anneals in H2S are applied, which are not compatible with bare silicon substrates. Starting from the deposition of stoichiometric short-ordered films, the present work studies different options for subsequent high-temperature annealing in an inert atmosphere to form crystalline films with large grains from stoichiometric films with small grains. The rapid thermal annealing, performed over a few seconds, is compared to excimer laser annealing in the nanosecond range, which are both able to crystallize the thin WS2. The WS2 recrystallization temperature can be lowered using metallic crystallization promoters (Co and Ni). The best result is obtained using a Co cap, due to the circumvention of Co and S binary phase formation below the eutectic temperature. The recrystallization above a critical temperature is accompanied by sulfur loss and 3D regrowth. These undesired effects can be suppressed by the application of a dielectric capping layer prior to annealing. A SiO2 cap can suppress the sulfur loss successfully during annealing and reveals improved material quality in comparison to noncapped films.
ChemInform Abstract: Synthesis and Activity of New Epipolythiopiperazine‐2,5‐dione Compounds. Part 1. (1994)

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.
Antilisterial Activity and Consumer Acceptance of Irradiated Chicken Breast Meat Vacuum‐Infused with Grape Seed and Green Tea Extracts and Tartaric Acid (2010)

Contamination of poultry with pathogenic bacteria contributes to human foodborne disease, causes damage to industry brand names, and has a significant economic impact on the food industry in the form of both damage to industry brand names and losses associated with recalls. Irradiation is a safe and effective means of decontaminating poultry products, but the maximum dose strengths allowed negatively impact poultry sensory quality characteristics. The 1st objective of this study was to investigate the potential interactive inhibitory effects of natural antimicrobials as components of a vacuum-marination in addition to various dose levels of irradiation. Tartaric acid (TA) at 2 levels and grape seed (GS) and green tea (GT) extracts were combined, vacuum-infused into chicken breast fillets, and irradiated at 1, 2, and 3 kGy by electron beam irradiation. The 2nd objective was to use a consumer test group to evaluate TA and plant extract infusion into chicken breast fillets with and without irradiation at 2 kGy on overall impression, flavor, texture, appearance, and tenderness. The results showed that samples vacuum-infused with TA at 37.5 and 75.0 mM and irradiated at 1 kGy significantly reduced Listeria monocytogenes (L.m.) levels by 2 and 3 log CFU/g compared to the control after 12 d of refrigerated storage. Vacuum-infusion of TA at 37.5 and 75.0 mM at 2 and 3 kGy irradiation, reduced L.m. to near nondetectable levels. The addition of TA and GS and GT to chicken breast fillets with and without irradiation did not significantly impact consumer preference, tenderness, appearance, or flavor. The addition of tartaric acid and natural plant extracts to chicken marinades could contribute to the prevention of L.m. contamination.
S0305-5-1 A Study on Very High Cycle Fatigue Property of Spring Steel (SUP7) (2010)

Various kinds of springs are frequently used in mechanical structures and they are exposed in the long term service as a component of the structure. In order to ensure the long term durability, their fatigue properties should be clarified in very high cycle regime. Thus, fatigue properties of a spring steel(JIS Material code: SUP7) were experimentally examined in both of rotating bending and axial loading in this study. Fundamental S-N property was obtained and the fatigue fracture mechanisms were discussed from a view point of fractography.
Nitrite Therapy Positively Augments Arteriogenesis in a Murine Model of Hind Limb Ischemia (2011)

Objective The objective of this study was to test the hypothesis that delayed sodium nitrite therapy in the femoral artery ligation (FAL) mediated hind limb ischemia model stimulates collaterization and ischemic tissue reperfusion. Methods Permanent hind limb ischemia was induced by FAL in C57BL/6J mice. Mice were randomly assigned to four experimental group; control, sodium nitrite, sodium nitrite with cPTIO, or cPTIO alone. The various treatments were administered twice daily and began 5 days post-surgical ligation and continued to 23 days post-ischemia. Tissue blood perfusion was measured using laser Doppler and SPY imaging (angiographic contrast). Vessel diameter and branches were measured by microfil vascular casting and morphometric analysis. Number of capillaries and mature arterioles were also counted. Result Blood perfusion was significantly increased in the nitrite therapy group compared to PBS. Sodium nitrite therapy with concomitant cPTIO treatment significantly blunted ischemic tissue reperfusion. The number of visible collaterals as seen by angiographic SPY imaging was significantly higher in sodium nitrite group compared to PBS. Arterial branches, diameter, and vascular density were all enhanced by sodium nitrite therapy in an NO dependent manner. Sodium nitrite therapy also significantly increased arteriole SMA staining in an NO dependent manner. Conclusion Sodium nitrite therapy during established tissue ischemia quickly augments blood perfusion in the FAL hind limb model by stimulating arteriogenesis in an NO dependent manner. These data suggest that sodium nitrite may be useful in stimulating therapeutic arteriogenesis. Supported by NIH grants HL80482, HL94021, and DK43785
Differential Processing of Consonance and Dissonance within the Human Superior Temporal Gyrus (2016)

The auditory cortex is well-known to be critical for music perception, including the perception of consonance and dissonance. Studies on the neural correlates of consonance and dissonance perception have largely employed non-invasive electrophysiological and functional imaging techniques in humans as well as neurophysiological recordings in animals, but the fine-grained spatiotemporal dynamics within the human auditory cortex remain unknown. We recorded electrocorticographic (ECoG) signals directly from the lateral surface of either the left or right temporal lobe of eight patients undergoing neurosurgical treatment as they passively listened to highly consonant and highly dissonant musical chords. We assessed ECoG activity in the high gamma (γhigh, 70-150 Hz) frequency range within the superior temporal gyrus (STG) and observed two types of cortical sites of interest in both hemispheres: one type showed no significant difference in γhigh activity between consonant and dissonant chords, and another type showed increased γhigh responses to dissonant chords between 75 and 200 ms post-stimulus onset. Furthermore, a subset of these sites exhibited additional sensitivity towards different types of dissonant chords, and a positive correlation between changes in γhigh power and the degree of stimulus roughness was observed in both hemispheres. We also observed a distinct spatial organization of cortical sites in the right STG, with dissonant-sensitive sites located anterior to non-sensitive sites. In sum, these findings demonstrate differential processing of consonance and dissonance in bilateral STG with the right hemisphere exhibiting robust and spatially organized sensitivity toward dissonance.