gebhart/patrepeval huggingface dataset:
Inhibition of OctapeptideN-Myristoylation by Acyl Amino Acids and Acyl Alkanolamines (1997)

Several acyl amino acids and acyl alkanolamines were prepared and screened for their inhibition of octapeptide N-myristoylation and HIV-1 replication in MT-4 cells. Of the 62 acyl derivatives tested, N-myristoyl-O-caproyl-L-serine, N-myristoyl-O-caproyl-D-serine and N-decanoyl-O-myristoyl-L-serine were found to be uncompetitive inhibitors of N-myristoylation, but did not prevent HIV-induced cytopathicity in MT-4 cells. However, other acyl derivatives such as N-3-hydroxymyristoyl ethanolamine, N-3-hydroxymyristoyl-D-serine and N-myristoyl-L-cysteine, which did not inhibit N-myristoylation, suppressed the cytopathicity in the infected cells. The acyl derivatives described here may serve as lead compounds for antiviral agents.
Biosynthesis of 130-kilodalton mosquito larvicide in the cyanobacterium Agmenellum quadruplicatum PR-6 (1989)

The 130-kilodalton mosquito larvicidal gene, cloned from Bacillus thuringiensis var. israelensis, was introduced into the cyanobacterium Agmenellum quadruplicatum PR-6 by plasmid transformation. Transformed cells synthesized 130-kilodalton delta-endotoxin protein and showed mosquito larvicidal activity. Results demonstrate a potential use of a cyanobacterium for biological control of mosquitoes.
Safety of the use of Tissucol® Duo S in cardiovascular surgery: retrospective analysis of 2149 patients after coronary artery bypass grafting☆ (2007)

Although the apparent increase in mortality risk associated with the use of fibrin glue could not be eliminated statistically, we consider Tissucol Duo S fibrin glue a safe and effective therapeutic tool in CABG surgery when it is applied correctly. Due to the retrospective character of this study some detailed information about the indication for the use of fibrin glue and its application is missing which may be important cofactors for mortality. For further clarification a prospective randomized study may be useful.
Keynote: Scaling Up Quality Education (2015)

Only a small fraction of students have access to the high quality learning experiences afforded by our nation’s top liberal arts colleges. This talk will overview and critique some recent developments and trends in scaling up access to such experiences, nationwide and worldwide. Specific topics to be discussed include open educational resources, massive open online courses, and machine learning algorithms for learning analytics and personalized learning. Beyond access, such initiatives have the potential to reduce some of the costs of high-quality educational experiences at liberal arts colleges. Richard Baraniuk is the Victor E. Cameron Professor of Electrical and Computer Engineering at Rice University and Founding Director of Connexions (cnx.org) and OpenStax (openstax.org). In addition to his “day job” in signal processing, he was a founder of the modern “open education” movement, which aims to share knowledge and teaching materials freely online. Baraniuk launched Connexions in 1999. One of the first initiatives to offer free, open-source textbooks via the Web, the Rice-based initiative grew to become OpenStax CNX, a massive online repository that today is used each month by millions of learners and teachers in 190 countries. For his education projects, he has received the Eta Kappa Nu C. Holmes MacDonald National Outstanding Teaching Award, the Tech Museum Laureate Award, the Internet Pioneer Award from the Berkman Center for Internet and Society at Harvard Law School, the World Technology Network Education Award, the IEEE Signal Processing Society Education Award, and the IEEE James H. Mulligan, Jr. Education Medal. For his research projects in signal processing and machine learning, he has received young investigator awards from the US National Science Foundation and the Office of Naval Research, the Rosenbaum Fellowship from the Isaac Newton Institute of Cambridge University, the Wavelet Pioneer Award and the Compressive Sampling Pioneer Award from SPIE, and the IEEE Signal Processing Society Technical Achievement Award. He is a Fellow of IEEE and AAAS.
Downlink User Capacity of Massive MIMO Under Pilot Contamination (2015)

Pilot contamination has been regarded as a main limiting factor of time division duplexing (TDD) massive multiple-input-multiple-output (Massive MIMO) systems, as it will make the signal-to-interference-plus-noise ratio (SINR) saturated. However, how pilot contamination will limit the user capacity of downlink Massive MIMO, i.e., the maximum number of users whose SINR targets can be achieved, has not been addressed. This paper provides an explicit expression of the Massive MIMO user capacity in the pilot-contaminated regime where the number of users is larger than the pilot sequence length. This capacity expression characterizes a region within which a set of SINR requirements can be jointly satisfied. The size of this region is fundamentally limited by the pilot sequence length. Furthermore, the scheme for achieving the user capacity, i.e., the uplink pilot training sequences and downlink power allocation, has been identified. Specifically, the generalized Welch bound equality sequences are exploited and it is shown that the power allocated to each user should be proportional to its SINR target. With this capacity-achieving scheme, the SINR requirement of each user can be satisfied and energy-efficient transmission is achieved in the large-antenna-size (LAS) regime. The comparison with two non-capacity-achieving schemes highlights the superiority of our proposed scheme in terms of achieving higher user capacity. Furthermore, for the practical scenario with a finite number of antennas, the actual antenna size required to achieve a significant percentage of the asymptotic performance has been analytically quantified.
Bilirubin estimates from smartphone images of newborn infants’ skin correlated highly to serum bilirubin levels (2020)

A smartphone-based tool that estimated bilirubin levels from digital images identified severe jaundice with high sensitivity and could provide a screening tool for neonatal jaundice.
Expression of CXCL12 and CXCR4 in pancreatic cancer and their clinical significance (2008)

OBJECTIVE:To investigate the expression of CXCL12-CXCR4 in pancreatic cancer(PAC)and relation to clinical pathology.METHODS:The expressions of CXCL12 and CXCR4 in PAC tissues,the cancerous peripheral tissues,the normal pancreatic tissues and peripheral lympho nodes were assayed by immunohistochemical staining,reverse transcription polymerase chain reaction(RT-PCR)and fluorescence quantitative real-time PCR.RESULTS:In the immunohistochemical staining,the positive rates of CXCL12 protein in the cancerous peripheral tissues,normal pancreatic tissues and peripheral lympho nodes were 46.7%,56.7% and 50.0% respectively.The expression of CXCL12 had no relationship with the differentiation,TNM stages and lymphatic metastasis of PAC,P0.05.The positive rates of CXCR4 protein were 80.0%,70.0% and 73.3% respectively.The expressions of CXCR4 had significant relationship with the TNM stages of PAC,P0.01.But it has no correlation between the differentiation.The results of RT-PCR and fluorescence quantitative real-time PCR indicated the same results.CONCLUSIONS:The expression of CXCR4 was significantly associated with lymphatic metastasis of PAC,and the biological axis of CXCL12-CXCR4 may play an important role in migration and metastasis of PAC.
Ultrafast Dynamics of Photosynthetic Light Harvesting: Strategies for Acclimation Across Organisms (2023)

Photosynthetic light harvesting exhibits near-unity quantum efficiency. The high efficiency is achieved through a series of energy and charge transfer steps within a network of pigment-containing proteins. Remarkably, high efficiency is conserved across many organisms despite differences in the protein structures and organization that allow each organism to respond to its own biological niche and the stressors within. In this review, we highlight recent progress toward understanding how organisms maintain optimal light-harvesting ability by acclimating to their environment. First, we review the building blocks of photosynthetic light harvesting, energy transfer, and time-resolved spectroscopic techniques. Then, we explore how three classes of photosynthetic organisms-purple bacteria, cyanobacteria, and green plants-optimize their light-harvesting apparatuses to their particular environment. Overall, research has shown that photosynthetic energy transfer is robust to changing environmental conditions, with each organism utilizing its own strategies to optimize photon capture in its particular biological niche.
Characterization of GaAs grown by metalorganic chemical vapor deposition on Si-on-insulator (1987)

Epitaxial GaAs layers were grown by metalorganic chemical vapor deposition on Si-on-insulator structures formed by high dose oxygen implantation. The quality of the GaAs films was examined as a function of layer thickness (0.01–4 μm). The surface morphology, ion backscattering yield, x-ray diffraction peak width, and Si implant activation efficiency all improve substantially with GaAs thickness. At a film thickness of 4 μm many of these properties are comparable to bulk GaAs, but some cracking of the epitaxial film is evident. Cross-sectional transmission electron microscopy reveals an average defect density of ∼108 cm−2 in the GaAs layer, which is similar to the density in GaAs films grown directly on Si.
OS X Mavericks基本ワザ&便利ワザ (2014)

１ Ｆｉｎｄｅｒウインドウ ２ メニューバー・Ｄｏｃｋ ３ 文字入力 ４ ファイル・フォルダ操作 ５ インターネット ６ メール ７ カスタマイズ ８ 徹底活用 ９ アプリケーション １０ トラブル
Thermal Denaturation Assays in Chemical Biology (2011)

Thermal denaturation-based methods are becoming increasingly used to characterize protein stability and interactions. Recent technical advances have made these methods more suitable for high throughput screening. Reasonable throughput and the ability to perform these screens using commonly used instruments, such as RT-PCR machines or simple plate readers equipped with heating devices, facilitate these experiments in almost any laboratory. Introducing an aggregation-based monitoring approach as well as alternative fluorophores has allowed the screening of a wider range of proteins, including membrane proteins, against large chemical libraries. Thermal denaturation-based methods are independent of protein function, which is especially useful for the identification of orphan protein function. Here, we review applications of thermal denaturation-based methods in characterizing protein stability and ligand binding, and also provide information on protocol modifications that may further increase throughput.
A 2.4 GHz 0.18 μm CMOS self-biased cascode power amplifier with 23 dBm output power (2003)

A two-stage self-biased cascode power amplifier in 0.18 /spl mu/m CMOS process for Class 1 Bluetooth application provides 23 dBm output power with 31 dB gain and 42% PAE at 2.4 GHz. The power amplifier die occupies 0.46 mm/sup 2/.
Towards FAIR Explainable AI: a standardized ontology for mapping XAI solutions to use cases, explanations, and AI systems (2022)

Several useful taxonomies have been published that survey the eXplainable AI (XAI) research field. However, these taxonomies typically do not show the relation between XAI solutions and several use case aspects, such as the explanation goal or the task context. In order to better connect the field of XAI research with concrete use cases and user needs, we designed the ASCENT (Ai System use Case Explanation oNTology) framework, which is a new ontology and corresponding metadata standard with three complementary modules for different aspects of an XAI solution: one for aspects of AI systems, another for use case aspects, and yet another for explanation properties. The descriptions of XAI solutions in this framework include whether the XAI solution has a positive, negative, inconclusive or unresearched relation with use case elements. Descriptions in ASCENT thus emphasize the (user) evaluation of XAI solutions in order to support finding validated practices for application in industry, as well as being helpful for identifying research gaps. Describing XAI solutions according to the proposed common metadata standard is an important step towards the FAIR (Findable, Accessible, Interoperable, Reusable) usage of XAI solutions.
Kinetic study on the reaction of cis-[Pd(en)(H_2O)_2](NO_3)_2 and N-AcCysMe (1996)

Over the years, there has been a great deal of interest in developing artificial enzymesthat hydrolyse amide bond of peptides and proteins. Recently, we found that Pd(Ⅱ)complexes bind to the sulfur atom of S-methylcysteine or methionine in peptides andpromote the selective hydrolysis of the adjacent amide bond on the carboxyl side of an-choring side chain. The half-lives of certain hydrolysis reactions are as short as several
Photo-switchable Donor-Acceptor (D-A) Dyad Interfacial Self-Assembled Monolayers for Organic Photovoltaic Cells (2015)

Abstract : Several Donor-Acceptor (D-A) dyads were designed and prepared to be used as photoswitched interfacial layers to polarize organic solar cells when irradiated to increase the photoconversion efficiencies. Some D-A dyads were designed to be anchored on TiO2 supports to function as Dye Sensitized Solar Cells (DSSCs). The concept of photoswitched interfacial polarization was clearly demonstrated using impedance spectroscopy for several triphenylamine-fullerene dyads, but their performance in photovoltaic devices was not remarkable, likely due to the presence of pinholes in the self-assembled monolayers. Some of the new compounds performed relatively well in DSSCs, some attaining PCEs of 4.7-5.6%.
MEF2C, a MADS/MEF2-family transcription factor expressed in a laminar distribution in cerebral cortex. (1993)

We have cloned cDNA encoding a human transcription factor that belongs to the MEF2 (myocyte-specific enhancer-binding factor 2) subfamily of the MADS (MCM1-agamous-deficiens-serum response factor) gene family. This factor, which we have named MEF2C, binds specifically to the MEF2 element and activates transcription via this element. Specific isoforms of this factor are found exclusively in brain and are robustly expressed by neurons in cerebral cortex. In situ hybridization indicates that the factor is expressed preferentially in certain neuronal layers of cortex and that expression declines during postnatal development. The unusual pattern of expression in brain suggests that this transcription factor may be important in the development of cortical architecture.
Comparison of prognostic factors in patients in phase I trials of cytotoxic drugs vs new noncytotoxic agents (2003)

The aims of this study were to identify prognostic variables for toxicity and survival in patients with cancer participating in phase I clinical trials and compare characteristics of those treated with cytotoxic chemotherapy (CT) and non-cytotoxic drugs (non-CT). Data were collected from 420 (114 CT, 306 non-CT) patients enrolled in 16 phase I trials (five CT and 11 non-CT trials) in one cancer centre. Analyses of all patients were used to compare treatment groups, identify predictive variables for toxicity and to estimate prognostic factors in overall survival (OS). These were used to develop a prognostic index (PI). Multivariate analysis found those patients with better performance status, fewer sites of metastases, baseline Hb>12 g dl(-1) and WBC or LDH in the normal range had significantly better OS. Male gender, platelet count <450 x 10(9) l(-1), high WBC or treatment with a non-CT phase I agent significantly reduced the chance of grade 3/4 toxicity. Overall survival was not significantly different between the CT and non-CT groups (260 vs 192 days, P=0.47) except for those with liver metastases (228 vs 137 days, P=0.02). Overall tumour response was 4.9% (95% CI: 2.7-7.0%). The PI identified three distinct patient groups with median survival of 321, 257 and 117 days. In conclusion, entry into a phase I trial of a non-CT drug is a safe option for heavily pretreated patients with cancer. The PI generated from these data can estimate the survival probability for patients entering phase I studies.
Cool Copper Template for the Formation of Oriented Nanocrystalline α-Tantalum (2002)

Ta/Cu is a strategic material combination for ultra-large-scale integrated wafer technology. Here we report an unconventional method for the synthesis of a [110]-oriented nanocrystalline α-Ta thin film on freshly prepared Cu(111) templates at <50 °C without any redundant underlayers and post-growth treatments. The crystallite size of the α-Ta-containing thin film is in the range of only 6−8 nm, and the Ta film resistivity is reduced significantly from 186 μΩ cm down to 104 μΩ cm with this novel method.
In-situ viscometry during hydrolysis of lignocellulosic materials by single and cocktail enzymatic activities: from material impact to viscosity overshoot (2017)

Rheological characterization of lignocellulosic suspension is a fundamental research to overpass physical limitations during enzymatic hydrolysis. In this study, the rheological properties of lignocellulosic suspensions (filter paper - FP, paper pulp - PP and pretreated sugarcane bagasse - SCB) and their evolution during enzymatic hydrolysis were investigated by in-situ measurements. All tested suspensions behaved as shear thinning fluids and a critical concentration reflecting the change between diluted to semi-dilute regimes were identified.
The evolution of DSP architectures: towards parallelism exploitation (2005)

This paper presents a path of parallelism exploitation in commercial programmable DSP processors. DSP processors have gained in their complexity and have adopted some very sophisticated parallelism extraction techniques, namely very long instruction word (VLIW) and SIMD designs. The intention is to show a development path of digital signal processors (DSP) and focuses on their features that allow parallel processing of algorithms.
Diagnosing Pressure-Dependent-Permeability in Long-Term Shale Gas Pressure and Production Transient Analysis (2013)

Summary URTeC 1573545 The current state of shale gas reservoir dynamics demands understanding long-term production, and existing models that address important parameters like fracture half-length, permeability, and stimulated shale volume (SSV) assume constant permeability. However, observed steeply declining rates may involve pressure-dependent permeability (PDP). This study accounts for PDP in two potential media: the shale formation and the created hydraulic fractures. Sensitivity studies comparing expected long-term rate and pressure production behavior show that PDP in the shale formation is distinct from PDP in created hydraulic fractures, and both are distinct from behavior without PDP. Successive buildups spaced apart in time reveal PDP behavior, but they do not necessarily indicate whether the permeability changes are in the shale formation or in the hydraulic fractures. The combined buildup and rate-normalized pressure data presentation displays both short-term and long-term transient trends that distinguish the source of the PDP behavior. Pressure and rate field data demonstrate evidence of PDP in Horn River and Haynesville shale, but not in Fayetteville shale. Successive buildup transients in Horn River shale show evidence of permeability increase while in Haynesville shale they show significant permeability loss. In the Haynesville shale case, the impact of PDP is effectively reduced recovery from the stimulated shale volume defined by productive fracture half-lengths.
MRMaid, the Web-based Tool for Designing Multiple Reaction Monitoring (MRM) Transitions (2008)

Multiple reaction monitoring (MRM) of peptides uses tandem mass spectrometry to quantify selected proteins of interest, such as those previously identified in differential studies. Using this technique, the specificity of precursor to product transitions is harnessed for quantitative analysis of multiple proteins in a single sample. The design of transitions is critical for the success of MRM experiments, but predicting signal intensity of peptides and fragmentation patterns ab initio is challenging given existing methods. The tool presented here, MRMaid (pronounced "mermaid") offers a novel alternative for rapid design of MRM transitions for the proteomics researcher. The program uses a combination of knowledge of the properties of optimal MRM transitions taken from expert practitioners and literature with MS/MS evidence derived from interrogation of a database of peptide identifications and their associated mass spectra. The tool also predicts retention time using a published model, allowing ordering of transition candidates. By exploiting available knowledge and resources to generate the most reliable transitions, this approach negates the need for theoretical prediction of fragmentation and the need to undertake prior "discovery" MS studies. MRMaid is a modular tool built around the Genome Annotating Proteomic Pipeline framework, providing a web-based solution with both descriptive and graphical visualizations of transitions. Predicted transition candidates are ranked based on a novel transition scoring system, and users may filter the results by selecting optional stringency criteria, such as omitting frequently modified residues, constraining the length of peptides, or omitting missed cleavages. Comparison with published transitions showed that MRMaid successfully predicted the peptide and product ion pairs in the majority of cases with appropriate retention time estimates. As the data content of the Genome Annotating Proteomic Pipeline repository increases, the coverage and reliability of MRMaid are set to increase further. MRMaid is freely available over the internet as an executable web-based service at www.mrmaid.info.
An exact algorithm for the discrete split delivery vehicle routing problem with time windows (2009)

The Split Delivery Vehicle Routing Problem (SDVRP) is a variant version of the classical VRP in which each customer can be visited by more than one vehicle which serves a fraction of its demand. The Discrete SDVRP is another variant in which the delivery request of a customer consists of several items which cannot be split further. In this work we consider the DSDVRP with time windows where the service of items' combinations imply a corresponding service time. We present a branch-and-price algorithm and discuss preliminary computational results.
Average power limit of fiber-laser systems with nearly diffraction-limited beam quality (2016)

The maximum average power that can be emitted from an ytterbium-doped fiber-laser system is estimated. The analysis takes into account all the effects known so far that may limit the average power including transverse mode instabilities and photo darkening. Hereby, the recent experimental observation that transverse mode instabilities depend on the average heat load in a fiber amplifier is exploited. The results of this analysis show that there are three main limiting effects: stimulated Raman scattering, the brightness of the pump laser and transverse mode instabilities. Moreover, the analysis suggests that, disregarding possible practical constrains, the average output power of a fiber laser system can be, in principle, increased up to 70kW.
Origins of Recursive Function Theory (1981)

For over two millenia mathematicians have used particular examples of algorithms for determining the values of functions. The notion of "?-definability" was the first of what are now accepted as equivalent exact mathematical descriptions of the class of the functions for which algorithms exist. This article explains the notion and traces the investigation in 1931-1933 by which the notion was quite unexpectedly so accepted. The Herbrand-Gödel notion of "general recursiveness" in 1934 and the Turing notion of "computability" in 1936 were the second and third equivalent notions. Techniques developed in the study of ?-definability were applied in the analysis of general recursiveness and Turing compatibility.