gebhart/patrepeval huggingface dataset:
A low-molecular-mass protein from Methylococcus capsulatus (Bath) is responsible for the regulation of formaldehyde dehydrogenase activity in vitro (1999)

An 8.6 kDa protein, which the authors call a modifin, has been purified from Methylococcus capsulatus (Bath) and has been shown to alter the substrate specificity and kinetics of NAD+-linked formaldehyde dehydrogenase (FDH) isolated from the same organism. Purification methods for both the modifin and FDH are presented which reliably produced pure protein for further analysis. Analysis of the molecular mass and N-terminal sequence of both FDH and the modifin indicate that they are unique proteins and show no similarity to alcohol or aldehyde dehydrogenase enzymes isolated from methylotrophic bacteria. Substrate specificity studies demonstrated that FDH oxidized formaldehyde exclusively in the presence of the modifin; a diverse range of aldehydes and alcohols were oxidized by FDH in the absence of the modifin. No formaldehyde oxidation was detected in the absence of the modifin. Attempts to replace the modifin with glutathione or high concentrations of methanol to stimulate formaldehyde oxidation failed. With acetaldehyde as substrate, FDH showed standard Michaelis-Menten kinetics; interaction of FDH with the modifin using formaldehyde as substrate altered the kinetics of the reaction to sigmoidal. Kinetic analysis during turnover experiments indicated that the FDH may be associated with bound formaldehyde following enzyme isolation and that NAD may also be associated with the enzyme but in a form that is less tightly bound than found with the methanol dehydrogenase from Bacillus methanolicus. Data are presented which indicate that the modifin may play an important role in regulating formaldehyde concentration in vivo.
Supplemental Figure 3 from Combination Drug Scheduling Defines a “Window of Opportunity” for Chemopotentiation of Gemcitabine by an Orally Bioavailable, Selective ChK1 Inhibitor, GNE-900 (2023)

&lt;p&gt;Representative data from a cell-based checkpoint abrogation assay.&lt;/p&gt;
From molecules to materials: Molecular paddle-wheel synthons of macromolecules, cage compounds and metal–organic frameworks (2011)

Metal-organic frameworks (MOF) are becoming a more and more important class of functional materials. Yet, very often, the synthesis of MOFs is not easy to control and requires a profound knowledge and experience in solid state chemistry. One of the most frequently used metal connectors is the so-called 'paddle-wheel' (PW) unit, which is a well-known molecular compound type in inorganic coordination chemistry. Depending on the ligands, the geometry of PWs strictly directs the assembly of ordered networks. This review focuses on the question, to what extent ordered network structures can be accessed by typical molecular syntheses in solution, starting from molecular PW complexes to ordered macromolecules, finite cage compounds and finally, three-dimensional superstructures.
Analysis of Frequency Domain Electromagnetic Response Characteristic in Inhomogeneous Medium (2017)

Frequency domain electromagnetic method is a way to study the Earth's electrical structure by use of an alternating electromagnetic field. According to the basic theory of the electromagnetic field, the general expressions of frequency domain electromagnetic response are derived. Which are applied to the infinite homogeneous medium and horizontal inhomogeneous medium, respectively. The response characteristics of different formation conductivity show that the formation conductivity has a significant impact on the choices of transmitted signal frequency. In order to achieve the inhomogeneous medium detection, the transmission frequency should be within the range of lower frequency. The numerical results of frequency responses for different intermediate layer thickness indicate when the formation conductivity remains unchanged, the higher the intermediate layer thickness, the more the response amplitude. However, the transmit frequency corresponding to response signal peak is not removed.
Supplementary Figure 1 from Tumor-Promoting Desmoplasia Is Disrupted by Depleting FAP-Expressing Stromal Cells (2023)

&lt;p&gt;Identification of FAP+ cancer-associated stromal cells in desmoplastic A549 tumors.&lt;/p&gt;
Appendixes: Meetings and Leaders (1987)

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Role of Protease-Inhibitors in Ocular Diseases (2014)

It has been demonstrated that the balance between proteases and protease-inhibitors system plays a key role in maintaining cellular and tissue homeostasis. Indeed, its alteration has been involved in many ocular and systemic diseases. In particular, research has focused on keratoconus, corneal wounds and ulcers, keratitis, endophthalmitis, age-related macular degeneration, Sorsby fundus dystrophy, loss of nerve cells and photoreceptors during optic neuritis both in vivo and in vitro models. Protease-inhibitors have been extensively studied, rather than proteases, because they may represent a therapeutic approach for some ocular diseases. The protease-inhibitors mainly involved in the onset of the above-mentioned ocular pathologies are: α2-macroglobulin, α1-proteinase inhibitor (α1-PI), metalloproteinase inhibitor (TIMP), maspin, SERPINA3K, SERPINB13, secretory leukocyte protease inhibitor (SLPI), and calpeptin. This review is focused on the several characteristics of dysregulation of this system and, particularly, on a possible role of proteases and protease-inhibitors in molecular remodeling that may lead to some ocular diseases. Recently, researchers have even hypothesized a possible therapeutic effect of the protease-inhibitors in the treatment of injured eye in animal models.
Tabula Microcebus: A transcriptomic cell atlas of mouse lemur, an emerging primate model organism (2021)

ABSTRACT Mouse lemurs are the smallest, fastest reproducing, and among the most abundant primates, and an emerging model organism for primate biology, behavior, health and conservation. Although much has been learned about their physiology and their Madagascar ecology and phylogeny, little is known about their cellular and molecular biology. Here we used droplet- and plate-based single cell RNA-sequencing to profile 226,000 cells from 27 mouse lemur organs and tissues opportunistically procured from four donors clinically and histologically characterized. Using computational cell clustering, integration, and expert cell annotation, we defined and biologically organized over 750 mouse lemur molecular cell types and their full gene expression profiles. These include cognates of most classical human cell types, including stem and progenitor cells, and the developmental programs for spermatogenesis, hematopoiesis, and other adult tissues. We also described dozens of previously unidentified or sparsely characterized cell types and subtypes. We globally compared cell type expression profiles to define the molecular relationships of cell types across the body, and explored primate cell and gene expression evolution by comparing mouse lemur cell transcriptomes to those of human, mouse, and macaque. This revealed cell type specific patterns of primate specialization, as well as many cell types and genes for which lemur provides a better human model than mouse. The atlas provides a cellular and molecular foundation for studying this primate model organism, and establishes a general approach for other emerging model organisms.
Unsolved severe chronic rhinosinusitis elucidated by extensive CFTR genotyping (2019)

Severe chronic rhinosinusitis in children should alert clinicians and extensive <i>CFTR</i> genotyping should be performed. We propose that thorough clinical and functional assessment in severe chronic rhinosinusitis is valuable to discover rare mutations which could be treated by CFTR correctors to postpone pulmonary infection.
Engineering SARS-CoV-2 neutralizing antibodies for increased potency and reduced viral escape (2022)

ABSTRACT The rapid spread of SARS-CoV-2 variants poses a constant threat of escape from monoclonal antibody and vaccine countermeasures. Mutations in the ACE2 receptor binding site on the surface S protein have been shown to disrupt antibody binding and prevent viral neutralization. Here, we use a directed evolution-based approach to engineer three neutralizing antibodies for enhanced binding to S protein. The engineered antibodies showed increased in vitro functional activity in terms of neutralization potency and/or breadth of neutralization against viral variants. Deep mutational scanning revealed that higher binding affinity reduced the total number of viral escape mutations. Studies in the Syrian hamster model showed two examples where the affinity matured antibody provided superior protection compared to the parental antibody. These data suggest that monoclonal antibodies for anti-viral indications could benefit from in vitro affinity maturation to reduce viral escape pathways and appropriate affinity maturation in vaccine immunization could help resist viral variation.
Blockade of adenosine A2B receptors ameliorates murine colitis (2008)

Taken together, these data demonstrate that the intestinal epithelial A2B receptor is an important mediator of pro-inflammatory responses in the intestine and that A2B receptor blockade may be an effective therapeutic strategy to treat inflammatory bowel disease.
Nucleotide sequence of cloned cDNA for human sphingolipid activator protein 1 precursor. (1987)

Two cDNA clones encoding prepro-sphingolipid activator protein 1 (SAP-1) were isolated from a lambda gt11 human hepatoma expression library using polyclonal antibodies. These had inserts of approximately 2 kilobases (lambda-S-1.2 and lambda-S-1.3) and both were both homologous with a previously isolated clone (lambda-S-1.1) for mature SAP-1. We report here the nucleotide sequence of the longer two EcoRI fragments of S-1.2 and S-1.3 that were not the same and the derived amino acid sequences of mature SAP-1 and its prepro form. The open reading frame encodes 19 amino acids, which are colinear with the amino-terminal sequence of mature SAP-1, and extends far beyond the predicted carboxyl terminus of mature SAP-1, indicating extensive carboxyl-terminal processing. The nucleotide sequence of cDNA encoding prepro-SAP-1 includes 1449 bases from the assigned initiation codon ATG at base-pair 472 to the stop codon TGA at base-pair 1921. The first 23 amino acids coded after the initiation ATG are characteristic of a signal peptide. The calculated molecular mass for a polypeptide encoded by 1449 bases is approximately 53 kDa, in keeping with the reported value for pro-SAP-1. The data indicate that after removal of the signal peptide (23 amino acids) mature SAP-1 (78 amino acids) is generated by removing an additional 7 amino acids from the amino terminus and approximately 373 amino acids from the carboxyl terminus. One potential glycosylation site was previously found in mature SAP-1. Three additional potential glycosylation sites are present in the processed carboxyl-terminal polypeptide, which we designate as P-2. The molecular mass of glycosylated pro-SAP-1 is estimated at approximately 69 kDa, assuming glycosylation of all four sites. The value is close to the reported 70-kDa value for glycosylated pro-SAP-1. A computer search failed to reveal homology between P-2 and the sequence of any other protein; its function is uncertain. The 3' untranslated region is composed of 90 base pairs and is incomplete, since it does not contain a polyadenylylation site or a poly(A) tail.
Tertiary Structure Around the Guanosine-Binding Site of the Tetrahymena Ribozyme (1992)

A cleavage reagent directed to the active site of the Tetrahymena catalytic RNA was synthesized by derivatization of the guanosine substrate with a metal chelator. When complexed with iron(II), this reagent cleaved the RNA in five regions. Cleavage at adenosine 207, which is far from the guanosine-binding site in the primary and secondary structure, provides a constraint for the higher order folding of the RNA. This cleavage site constitutes physical evidence for a key feature of the Michel-Westhof model. Targeting a reactive entity to a specific site should be generally useful for determining proximity within folded RNA molecules or ribonucleoprotein complexes.
High‐Speed Uplink Packet Access (2010)

This chapter presents High-Speed Uplink Packet Access (HSUPA) for Wideband Code Division Multiple Access (WCDMA), the key new feature included in Release 6 specifications. The technologies applied with HSUPA are to improve uplink packet data performance by means of fast physical layer (L1) retransmission and transmission combining, as well as fast Node B (Base Transceiver Station (BTS)) controlled scheduling. The chapter presents HSUPA key aspects and then compares with Release 99 uplink packet access possibilities. It summarizes the impact of HSUPA on the terminal (or User Equipment (UE) in 3rd Generation Partnership Project (3GPP) terms) capability classes. The chapter presents HSUPA performance analysis including a comparison with Release 99 uplink packet data capabilities. It also covers the Release 6 HSUPA principles and the resulting performance. Controlled Vocabulary Terms access protocols; multiaccess communication
A Phosphine‐Mediated Conversion of Azides into Diazo Compounds (2008)

Abstract Auf die sanfte Art : Diazoverbindungen sind äußerst nützliche Intermediate, doch ihre Synthese kann in Gegenwart empfindlicher funktioneller Gruppen schwierig sein. Die Staudinger‐Ligation war Inspiration für eine milde Methode, um eine Vielzahl an Aziden über ein Acyltriazenintermediat in die Diazoderivate zu überführen. magnified image
Transgelin is a direct target of TGF‐β/Smad3‐dependent epithelial cell migration in lung fibrosis (2008)

Enhanced transforming growth factor (TGF) -beta signaling contributes to idiopathic pulmonary fibrosis (IPF), a progressive and fatal disease characterized by alveolar epithelial type II (ATII) cell hyperplasia, (myo)fibroblast accumulation, and excessive extracellular matrix deposition. TGF-beta is a potent inducer of lung fibrosis, and it regulates the ATII cell phenotype; however, direct TGF-beta target genes controlling the ATII cell phenotype remain elusive. Here, we identified the transgelin (tagln) gene as a novel immediate target of TGF-beta/Smad3-dependent gene expression in ATII cells using a Smad3 chromatin immunoprecipitation (ChIP) screen. Direct ChIP confirmed the rapid and specific binding of Smad3 to the tagln promoter. Luciferase assays demonstrated transactivation of the tagln promoter by activin-like kinase (Alk) 5-mediated TGF-beta signaling. TGF-beta treatment resulted in rapid up-regulation of tagln, but not tagln2, mRNA and protein expression, assessed by reverse transcription-polymerase chain reaction (RT-PCR), Western blotting, and immunofluorescence. In vivo, tagln expression was significantly increased in ATII cells of mice during bleomycin-induced lung fibrosis, as well as in lung specimen obtained from IPF patients, as assessed by RT-PCR and immunohistochemistry. Knockdown of tagln using siRNA inhibited TGF-beta-induced migration of lung epithelial A549 cells, as well as primary ATII cells. We thus identified tagln as a novel target of TGF-beta/Smad3-dependent gene expression in ATII cells. Increased ATII cell expression of tagln in experimental and idiopathic pulmonary fibrosis may contribute to TGF-beta-dependent ATII cell injury, repair, and migration in lung fibrosis.
Analysis of UAV communications in cell-free massive MIMO systems (2020)

We study support for unmanned aerial vehicle (UAV) communications through a cell-freemassive MIMO architecture, wherein a large number of access points (APs) is deployed in place of largeco-located massive MIMO arrays. We consider also a variation of the pure cell-free architecture by applyinga user-centric association approach, where each user is served only from a subset of APs in the network.Under the general assumption that the propagation channel between the mobile stations, either UAVs orground users (GUEs), and the APs follows a Ricean distribution, we derive closed form spectral efficiencylower bounds for uplink and downlink with linear minimum mean square error channel estimation. Weconsider several power allocation and user scheduling strategies for such a system, and, among these,also minimum-rate maximizing power allocation strategies to improve the system fairness. Our numericalresults reveal that cell-free massive MIMO architecture and its low-complexity user-centric alternativemay provide better performance than a traditional multi-cell massive MIMO network deployment.
Autoregressive spread-spectral analysis of intracardiac electrograms: comparison to Fourier analysis (2003)

The combination of autoregressive (AR) spectral estimation and the spread spectrum is investigated as a method of evaluating cardiac electrogram recordings. The authors provide examples of autoregressive spectral estimation applied to nonfibrillatory and fibrillatory signals and demonstrate its advantages over established spectral analysis algorithms. AR models were fit to brief epochs of atrial fibrillation, ventricular fibrillation, sinus rhythm, and other nonfibrillatory rhythm electrograms. Spread-spectrum plots were constructed from epoch spectra to examine temporal changes in cardiac dynamics as well as differences in spectral estimates. The results of applying the high resolution spread spectrum to clinical data in relation to proposed physiological mechanisms of fibrillation are examined.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
4H-SiC Piezoresistive Pressure Sensors at 800 °C With Observed Sensitivity Recovery (2014)

Uncooled MEMS-based 4H-SiC Wheatstone bridge configured piezoresistive pressure sensors were demonstrated from 23 °C to 800 °C. The full-scale output (FSO) voltage exhibited gradual decrease with increasing temperature from 23 °C to 400 °C, then swung upward as temperature increased further to where the values measured at 800 °C were nearly equal to or higher than the room temperature values. This newly observed FSO behavior in 4H-SiC contrasts sharply with the FSO behavior of silicon piezoresistive sensors that decrease continuously with increasing temperature. The increase in the sensor output sensitivity at 800 °C implies higher signal to noise ratio and improved fidelity, thereby offering promise of further insertion into >600 °C environments without the need for cooling and complex signal conditioning.
Proceedings of the 1st international conference on Robot communication and coordination (2007)

ROBOCOMM is the First International Conference on Robot Communication and Coordination. As the name suggests, it aims at the convergence of two fields, acting as a common forum for the Robotics and Communications research communities. The expected outcome of the event is the cross-fertilization of these two areas leading to growth in the capabilities of both.

Robotics is an interdisciplinary field that requires a number of competencies including mechanics, control theory, electronics and communications. Initially the first three areas dominated in their roles. However, in the last two decades we have witnessed the unprecedented growth of wireless communication technologies, with increasing attention given to sensor networks and ad-hoc networks, enlarging the possible configurations of a network. Meanwhile, building more than just one or two robots at a time has become cheaper and more common, thus opening a whole new range of applications for multi-robot systems with networking capabilities. Network robotics offers a framework to study coordination mechanisms for complex systems through communication channels, thus providing a natural common ground for the convergence of information processing, communication theory and control theory.

Networked robotics poses significant challenges, requiring the integration of communication theory, software engineering, distributed sensing and control into a common framework. Furthermore, robots are unique in that their motion and tasking control systems are co-located with the communications mechanisms. This allows the co-exploitation of individual subsystems to provide completely new kinds of networked or distributed autonomy. ROBOCOMM aims to be the leading-edge conference where prominent researchers with different backgrounds will gather and merge different ideas into a common framework that will enable new applications based on large scale networks of mobile robots.

This first conference attracted some 90 submissions, of which 42 have been selected for full paper presentation and a further 24 for poster presentation. The selection relied on the efforts of four technical program chairs leading a strong technical program committee which reviewed all papers. The high standard of reviewing and the diverse set of submissions have created a program of excellent contributions that cover the broad scope of this new convergent research field.

The program includes nine sessions focused on Mobility for Communications; Localization and Tracking; Decentralized Coordination; Control Architectures; Networked Sensing; Reconfigurable Networks; Decentralized Decision Making; Applications and Devices, and Tools and Simulators. We are delighted also to have keynote talks from Prof Raffaello D'Andrea, Professor of Automatic Control at ETH Zurich and Dr Gerard McKee, head of the Active Robotics Laboratory, Reading University, UK. These keynotes will both focus on networked robots, in automated order fulfillment (a 'killer application') and in space robotics, respectively.
ChemInform Abstract: A Micellar Iodide‐Catalyzed Synthesis of Unprotected Aziridines from Styrenes and Ammonia. (2008)

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.
On the Parameters Affecting Calcium Plating and Stripping from Organic Electrolytes – Cases of Electrolyte Optimization (2021)

Among the different next-generation battery technologies, the ones based on divalent cations have recently gained particular attention due to their higher raw material availability and potentially higher energy density when compared with Li-ion. Such is the case of calcium, being the 5 th most abundant element in the earth crust and having a standard redox potential only 170 mV above metallic lithium. However, the development of a secondary calcium-metal battery had been hampered by the lack of organic electrolytes allowing for reversible plating and stripping, which was only recently reported by our group and others employing different electrolyte formulations. The different electrolyte components – salt(s), solvent(s) and additive(s) – are expected to play a significant role in the operation of a calcium-metal battery. Here we will show how the solvation structure of the cation evolves in relation to the solvent employed and the concentration of the salt. Combining conductivity measurements with Raman spectroscopy data, a high tendency to form contact ion pairs is evidenced, which significantly affects the mobility of the ions in the liquid media. The use of different anions and their bonding strength with Ca 2+ in solution will be discussed. Combined, the anion and solvent characteristics dictate the solvation of the cation, which in turn can affect the Ca plating and stripping kinetics. Additionally, the presence of electrolyte contaminants will be explored. The crucial yet very challenging drying of electrolyte containing Ca(BF 4 ) 2 in carbonate solvents will be presented. The difficulties to obtain anhydrous and contaminant free solutions from commercially available salts will be discussed and two alternative routes for anhydrous synthesis of the target salt will be presented.