gebhart/patrepeval huggingface dataset:
Estimation of environment forces and rigid-body velocities using observers (2002)

This paper presents an observer-based approach to the determination of environment forces acting on a rigid body. Actuation forces, measured positions and orientations and identification of inertial parameters are used for this purpose. It is also shown that environment force estimates can be used in turn to correct rigid-body velocity estimates generated by observers, leading to accurate, low-noise estimates during contact tasks. The approach, shown to also apply to general serial mechanisms, is supported by experimental data obtained with a magnetically levitated wrist.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Removal of Cu(II) from wastewater by waste tire rubber ash (2010)

The influence of pH, adsorbent dose, initial Cu(II) concentration and contact time on the removal of Cu(II) from aqueous solution by the batch adsorption technique using waste tire rubber ash as a low-cost adsorbent was investigated. The adsorption equilibrium was achieved after 2 h at pH 4-6, the optimum for the adsorption of Cu(II) ions. A dose of 1.5 g/L of adsorbent was sufficient for the optimum removal of copper ions. The experimental data were analyzed by the Langmuir and Freundlich isotherms and the corresponding sorption constants were evaluated. The adsorption kinetics data were fitted by a first-order equation. The cost of removal is expected to be quite low, as the adsorbent is cheap and easily available in large quantities. The present study showed that waste tire rubber ash was capable of removing copper ions from industrial wastewater samples.
The evolution of African swine fever virus in Sardinia (1978 to 2014) as revealed by whole genome sequencing and comparative analysis (2020)

African swine fever (ASF) is a highly contagious and lethal viral disease of pigs and wild boars, which is enzootic in many African countries and on the Italian island of Sardinia, where it has been present since 1978. Previous genetic analyses of Sardinian ASF virus (ASFV) isolates have revealed that they all belong to p72 genotype I, with only minor sequence variations. However, these studies examined only a few selected genes. To distinguish between these closely related isolates and better investigate ASFV evolution in Sardinia, we sequenced the complete genomes of 12 Sardinian ASFV isolates collected between 1978 and 2012, and compared them with 47/Ss/2008 and 26544/OG10. Most of the observed changes occurred in a time-dependent manner; however, their biological significance remains unclear. As a whole, our results demonstrate the remarkable genetic stability of these strains, supporting a single-source introduction of the virus.
White's Standard Nutrient Solution (1981)

Journal Article White's Standard Nutrient Solution Get access MADHAV SINGH, MADHAV SINGH UNESCO Senior Fellow, on leave *Department of Biochemistry, University of LucknowLucknow, India Search for other works by this author on: Oxford Academic PubMed Google Scholar A. D. KRIKORIAN A. D. KRIKORIAN Search for other works by this author on: Oxford Academic PubMed Google Scholar Annals of Botany, Volume 47, Issue 1, January 1981, Pages 133–139, https://doi.org/10.1093/oxfordjournals.aob.a085988 Published: 01 January 1981 Article history Accepted: 29 June 1980 Published: 01 January 1981
Sterile Lung Inflammation Induced by Silica Exacerbates Mycobacterium tuberculosis Infection via STING-Dependent Type 2 Immunity (2019)

Lung inflammation induced by silica impairs host control of tuberculosis, yet the underlying mechanism remains unclear. Here, we show that silica-driven exacerbation of M. tuberculosis infection associates with raised type 2 immunity. Silica increases pulmonary Th2 cell and M2 macrophage responses, while reducing type 1 immunity after M. tuberculosis infection. Silica induces lung damage that prompts extracellular self-DNA release and activates STING. This STING priming potentiates M. tuberculosis DNA sensing by and activation of cGAS/STING, which triggers enhanced type I interferon (IFNI) response and type 2 immunity. cGAS-, STING-, and IFNAR-deficient mice are resistant to silica-induced exacerbation of M. tuberculosis infection. Thus, silica-induced self-DNA primes the host response to M. tuberculosis-derived nucleic acids, which increases type 2 immunity while reducing type 1 immunity, crucial for controlling M. tuberculosis infection. These data show how cGAS/STING pathway activation, at the crossroads of sterile inflammation and infection, may affect the host response to pathogens such as M. tuberculosis.
Co-evolutionary algorithm approach to a university timetable system (2003)

This paper describes an automated curriculum timetabling system based on a stochastic search methodology, namely a co-evolutionary algorithm. The application timetable is taken from the undergraduate courses of the School of Electrical and Electronic Engineering (EEE), Nanyang Technological University (NTU). A co-evolutionary algorithm approach is found to be well suited. Practical courses have duration greater than one hour. A schedule can be generated separately and its population, which consists of a set of practical schedules, is termed as the practical population. Lecture and tutorial schedules can also be generated separately. These are of one-hour duration and they are termed collectively as lecture/tutorial schedule. A set of lecture/tutorial schedules could be generated to form the lecture/tutorial population. These two populations use the same set of resources and have constraining effects upon one another. Since the placement of practical courses have a more constraining effect, the schedules in the practical population are first generated and are then used to guide the generation of the set of lecture/tutorial schedules. For every lecture/tutorial schedule generated, it is combined with its corresponding practical schedule to form a combined schedule. The average fitness of all the combined schedules is then computed and used as a measure of the fitness of the practical schedule that drives them. The practical population is then evolved progressively to obtain the best practical schedule. It is then used as a base configuration for the rest of the courses to populate and evolve. The resultant system compares favorably to the current manual system.
Compensating specular highlights for non-Lambertian projection surfaces (2013)

This paper concerns the compensation of specular highlight for handheld image projectors. By employing a projector-camera configuration, where the camera is aligned with the viewer, the distortion caused by nonideal (e.g., colored, reflective) projection surfaces can be estimated from the captured image and compensated for accordingly to improve the projection quality. This works fine when the viewing direction relative to the system is fixed. However, the compensation becomes inaccurate when this condition changes, because the position of the specular highlight changes as well. We propose a novel method that, without moving the camera, can estimate the specular highlight seen from any position and integrate it with Grossberg’s radiometric compensation framework to demonstrate how view-dependent compensation can be achieved. Extensive results, both objective and subjective, are provided to demonstrate the performance of the proposed algorithm.
AIDS dementia: Synthesis and properties of a derivative of 3′‐azido‐3′‐deoxythymidine (AZT) that may become ‘locked’ in the central nervous system (1988)

In an attempt to provide a derivative of 3'-azido-3'-deoxythymidine (AZT) which might be sequestered in the central nervous system and release AZT, the dihydropyridine ester 5'-(1,4-dihydro-1-methyl-3-pyridinylcarbonyl)-3'-deoxythymidine, was synthesized in a three step sequence. This material showed potent anti-HIV-1 activity in MT-4 cells most probably by hydrolysis to the parent nucleoside, AZT. This dihydropyridine derivative of AZT could be easily oxidized to a positively charged pyridinium derivative of AZT in rat brain cytosol. In turn the pyridinium form could be hydrolyzed, non-enzymatically, to AZT.
Blocking mTOR Signalling with Rapamycin Ameliorates Imiquimod-induced Psoriasis in Mice (2017)

The mTOR (mechanistic target of rapamycin) inhibitor rapamycin has long been known for its immune suppressive properties, but it has shown limited therapeutic success when given systemically to patients with psoriasis. Recent data have shown that the mTOR pathway is hyperactivated in lesional psoriatic skin, which probably contributes to the disease by interfering with maturation of keratinocytes. This study investigated the effect of topical rapamycin treatment in an imiquimod-induced psoriatic mouse model. The disease was less severe if the mice had received rapamycin treatment. Immunohistological analysis revealed that rapamycin not only prevented the activation of mTOR signalling (P-mTOR and P-S6 levels), but almost normalized the expression of epidermal differentiation markers. In addition, the influx of innate immune cells into the draining lymph nodes was partially reduced by rapamycin treatment. These data emphasize the role of mTOR signalling in the pathogenesis of psoriasis, and support the investigation of topical mTOR inhibition as a novel anti-psoriatic strategy.
Is there a relationship between DNA sequences encoding peptide ligands and their receptors? (1989)

It has been suggested that the coding for a ligand and its receptor may have originated in inverse complementary strands of the same DNA. This would imply a deficiency of stop codons in the complementary strand of the ligand message sequence. We have sought evidence of such deficiencies by an analysis of the usage of selected codons in 23 human neuropeptide and hormone mRNA sequences. We have also searched directly for similarities between substance K or substance P and the substance K receptor. Although bovine proopiomelanocortin has an open reading frame for the full extent of the inverse complement of the coding region, this seems to be a unique case. The data as a whole do not support the hypothesis.
Cooperative Anti-Leukemic Effects of Imatinib and Mcl-1 Antisense: Identification of Mcl-1 as a Novel Target in CML. (2004)

Abstract The BCR-ABL tyrosine kinase inhibitor STI571 (Imatinib) has successfully been introduced in the treatment of patients with CML. However, despite encouraging initial data and high expectations long term results are not available yet, and recent data suggest that resistance against STI571 can occur. Therefore, current studies focus on novel potential drug targets in CML cells. Recently, several anti-apoptotic members of the Bcl-2-family including Mcl-1 have been implicated in the regulation of survival of BCR/ABL+ cell lines and therefore proposed as potential targets. We have examined expression of Mcl-1 in primary CML cells and various BCR/ABL-transformed cell lines. Independent of the phase of disease, isolated primary CML cells expressed Mcl-1 mRNA and the Mcl-1 protein in a constitutive manner. The BCR/ABL-inhibitor STI571 decreased the expression of Mcl-1 in these cells. Correspondingly, BCR/ABL enhanced Mcl-1 promoter activity, Mcl-1 mRNA, and Mcl-1 protein in Ba/F3 cells. BCR/ABL-dependent expression of Mcl-1 in Ba/F3 cells was counteracted by the MEK-inhibitor PD98059, but not by the PI3-kinase inhibitor LY294002. Identical results were obtained for constitutive expression of Mcl-1 in primary CML cells and the CML-derived cell lines K562 and KU812. To investigate the role of Mcl-1 as a survival-related target gene in CML cells, Mcl-1 siRNA or an Mcl-1 antisense oligonucleotide (ASO) were applied. Both the ASO and the siRNA-induced downregulation of Mcl-1 were found to be associated with a substantial decrease in viability of K562 cells. Moreover, the Mcl-1 ASO was found to cooperate with STI571 in producing growth-inhibition in both STI571-sensitive and STI571-resistant K562 cells. Together, our data identify Mcl-1 as a survival factor and novel target in CML. Whether this concept is of clinical significance remains to be determined in forthcoming clinical trials.
Increased risk of sudden infant death syndrome in older infants at weekends. (1986)

<h3>Abstract</h3> KSHV viral FLICE inhibitory protein (vFLIP) is a potent activator of NF-κB signaling and an inhibitor of apoptosis and autophagy. Inhibition of vFLIP function and NF-κB signaling promotes lytic reactivation. Here we provide evidence for a novel function of vFLIP in promoting NF<i>κ</i>B signaling through inhibition of the DUB activity of the negative regulator, A20. We demonstrate interaction of vFLIP with the Itch/A20 ubiquitin editing complex. We have identified a SUMO interaction motif in vFLIP that is required for NF-κB activation. Mutation of the SIM in BAC16 resulted in increased spontaneous RTA expression and loss of spindle cell morphology. Our results suggest a role for SUMO in mediating vFLIP function and provide evidence for vFLIP modulation of the negative regulation of NF-κB signaling by A20. Our results provide further insight into the function of vFLIP and SUMO in the regulation of NF-κB signaling and the latent lytic transition.
Quartet: harmonizing task scheduling and caching for cluster computing (2016)

Cluster computing frameworks such as Apache Hadoop and Apache Spark are commonly used to analyze large data sets. The analysis often involves running multiple, similar queries on the same data sets. This data reuse should improve query performance, but we find that these frameworks schedule query tasks independently of each other and are thus unable to exploit the data sharing across these tasks. We present Quartet, a system that leverages information on cached data to schedule together tasks that share data. Our preliminary results are promising, showing that Quartet can increase the cache hit rate of Hadoop and Spark jobs by up to 54%. Our results suggest a shift in the way we think about job and task scheduling today, as Quartet is expected to perform better as more jobs are dispatched on the same data.
ChemInform Abstract: ASYMMETRIC HYDROSILYLATION OF KETONES CATALYSED BY A CHIRAL RHODIUM COMPLEX (1974)

Abstract Optisch aktive Alkoxysilane (III) werden in guten Ausbeuten durch die Umsetzung von (I) mit Ketonen (II) in Gegenwart eines chiralen Rhodiumkomplexes dargestellt.
Broadband, Flat Frequency Comb Generated Using Pulse Shaping-Assisted Nonlinear Spectral Broadening (2013)

In this letter, we demonstrate the nonlinear generation of a low noise, ultra-flat frequency comb covering the full C-band. The comb is generated using nonlinear spectral broadening on a mode-locked laser, assisted by adaptive pulse shaping. A linear pulse shaping element, which is dynamically controlled by an adaptive algorithm exploiting the covariance matrix adaptation evolution strategy, is placed prior to a nonlinear element. A 3-dB bandwidth of 35 nm is achieved, and the power variations about a central region of 30 nm are less than 1 dB.
DNA Replication, cell cycle progression and the targeted gene repair reaction (2008)

Single-stranded oligonucleotides (ssODNs) can direct base changes in mammalian cells and influence changes in phenotype. The mechanism by which ssODNs alters the sequence is being revealed by studies carried out in model systems. In the long run, this information will provide the basis for clinical protocols designed to target genetic diseases. It is now clear that DNA replication plays an important part in the gene repair reaction. Here, we examine gene repair as a function of the amount of cells passing through S phase. We find that cells in mid to late S are most amenable to gene repair, and reaction manipulations that enrich the population of cells in S phase naturally lead to elevated correction frequencies. Our data suggest that these intra-S sub phases support higher levels of repair independent of transfection efficiencies or the rates of replication. A preliminary gene expression profile of cells in the most amenable correction phase indicates that the levels of cyclin G(2), cyclin H, CDK12A and CDK12B are raised significantly. Taken together, our data identify sections of S phase that enable higher levels of gene repair and establish a mechanistic framework for the use of gene repair in clinical setup.
Perfil de expresión de microRNAs en biopsias de testículo de pacientes con Síndrome de Klinefelter. (2021)

El sindrome de Klinefelter (SK) es la aneuploidia cromosomica mas comun, con una prevalencia de 1:500 nacidos vivos. Una de las caracteristicas distintivas del SK es la infertilidad. A pesar de los multiples estudios que han descrito la historia natural del proceso degenerativo de las celulas germinales en los pacientes con SK, el o los mecanismos a nivel molecular que inician este proceso, no son bien conocidos. El mecanismo de control postranscripcional mediado por microRNAs (miRNAs) ha surgido recientemente como un importante regulador del espermatogenesis, sin embargo, son pocos los estudios que han abordado el rol de los miRNAs en el fallo gonadal de los pacientes con SK. En el presente trabajo se realizo el analisis de expresion de miRNAs en 7 muestras de tejido testicular, obtenido por biopsia, de 4 pacientes con sindrome de Klinefelter y 5 muestras de pacientes con azoospermia obstructiva, con histologia normal en el tejido testicular, las cuales fueron utilizadas como grupo control. El analisis se realizo mediante secuenciacion de nueva generacion (NGS), se identifico un perfil de expresion diferencial entre ambos grupos. A los miRNAs diferencialmente expresados se les realizo un analisis de interaccion con sus genes diana, posteriormente se realizo un analisis de enriquecimiento de los procesos biologicos Ontologia Genetica (GO-terms) y su posible relacion en la espermatogenesis. Ciento sesenta y seis miRNAs mostraron un patron de expresion diferencial. Cien miRNAs mostraron una regulacion a la baja y 66 al alza con respecto al grupo control. Los miRNAs que fueron diferencialmente expresados tienen su interaccion con genes diana que estan asociados en la proliferacion celular, la regulacion de los procesos de desarrollo, la regulacion de la diferenciacion celular, el desarrollo de celulas germinales y el gonadal. De acuerdo a una exhaustiva revision de la bibliografia, este es el primer reporte de perfil de expresion de miRNAs en tejido testicular de pacientes con SK
Surface Curvature Differentially Regulates Stem Cell Migration and Differentiation via Altered Attachment Morphology and Nuclear Deformation (2016)

Signals from the microenvironment around a cell are known to influence cell behavior. Material properties, such as biochemical composition and substrate stiffness, are today accepted as significant regulators of stem cell fate. The knowledge of how cell behavior is influenced by 3D geometric cues is, however, strongly limited despite its potential relevance for the understanding of tissue regenerative processes and the design of biomaterials. Here, the role of surface curvature on the migratory and differentiation behavior of human mesenchymal stem cells (hMSCs) has been investigated on 3D surfaces with well-defined geometric features produced by stereolithography. Time lapse microscopy reveals a significant increase of cell migration speed on concave spherical compared to convex spherical structures and flat surfaces resulting from an upward-lift of the cell body due to cytoskeletal forces. On convex surfaces, cytoskeletal forces lead to substantial nuclear deformation, increase lamin-A levels and promote osteogenic differentiation. The findings of this study demonstrate a so far missing link between 3D surface curvature and hMSC behavior. This will not only help to better understand the role of extracellular matrix architecture in health and disease but also give new insights in how 3D geometries can be used as a cell-instructive material parameter in the field of biomaterial-guided tissue regeneration.
Immunization of a rabbit with β 2-glycoprotein I induces charge-dependent crossreactive antibodies that bind anionic phospholipids and have similar reactivity as autoimmune anti-phospholipid antibodies (1995)

A rabbit immunized with beta 2-glycoprotein I (beta 2-GPI) produced Abs that bind to negatively charged phospholipids and to beta 2-GPI. After affinity purification of the Abs to beta 2-GPI, the dual reactivity could still be detected. Adsorption studies with a phosphatidylserine affinity column depleted phospholipid-reactive Abs, but beta 2-GPI reactivity was retained. The same pattern of reactivity was found with culture supernatants from rabbit anti-beta 2-GPI splenocytes fused with an immortalized rabbit cell line. The reactivity to negatively charged phospholipids is likely to involve ionic interactions, as high ionic strength buffers eliminated binding to anionic phospholipids, but not to beta 2-GPI. Affinity-purified anti-phospholipid (aPL) Abs from four of seven autoimmune patients bound anionic phospholipids in the absence of beta 2-GPI. However, in high ionic strength buffer, this binding was abolished in three patients and significantly reduced in the fourth. In contrast, affinity-purified aPL Abs from seven autoimmune patients bound to beta 2-GPI-coated plates, and binding in high ionic strength buffer was reduced only moderately in three patients. Therefore, autoimmune-type aPL Abs display anti-beta 2-GPI reactivity and charge-dependent binding to anionic phospholipids similar to affinity-purified rabbit anti-beta 2-GPI Abs.
Solid-Phase Synthesis of PEGylated Lipopeptides Using Click Chemistry (2010)

A versatile methodology for efficient synthesis of PEGylated lipopeptides via CuAAC "Click" conjugation between alkyne-bearing solid-supported lipopeptides and azido-functionalized PEGs is described. This new and very robust method offers a unique platform for synthesizing PEGylated lipopeptides with a high level of complexity. These molecules, obtained in a single purification step, are ideally suited for functionalization of solid-supported lipid bilayers and liposomal drug delivery systems and are particularly valuable in enzyme activation strategies.
Asymmetric syntheses <i>via</i> heterocyclic intermediates, XXXI. Asymmetric synthesis of various non‐proteinogenic amino acid methyl esters (functionalized in the carbon chain) and amino acids by the bislactim ether method (1986)

Abstract The lithiated bislactim ethers 5, 10, 12 , and 23 were alkylated with a variety of alkylating agents 6 to give the alkylated bislactim ethers 7, 11, 13 , and 24 with a high degree of asymmetric induction (up to 99%). Upon hydrolysis these furnished the optically active amino acid methyl esters of type 8, 14 , or 25 . Some of these amino acid esters were further hydrolyzed to yield the amino acids.
Direct Catalytic Enantioselective Aza‐Diels–Alder Reactions (2005)

Proline and its derivatives catalyze the asymmetric one-pot three-component aza-Diels–Alder reaction between unmodified α,β-unsaturated cyclic ketones, aqueous formaldehyde, and aryl amines with excellent chemo- and enantioselectivities (see scheme). Furthermore, this reaction provides a highly enantioselective entry to bicyclic non-proteogenic amino acid derivatives.
Detection of human papillomaviruses of high oncogenic potential in oral squamous cell carcinoma in a Venezuelan population (2004)

We observed a high prevalence of HPV infection of high oncogenic potential types in patients with SCC in our studied group. The moderately differentiated SCCs were more associated to HPV infection. These differences could be influenced by nutritional, environmental and genetical factors in our population but further studies should be carried out to determine these aspects.