gebhart/patrepeval huggingface dataset:
On the minimization of overhead in channel impulse response measurement (1998)

This paper presents a new method for channel impulse response measurement with a suitably designed binary sounding sequence. This method minimizes the system overhead and results in ideal channel estimation using three correlators instead of one. This system complexity can be easily overcome by the present technologies. The class of sounding sequences used in this method is the training sequence for channel impulse response measurement with the zero values of the autocorrelation function at all shifts except zero and middle shifts in European digital cellular mobile telephone systems based on the global system for mobile communication (GSM). Computer searches are carried out to find the suitable sounding sequences.
Structural Differences in Translation Initiation between Pathogenic Trypanosomatids and Their Mammalian Hosts (2020)

Canonical mRNA translation in eukaryotes begins with the formation of the 43S pre-initiation complex (PIC). Its assembly requires binding of initiator Met-tRNA<sub>i</sub><sup>Met</sup> and several eukaryotic initiation factors (eIFs) to the small ribosomal subunit (40S). Compared to their mammalian hosts, trypanosomatids present significant structural differences in their 40S, suggesting substantial variability in translation initiation. Here, we determine the structure of the 43S PIC from Trypanosoma cruzi, the parasite causing Chagas disease. Our structure shows numerous specific features, such as the variant eIF3 structure and its unique interactions with the large rRNA expansion segments (ESs) 9<sup>S</sup>, 7<sup>S</sup>, and 6<sup>S</sup>, and the association of a kinetoplastid-specific DDX60-like helicase. It also reveals the 40S-binding site of the eIF5 C-terminal domain and structures of key terminal tails of several conserved eIFs underlying their activities within the PIC. Our results are corroborated by glutathione S-transferase (GST) pull-down assays in both human and T. cruzi and mass spectrometry data.
Retrovirus-mediated gene transfer to purified hemopoietic stem cells with long-term lympho-myelopoietic repopulating ability. (1989)

Despite recent advances in marrow stem cell purification, controversy about the nature and heterogeneity of cells with the potential for long-term repopulation of lymphoid and myeloid tissues remains. Essential to the resolution of these questions is the use of strategies to track the progeny produced in vivo from individual hemopoietic stem cells in purified populations. We have used a procedure for obtaining highly enriched populations of stem cells with competitive repopulating ability from male mice (pretreated with 5-fluorouracil), and in this paper we present the results of studies in which small numbers (150-2000) of these cells were exposed to supernatant containing a helper-free recombinant retrovirus carrying the neomycin-resistance gene and then were transplanted together with 2 x 10(5) "compromised" female marrow cells into irradiated female recipients. Male cells--i.e., progeny of purified stem cells--were found in one or more of the tissues examined (peripheral blood, marrow, spleen, and thymus) in 28 of 28 mice evaluated at various times between 35 and 196 days after transplantation. In 20 of these mice (71%), the neomycin-resistance gene was also detected, although not always at a level that correlated with the proportion of male cells. Analysis of spleen colonies (day 12) generated in secondary recipients confirmed that viral integration was confined to male repopulating cells. In three mice direct evidence of a common clone in both lymphoid and myeloid tissues was also obtained. These results show the feasibility of retrovirus-mediated gene transfer to highly purified populations of lympho-myelopoietic stem cells with long-term (6 months) repopulating potential by using a supernatant infection protocol. This approach should facilitate further analysis of hemopoietic stem cell control in vivo and find future applications in the evolving use of bone marrow transplantation for hemopoietic rescue and gene therapy.
La teoría artística de federico zuccari: antecedentes y repercusiones en la tratadística moderna (2008)

La teoria artistica de federico zuccari: antecedentes y repercusiones en la tratadistica moderna
Genomics‐Driven Discovery of a Symbiont‐Specific Cyclopeptide from Bacteria Residing in the Rice Seedling Blight Fungus (2018)

The rice seedling blight fungus Rhizopus microsporus harbors endosymbiotic bacteria (Burkholderia rhizoxinica) that produce the virulence factor rhizoxin and control host development. Genome mining indicated a massive inventory of cryptic nonribosomal peptide synthetase (NRPS) genes, which have not yet been linked to any natural products. The discovery and full characterization of a novel cyclopeptide from endofungal bacteria is reported. In silico analysis of an orphan, symbiont-specific NRPS predicted the structure of a nonribosomal peptide, which was targeted by LC-MS/MS profiling of wild-type and engineered null mutants. NMR spectroscopy and chemical derivatization elucidated the structure of the bacterial cyclopeptide. Phylogenetic analyses revealed the relationship of starter C domains for rare N-acetyl-capped peptides. Heptarhizin is produced under symbiotic conditions in geographically constrained strains from the Pacific clade; this indicates a potential ecological role of the peptide.
Production of hyperimmune bovine colostrum against Campylobacter jejuni. (1993)

Serial immunization of dairy cows with Campylobacter jejuni resulted in an enhanced serum antibody response and production of hyperimmune colostrum in all vaccinated animals. An approximate 10-fold decrease in the Camp. jejuni-specific antibody titres in colostrum was observed within 2 d post-partum. The lyophilized colostral concentrate fed to newborn calves resulted in a rapid increase in serum antibody response. Specific Camp. jejuni immunoglobulins could be detected in these animals for a further 10 weeks. The lyophilized hyperimmunized colostrum was very stable in vitro at different storage temperatures. It could be used for passive immunization to campylobacteriosis.
Multiplexed detection of SARS-CoV-2 genomic and subgenomic RNA using in situ hybridization (2021)

The widespread Coronavirus Disease 2019 (COVID-19) is caused by infection with the novel coronavirus SARS-CoV-2. Currently, we have a limited toolset available for visualizing SARS-CoV-2 in cells and tissues, particularly in tissues from patients who died from COVID-19. Generally, single-molecule RNA FISH techniques have shown mixed results in formalin fixed paraffin embedded tissues such as those preserved from human autopsies. Here, we present a platform for preparing autopsy tissue for visualizing SARS-CoV-2 RNA using RNA FISH with amplification by hybridization chain reaction (HCR). We developed probe sets that target different regions of SARS-CoV-2 (including ORF1a and N) as well as probe sets that specifically target SARS-CoV-2 subgenomic mRNAs. We validated these probe sets in cell culture and tissues (lung, lymph node, and placenta) from infected patients. Using this technology, we observe distinct subcellular localization patterns of the ORF1a and N regions, with the ORF1a concentrated around the nucleus and the N showing a diffuse distribution across the cytoplasm. In human lung tissue, we performed multiplexed RNA FISH HCR for SARS-CoV-2 and cell-type specific marker genes. We found viral RNA in cells containing the alveolar type 2 (AT2) cell marker gene (<i>SFTPC</i>) and the alveolar macrophage marker gene (<i>MARCO</i>), but did not identify viral RNA in cells containing the alveolar type 1 (AT1) cell marker gene (<i>AGER</i>). Moreover, we observed distinct subcellular localization patterns of viral RNA in AT2 cells and alveolar macrophages, consistent with phagocytosis of infected cells. In sum, we demonstrate the use of RNA FISH HCR for visualizing different RNA species from SARS-CoV-2 in cell lines and FFPE autopsy specimens. Furthermore, we multiplex this assay with probes for cellular genes to determine what cell-types are infected within the lung. We anticipate that this platform could be broadly useful for studying SARS-CoV-2 pathology in tissues as well as extended for other applications including investigating the viral life cycle, viral diagnostics, and drug screening.
Operating temperatures of recessed fluorescent fixtures with thermal insulation (1981)

Tests were performed to determine steady state surface temperatures for recessed fluorescent fixtures operated with and without thermal insulation on the top side of the fixture and to identify potential problems associated with the installation of thermal insulation. In addition to measuring temperatures, means were sought by which the fixtures can be thermally insulated and operated without fire hazards or damage to the fixture. (MCW)
Kinetic Instability of p53 Core Domain Mutants (2003)

Oncogenic mutations in the tumor suppressor protein p53 are found mainly in its DNA-binding core domain. Many of these mutants are thermodynamically unstable at body temperature. Here we show that these mutants also denature within minutes at 37 degrees C. The half-life (t(1/2)) of the unfolding of wild-type p53 core domain was 9 min. Hot spot mutants denatured more rapidly with increasing thermodynamic instability. The highly destabilized mutant I195T had a t(1/2) of less than 1 min. The wild-type p53-(94-360) construct, containing the core and tetramerization domains, was more stable, with t(1/2) = 37 min at 37 degrees C, similar to full-length p53. After unfolding, the denatured proteins aggregated, the rate increasing with higher concentrations of protein. A derivative of the p53-stabilizing peptide CDB3 significantly slowed down the unfolding rate of the p53 core domain. Drugs such as CDB3, which rescue the conformation of unstable mutants of p53, have to act during or immediately after biosynthesis. They should maintain the mutant protein in a folded conformation and prevent its aggregation, allowing it enough time to reach the nucleus and bind its sequence-specific target DNA or the p53 binding proteins that will stabilize it.
Dopamine is involved in regulating vascular tone in retinal arterioles (2022)

Abstract Purpose: There is clinical evidence suggesting that the neurotransmitter dopamine may play a role in regulating retinal vascular function. Patients with Parkinson's disease tend to have a narrower retinal vessel diameter in fundus images and reduced perfusion density 1 . Healthy volunteers given dopamine IV show increased retinal blood cell velocity (by 37%) and fundus pulsation amplitude (by 24%) 2 . However, it is not clear if these observed effects may be due to direct actions of dopamine on retinal vessels, independent of any systemic actions, and if so through which subtype of dopamine receptors. We therefore measured the effects of dopamine ligands on isolated segments of porcine retinal arterioles by small wire myography. Methods: Dissected segments of porcine retinal arterioles and surrounding retinal tissue were mounted in a DMT630MA small wire myograph system for measurement of contractile activity, and pre‐contracted with 10 −6 MU‐46619, a thromboxane analog, added to the organ bath. With the vascular tone stabilized, all dopamine ligands tested were applied separately to the bath with the vessel, and the effects of each on the wall tension recorded. Results are presented as wall tension (in mN/mm) normalized for vessel length. Results: In isolated vessel segments pre‐contracted with U‐46619, dopamine induced a vasodilation in a dose‐dependent manner, which was complete at 2 mM. The dopamine D 1 receptor agonist SKF38393 induced dose‐dependent vasodilation, complete at 0.7 mM. The D 2 receptor agonist sumanirole (10 −4 M) had no effect on wall tension in pre‐contracted retinal arterioles. The D 2 receptor antagonist S‐sulpiride (10 −3 M) had no effect on wall tension and did not block the vasodilation induced by either dopamine or SKF38393. Conclusions: Dopamine induces vasodilation in pre‐contracted retinal arterioles, primarily via D 1 receptors. References 1. Cason, B. et al. JAMA Ophthalmol., 2021; 139(2), 181–188. 2. Huemer, K‐H. et al, Br J. Ophthalmol., 2007; 91, 1194–1198.
Topoisomerase 1 inhibition reversibly impairs synaptic function (2014)

Topotecan is a topoisomerase 1 (TOP1) inhibitor that is used to treat various forms of cancer. We recently found that topotecan reduces the expression of multiple long genes, including many neuronal genes linked to synapses and autism. However, whether topotecan alters synaptic protein levels and synapse function is currently unknown. Here we report that in primary cortical neurons, topotecan depleted synaptic proteins that are encoded by extremely long genes, including Neurexin-1, Neuroligin-1, Cntnap2, and GABA(A)β3. Topotecan also suppressed spontaneous network activity without affecting resting membrane potential, action potential threshold, or neuron health. Topotecan strongly suppressed inhibitory neurotransmission via pre- and postsynaptic mechanisms and reduced excitatory neurotransmission. The effects on synaptic protein levels and inhibitory neurotransmission were fully reversible upon drug washout. Collectively, our findings suggest that TOP1 controls the levels of multiple synaptic proteins and is required for normal excitatory and inhibitory synaptic transmission.
Application of Parallel Characterization Methods in High- Throughput Catalyst Preparation and Development (2014)

Catalyst characterization plays an important role in developing catalytic materials because it helps to identify active catalytic phases or centers and to elucidate reaction mechanisms. Several characterization methods have been parallelized and successfully applied in the high-throughput workflow of catalyst development. We present characterization equipment developed at the Leibniz Institute for Catalysis and show applications in three research areas: (i) in catalyst synthesis for identifying suitable preparation conditions, (ii) in understanding factors governing catalytic performance for identifying structure-reactivity relationships, and (iii) in understanding catalyst deactivation for elucidating the deactivation mechanisms. 6-fold and 8-fold reactors are used for temperature programmed reduction (TPR), oxidation (TPO), desorption (TPD) and chemical titration experiments. TPR has been successfully applied for studying the reducibility of supported Ni-containing catalysts for CO2 reforming of CH4 and for investigating the interaction between metal oxide species and support materials. Chemisorption of H2 and CO2 has provided information about Ni dispersion and basic properties of said catalysts, and with TPO of spent catalysts coke formation was monitored. To prepare catalysts for visible-light induced water splitting, we studied the formation of nitrides and oxynitrides from oxides upon their temperature programmed treatment under a flow of ammonia. We also used 6-fold and 36-fold parallel reactors utilizing UV/vis catalyst analysis in reflectance mode to study changes in valence state and coordination of supported VOx during oxidative dehydrogenation of propane, and to follow coke formation during catalyst deactivation in non-oxidative dehydrogenation of propane.
On the effect of support asymmetry on rotordynamic instability (2015)

One of the causes of rotor instability is the damping of the rotating parts of the system. Its de-stabilizing effect can be counteracted only by introducing a suitable non rotating damping. It is well known that the instability threshold increases at increasing ratio between non rotating and rotating damping. The aim of the present paper is showing that support anisotropy tends to increase the stability of the system, by increasing the instability threshold. This effect is however present only if this anisotropy causes the whirl orbits to become elliptical
The Expression of Tyrosinase, Tyrosinase‐Related Proteins 1 and 2 (TRP1 and TRP2), the Silver Protein, and a Melanogenic Inhibitor in Human Melanoma Cells of Differing Melanogenic Activities (1995)

The expression of various melanogenic proteins, including tyrosinase, the tyrosinase-related proteins 1 (TRP1) and 2 (TRP2/DOPAchrome tautomerase), and the silver protein in human melanocytes was studied in six different human melanoma cell lines and compared to a mouse derived melanoma cell line. Analysis of the expression of tyrosinase, TRP1, TRP2, and the silver protein using flow cytometry revealed that in general there was a positive correlation between melanin formation and the expression of those melanogenic enzymes. Although several of the melanoma cell lines possessed significant activities of TRP2, the levels of DOPAchrome tautomerase in extracts of human cells were relatively low compared to those in murine melanocytes. Melanins derived from melanotic murine JB/MS cells, from melanotic human Ihara cells and HM-IY cells, from sepia melanin, and from C57BL/6 mouse hair were chemically analyzed. JB/MS cells, as well as Ihara cells and HM-TY cells, possessed significant amounts of 5,6-dihydroxyindole-2-carboxylic acid (DHICA) derived melanins, this being dependent on the activity of TRP2. Kinetic HPLC assays showed that 5,6-dihydroxyindole (DHI) produced during melanogenesis was metabolized quickly to melanin in pigmented KHm-1/4 cells, whereas DHI was stable in amelanotic human SK-MEL-24 cells. A melanogenic inhibitor that has been purified from SK-MEL-24 cells that suppressed oxidation of DHI in the presence or absence of tyrosinase, but had no effect on DHICA oxidation. The sum of these results suggests that the expression of melanogenic enzymes as well as the activity of a melanogenic inhibitor are critical to the production of melanin synthesis in humans.
Markov Chain Monte Carlo Modular Ensemble Tracking (2012)

Recent years have been characterized by the overgrowth of video-surveillance systems and by automation of the processing they integrate. Object Tracking has become a recurrent problem in video-surveillance and is a very important domain in computer vision. It was recently approached using classification techniques and still more recently using boosting methods. We propose in this paper a new machine learning based strategy to build the observation model of tracking systems. The global observation function results of a linear combination of several simplest observation functions so-called modules (one per visual cue). Each module is built using a Adaboost-like algorithm, derived from the Ensemble Tracking Algorithm. The importance of each module is estimated using an original probabilistic sequential filtering framework with a joint state model composed by both the spatial object parameters and the importance parameters of the observation modules. Our system is tested on challenging sequences which prove its performance for tracking and scaling on fix and mobile cameras and we compare the robustness of our algorithm with the state of the art.
Inhibition of phosphorolytic degradation of 5-fluoro-2'-deoxyuridine by pyrimidine acyclonucleosides and normal pyrimidine metabolites in rat and beagle tissue homogenates. (1988)

Inhibition constants (Ki) of pyrimidine acyclonucleosides and several normal pyrimidine metabolites for the phosphorolytic degradation of 5-fluoro-2'-deoxyuridine (FUdR) in rat and beagle tissue homogenates (liver and small intestine) were measured. Acyclothymidine (AcycTdR) showed the lowest Ki value for all the homogenates. The Ki/Km values of AcycTdR and acyclouridine (AcycUdR) depended on the homogenates, and the values (Ki/Km) in the rat liver homogenate were higher than those in all other homogenates.
δ-secretase in neurodegenerative diseases: mechanisms, regulators and therapeutic opportunities (2020)

Mammalian asparagine endopeptidase (AEP) is a cysteine protease that cleaves its protein substrates on the C-terminal side of asparagine residues. Converging lines of evidence indicate that AEP may be involved in the pathogenesis of several neurological diseases, including Alzheimer's disease, Parkinson's disease, and frontotemporal dementia. AEP is activated in the aging brain, cleaves amyloid precursor protein (APP) and promotes the production of amyloid-β (Aβ). We renamed AEP to δ-secretase to emphasize its role in APP fragmentation and Aβ production. AEP also cleaves other substrates, such as tau, α-synuclein, SET, and TAR DNA-binding protein 43, generating neurotoxic fragments and disturbing their physiological functions. The activity of δ-secretase is tightly regulated at both the transcriptional and posttranslational levels. Here, we review the recent advances in the role of δ-secretase in neurodegenerative diseases, with a focus on its biochemical properties and the transcriptional and posttranslational regulation of its activity, and discuss the clinical implications of δ-secretase as a diagnostic biomarker and therapeutic target for neurodegenerative diseases.
Early identification of patients admitted to hospital for covid-19 at risk of clinical deterioration: model development and multisite external validation study (2022)

A model to predict clinical deterioration was developed rapidly in response to the covid-19 pandemic at a single hospital, was applied externally without the sharing of data, and performed well across multiple medical centers, patient subgroups, and time periods, showing its potential as a tool for use in optimizing healthcare resources.
<title>Effect of surface boundary on time-resolved reflectance: measurements with a prototype endoscopic catheter</title> (1991)

The implementation of time-resolved reflectance, R(t), measurements via endoscopes during medical procedures may provide an important diagnostic tool for medicine. This paper presents initial studies on a prototype catheter device suitable for the biopsy channel of an endoscope. A pair of optical fibers, one a source and one a collector, were adjoined with epoxy to create a single catheter tip. Such close proximity of two fibers is a special case of the generic R(r,t) measurement, where the fiber separation (r) approaches zero. The influence of an air/tissue surface boundary on the time-resolved collection of photons backscattered by a turbid media is presented. The catheter was either (1) place on the surface of an aqueous turbid solution, or (2) imbedded deep within the volume and distant from the surface or any boundaries. The time course of photon collection was found to be strongly influenced by the surface boundary. Such boundary effects are pertinent to the design of time-resolved catheters which require close spacing of the source and collector fibers.
Specific Endonuclease R Fragments of Bacteriophage φX174 Deoxyribonucleic Acid (1972)

The restriction enzyme from Hemophilus influenzae, endonuclease R, cleaves phiX174 replicative-form deoxyribonucleic acid (DNA) into at least 13 specific limit fragments. The molecular weights of 12 of the fragments have been estimated by gel electrophoresis and electron microscopy. Using the genetic assay for small fragments of phiX DNA, we have shown that we can salvage markers from the endonuclease R phiX-RF fragments.
Etude et développement de couches minces de germanium pour une utilisation comme électrode négative dans des microaccumulateurs Li-ion (2006)

J'aimerais par ailleurs souligner la contribution de M