gebhart/patrepeval huggingface dataset:
Reaction Mechanism, Evolutionary Analysis, and Role of Zinc in Drosophila Methionine-R-sulfoxide Reductase (2002)

Methionine residues in proteins are susceptible to oxidation, and the resulting methionine sulfoxides can be reduced back to methionines by methionine-S-sulfoxide reductase (MsrA) and methionine-R-sulfoxide reductase (MsrB). Herein, we have identified two MsrB families that differ by the presence of zinc. Evolutionary analyses suggested that the zinc-containing MsrB proteins are prototype enzymes and that the metal was lost in certain MsrB proteins later in evolution. Zinc-containing Drosophila MsrB was further characterized. The enzyme was found to employ a catalytic Cys(124) thiolate, which directly interacted with methionine sulfoxide, resulting in methionine and a Cys(124) sulfenic acid intermediate. A subsequent reaction of this intermediate with Cys(69) generated an intramolecular disulfide. Dithiothreitol could reduce either the sulfenic acid or the disulfide, but the disulfide was a preferred substrate for thioredoxin, a natural electron donor. Interestingly, the C69S mutant could complement MsrA/MsrB deficiency in yeast, and the corresponding natural form of mouse MsrB was active with thioredoxin. These data indicate that MsrB proteins employ alternative mechanisms for sulfenic acid reduction. Four other conserved cysteines in Drosophila MsrB (Cys(51), Cys(54), Cys(101), and Cys(104)) were found to coordinate structural zinc. Mutation of any one or a combination of these residues resulted in complete loss of metal and catalytic activity, demonstrating an essential role of zinc in Drosophila MsrB. In contrast, two conserved histidines were important for thioredoxin-dependent activity, but were not involved in zinc binding. A Drosophila MsrA gene was also cloned, and the recombinant enzyme was found to be metal-free and specific for methionine S-sulfoxide and to employ a similar sulfenic acid/disulfide mechanism.
Optical coherence tomography in the detection of retinal break and management of retinal detachment in morning glory syndrome (2005)

Optical coherence tomography is beneficial in the detection of subtle slit-like breaks at the margin of excavation in retinal detachment in MGS. It provides good guidance in subsequent surgery and is very helpful in confirming the closure of the retinal break.
Mockup Builder: Direct 3D Modeling On and Above the Surface in a Continuous Interaction Space (2013)

Our work introduces a semi-immersive environment for conceptual design where virtual mockups are obtained from gestures we aim to get closer to the way people conceive, create and manipulate threedimensional shapes. We present on-and-above-the-surface interaction techniques following Guiard’s asymmetric bimanual model to take advantage of the continuous interaction space for creating and editing 3D models in a stereoscopic environment. To allow for more expressive interactions, our approach continuously combines hand and finger tracking in the space above the table with multi-touch on its surface. This combination brings forth an alternative design environment where users can seamlessly switch between interacting on the surface or in the space above it depending on the task. Our approach integrates continuous space usage with bimanual interaction to provide an expressive set of 3D modeling operations. Preliminary trials with our experimental setup show this as a very promising avenue for further work.
Quantum cryptography (2002)

Quantum cryptography could well be the first application of quantum mechanics at the single-quantum level. The rapid progress in both theory and experiment in recent years is reviewed, with emphasis on open questions and technological issues.
Autoradiography using storage phosphor technology (1990)

We describe the application of photostimulable storage phosphor imaging plates to autoradiography of samples labeled with 32P, 14C and 35S. Imaging plates can detect a 32P-labeled sample at an exposure level of 1 disintegration/mm2, and 14C and 35S at 25 disintegrations/mm2. Compared to X-ray film, imaging plates offer increased sensitivity of 15- to 250-fold for 32P and 20- to 100-fold for 14C and 35S. Resolution is in the 0.3 mm range and is therefore suitable for any gel or blot application.
Germinal centre formation and follicular antigen trapping in the spleen of lethally X-irradiated and reconstituted rats. (1986)

In this study, the relationship between germinal centre formation and the follicular trapping of immune complexes in the rat spleen was investigated. Lethally (9 Gy) X-irradiated rats were reconstituted with thoracic duct lymphocytes and subsequently challenged with sheep red blood cells to induce germinal centre formation. Rats were killed at daily intervals from 1 to 8 days after reconstitution and antigenic stimulation. Antigen trapping capacity during this interval was assessed by intravenous injection of HRP-anti-HRP immune complexes, 24 hr before killing of the animals. Germinal centre formation could be observed from Day 4 onwards. The follicular trapping capacity, which had been abolished by the X-irradiation, however, returned 2 days later (i.e. by Day 6). Apparently, in these experiments, early germinal centre formation could occur without an intact follicular trapping mechanism. It was, therefore, concluded that in this transfer system follicular immune complex trapping is not a prerequisite for the induction of de novo germinal centre formation. Previous studies have shown that both follicular dendritic cells and marginal zone B cells may play a role in the follicular antigen trapping mechanism. FDCs, as detectable with mAB MRC OX 2 in immunoperoxidase-stained frozen sections, were present in spleens at any time after irradiation and reconstitution; the impaired follicular trapping of HRP-anti-HRP immune complexes was therefore not due to an absence of FDCs. Marginal zone B cells, however, were almost absent until 5 days after reconstitution, as observed by immunohistochemical staining with anti-B cell mABs (HIS 14 and HIS 22) and a polyclonal anti-IgD antiserum. Our data suggest that regeneration of follicular antigen trapping capacity is dependent on the presence of marginal zone B cells.
Potential mechanisms of action of atypical antipsychotic medications in treatment-resistant depression and anxiety. (2005)

The serotonin (5-HT) and norepinephrine neurons have reciprocal interactions at the level of their cell bodies and nerve terminals. As an illustration of such connections, selective serotonin reuptake inhibitors (SSRIs) gradually enhance serotonin transmission not only in the forebrain but also in the locus ceruleus, thereby decreasing norepinephrine neuronal firing. In contrast, blocking 5-HT2A receptors in the presence of serotonin reuptake inhibition using the experimental compound YM992 enhances both serotonin and norepinephrine release. The latter pharmacologic effect may be a main contributor to the robust antidepressant effect of adding atypical antipsychotics in SSRI-resistant patients. In obsessive-compulsive disorder, risperidone has consistently been reported to be an effective augmentation strategy in SSRI-resistant patients. This effect may result in part from its antagonistic actions on dopaminergic receptors and alpha2-adrenoceptors on serotonin terminals.
HIV-1 Vpr-Induced Apoptosis Is Cell Cycle Dependent and Requires Bax but Not ANT (2006)

The HIV-1 accessory protein viral protein R (Vpr) causes G2 arrest and apoptosis in infected cells. We previously identified the DNA damage-signaling protein ATR as the cellular factor that mediates Vpr-induced G2 arrest and apoptosis. Here, we examine the mechanism of induction of apoptosis by Vpr and how it relates to induction of G2 arrest. We find that entry into G2 is a requirement for Vpr to induce apoptosis. We investigated the role of the mitochondrial permeability transition pore by knockdown of its essential component, the adenine nucleotide translocator. We found that Vpr-induced apoptosis was unaffected by knockdown of ANT. Instead, apoptosis is triggered through a different mitochondrial pore protein, Bax. In support of the idea that checkpoint activation and apoptosis induction are functionally linked, we show that Bax activation by Vpr was ablated when ATR or GADD45alpha was knocked down. Certain mutants of Vpr, such as R77Q and I74A, identified in long-term nonprogressors, have been proposed to inefficiently induce apoptosis while activating the G2 checkpoint in a normal manner. We tested the in vitro phenotypes of these mutants and found that their abilities to induce apoptosis and G2 arrest are indistinguishable from those of HIV-1NL4-3 vpr, providing additional support to the idea that G2 arrest and apoptosis induction are mechanistically linked.
Bubble nucleation in liquids (1975)

Abstract Theoretical and experimental aspects of homogeneous and heterogeneous bubble nucleation are reviewed. Recent developments in nucleation theory, which include hydrodynamic and diffusion constraints, gas phase nonidealities, and heterogeneous nucleation are discussed. A large number of the measured limits of superheat of pure components are close to 88 to 90% of the critical temperature. Where calculations can be made, these measurements are in agreement with predictions from classical nucleation theory. Measurements of the limits of superheat of mixtures are useful for understanding one proposed mechanism for the dangerous phenomena known as contact vapor explosions.
Late correction of malunited intercondylar humeral fractures. Intra-articular osteotomy and tricortical bone grafting (1994)

We treated three patients with malunion after comminuted intercondylar fractures of the humerus by intra-articular derotational opening-wedge osteotomy and the insertion of a tricortical iliac bone graft. Two patients required additional operations, including interposition arthroplasty and hardware removal. A mean arc of increased motion of 65 degrees was achieved in flexion and extension in two patients and a more functional arc in the third. Although this is viewed as a salvage procedure in patients who are thought to be too young for elbow arthroplasty, none of the three patients has significant pain and none has required total elbow arthroplasty after an average follow-up of 7.6 years.
Autoreactive CD8 T cells associated with β cell destruction in type 1 diabetes (2005)

Type 1 diabetes is a T cell-mediated autoimmune disease, and insulin is an important target of the autoimmune response associated with beta cell destruction. The mechanism of destruction is still unknown. Here, we provide evidence for CD8 T cell autoreactivity associated with recurrent autoimmunity and loss of beta cell function in type 1 diabetic islet transplant recipients. We first identified an insulin B chain peptide (insB10-18) with extraordinary binding affinity to HLA-A2(*0201) that is expressed by the majority of type 1 diabetes patients. We next demonstrated that this peptide is naturally processed by both constitutive and immuno proteasomes and translocated to the endoplasmic reticulum by the peptide transporter TAP1 to allow binding to HLA-A2 in the endoplasmic reticulum and cell surface presentation. Peripheral blood mononuclear cells from a healthy donor were primed in vitro with this peptide, and CD8 T cells were isolated that specifically recognize target cells expressing the insulin B chain peptide. HLA-A2(insB10-18) tetramer staining revealed a strong association between detection of autoreactive CD8 T cells and recurrent autoimmunity after islet transplantation and graft failure in type 1 diabetic patients. We demonstrate that CD8 T cell autoreactivity is associated with beta cell destruction in type 1 diabetes in humans.
Myelin basic protein treatment of experimental allergic encephalomyelitis in monkeys (1979)

Treatment of experimental allergic encephalomyelitis (EAE) in two strains of monkeys with large amounts of myelin basic basic protein (BP) fails unless an adjunct is also used. In both strains the adjunct by itself is more effective than BP by itself, but in the one strain which could be investigated sufficiently, the combination can be made almost totally effective in reversing EAE. The adjunct varies with the strain of monkey, an antibiotic in Macaca mulatta and a steroid in Macaca fascicularis. Similar adjunctive treatments should be considered in the management of multiple sclerosis, for EAE remains one of the best studied models.
Adipose-derived stem cells promote human dermal fibroblast function and increase senescence-associated β-galactosidase mRNA expression through paracrine effects (2014)

Adipose‑derived stem cells (ADSCs) are known to secrete various cytokines, which affect fibroblast function through paracrine effects. In the present study, the paracrine effects of ADSCs on the function and senescence of young and aged human dermal fibroblasts (HDFs) were investigated in vitro. ADSCs and HDFs were isolated from healthy donors and flow cytometry was used for immunophenotype identification. ADSCs were co‑cultured with young or aged human dermal fibroblasts in Transwell plates, and control groups were established accordingly. Cellular proliferation was measured by an MTT assay. Type I collagen, matrix metalloproteinase‑1 (MMP‑1) and senescence-associated β‑galactosidase (SA‑β‑GAL) mRNA expression were measured by quantitative polymerase chain reaction. It was identified that ADSCs promoted proliferation of co‑cultured HDFs and induced increased expression of type I collagen and decreased expression of MMP‑1. The co‑cultured HDFs exhibited increased expression of SA‑β‑GAL. These results demonstrated that ADSCs improve fibroblast function through paracrine effects. The increased expression of SA‑β‑GAL indicated an accelerated aging process. It is proposed that ADSCs may improve fibroblast function, but not reverse the age status in vitro.
Muscle Metabolism and Real-Time Ultrasound Measurement of Muscle and Subcutaneous Adipose Tissue Growth in Lambs Fed Diets Containing a Beta-Agonist1 (1986)

Rambouillet X Finn crossbred wether lambs were evaluated for differences in longissimus muscle cross-sectional area and overlaying subcutaneous adipose tissue thickness resulting from the use of the beta-agonist clenbuterol. Treatment groups received 0 and 2 ppm clenbuterol in the diet for approximately 40 d prior to slaughter. Longissimus muscle cross-sectional area and fat depth over the 12th-13th rib juncture were measured by real-time ultrasound before and during administration of the compound. At slaughter, muscle metabolism in vitro and carcass characteristics were measured. Based on comparisons with an initial-kill group of sheep, longissimus muscle cross-sectional area increased in control sheep by 12% (P greater than .05) over the 40-d experimental period, and increased in clenbuterol-fed sheep by 48% (P less than .05). Conversely, subcutaneous fat thickness increased significantly in the control sheep (88%) during this period, but was unchanged in the clenbuterol-fed animals. Warner-Bratzler shear force values of cooked longissimus samples from clenbuterol-fed sheep were significantly greater than shear force values in cooked samples from control lambs; this was not correlated with the extractable neutral lipid content of the muscle. Simple linear regression between ultrasound and carcass measurements of longissimus muscle cross-sectional area and subcutaneous fat thickness yielded correlation coefficients of .80 and .64, respectively. A significantly greater amount of net glycogen synthesis from [U-14C]glucose was observed in longissimus muscle strips from clenbuterol-fed animals than in muscle strips from control sheep.(ABSTRACT TRUNCATED AT 250 WORDS)
A focus on the role of Pax4 in mature pancreatic islet β-cell expansion and survival in health and disease (2007)

Blood glucose homeostasis is achieved by the regulation of insulin and glucagon secretion from the pancreatic islet beta- and alpha-cells. Diabetes mellitus, which comprises a heterogeneous group of hyperglycaemic disorders, results mainly from inadequate mass and function of islet beta-cells. Autoimmune destruction of beta-cells causes type 1 diabetes, while type 2 is characterized by impaired insulin secretion and is often associated with diminished insulin action on its target tissues. Interestingly, similar to type 1 diabetes, a gradual loss of beta-cell mass is observed in type 2 diabetes often requiring insulin therapy. Understanding the molecular mechanism that governs beta-cell mass plasticity may provide a means to develop strategies to countera,ct beta-cell death while increasing replication. Of particular interest is the islet-specific transcription factor paired box4 (Pax4) that was previously shown to be indispensable for the establishment of the beta-cell lineage during development. However, recent accumulating evidence now suggest that Pax4 is also crucial for mature beta-cell expansion and survival in response to physiological cues and that mutations or polymorphisms are associated with both type 1 and type 2 diabetes. In contrast, aberrant expression of Pax4 confers protection against apoptosis to insulinomas, whereas it promotes cell growth in lymphocytes. This review summarizes promising new published results supporting the important function of Pax4 in mature islet beta-cell physiology and its contribution to pathophysiology when deregulated.
Comparison of lentiviral vector titration methods (2006)

The different titration methods have specific advantages and disadvantages. Depending on the experimental set-up one titration method should be preferred over the others.
Solid-Phase Synthesis of Biaryls via the Stille Reaction (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSolid-Phase Synthesis of Biaryls via the Stille ReactionFrank W. Forman and Irving SucholeikiCite this: J. Org. Chem. 1995, 60, 3, 523–528Publication Date (Print):February 1, 1995Publication History Published online1 May 2002Published inissue 1 February 1995https://pubs.acs.org/doi/10.1021/jo00108a010https://doi.org/10.1021/jo00108a010research-articleACS PublicationsRequest reuse permissionsArticle Views521Altmetric-Citations93LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Porcine Reproductive and Respiratory Syndrome (1998)

In 1987, porcine reproductive and respiratory syndrome (PRRS) was recognized in the USA as a new disease of swine causing late-term reproductive failure and severe pneumonia in neonatal pigs. The syndrome is caused by an RNA virus referred to as PRRS virus (PRRSV), which is classified in the family Arteriviridae. Swine macrophages are the only indigenous cell type known to support PRRSV replication. Direct contact between infected and naive pigs is the predominant route of PRRSV transmission. Exposure of a mucosal surface to PRRSV leads to virus replication in regional macrophages, a prolonged viremia and systemic distribution of virus to other macrophage populations. Reproductive failure induced by PRRSV infection in late-gestation sows is characterized by premature farrowing of stillborn, partially autolyzed, and mummified fetuses. Pneumonia caused by PRRSV infection is more severe in young pigs compared to adults and may be complicated by concurrent bacterial infections. Gross lung lesions associated with PRRSV infection vary from none to diffuse consolidation. In addition, multiple lymph nodes may be markedly enlarged. Microscopically, PRRSV-pneumonia is characterized by multifocal, interstitial thickening by macrophages and necrotic cell debris in alveoli. Other less common microscopic lesions of PRRSV infection include myocarditis, vasculitis, encephalitis, and lymphoid hypertrophy and hyperplasia. In acute or subacute PRRSV infections, serum and lung are the best specimens for diagnosis. Persistent PRRSV infections can be produced by transplacental or intranasal infection. Persistent PRRSV infections are an important factor for virus survival and transmission within a swine herd and will complicate control programs.
A pharmaceutical comparison of different commercially available imiquimod 5% cream products (2008)

The clinical relevance of the differences observed is unknown; however, they raise concerns about whether these alternatives are therapeutically equivalent. While a generic topical imiquimod would almost certainly require clinical studies of therapeutic equivalence for approval in countries with more stringent regulatory environment, vigilance is warranted regarding importation of pharmaceutical products labeled as 'identical' in the absence of adequate evaluations.
Negative cross-talk between RelA and the glucocorticoid receptor: a possible mechanism for the antiinflammatory action of glucocorticoids. (1995)

Glucocorticoids are efficient antiinflammatory agents, and their effects include transcriptional repression of several cytokines and adhesion molecules. Whereas glucocorticoids down-regulate the expression of genes relevant during inflammation, nuclear factor (NF)-kappa B/Rel proteins function as important positive regulators of these genes. The expression of intercellular adhesion molecule-1 (ICAM-1), which plays an essential role in recruitment and migration of leukocytes to sites of inflammation, is also down-regulated by glucocorticoids. We found that a functional NF-kappa B site in the ICAM-1 promoter, which can be activated by either 12-O-tetradecanoylphorbol-13-acetate or tumor necrosis factor-alpha (TNF alpha), is also the target for glucocorticoids. In this report we present evidence that the ligand-activated glucocorticoid receptor (GR) is able to repress RelA-mediated activation of the ICAM-1 NF-kappa B site. Conversely, transcriptional activation by GR via a glucocorticoid response element is specifically repressed by RelA, but not by other NF-kappa B/Rel family members. Mutational analysis of GR demonstrates that the DNA binding domain and the ligand binding domain are required for the functional repression of NF-kappa B activation. Despite the importance of the DNA binding domain, we found that the transcriptional repression of NF-kappa B, mediated by GR, is not caused by binding of GR to the ICAM-1 NF-kappa B element, but by a physical interaction between the GR and RelA protein. The repressive effect of GR on NF-kappa B-mediated activation was not shared by other steroid/thyroid receptors. Only the progesterone receptor, which belongs to the same subfamily as GR and which possesses high homology with GR, was able to repress NF-kappa B-mediated transcription. These studies highlight a possible molecular mechanism that can explain the antiinflammatory effects of glucocorticoid treatment during inflammation.