gebhart/patrepeval huggingface dataset:
Compound heterozygosity for metachromatic leukodystrophy and arylsulfatase A pseudodeficiency alleles is not associated with progressive neurological disease. (1993)

Several allelic mutations at the arylsulfatase A (ASA) locus cause substantial deficiencies of this lysosomal enzyme. Depending on the genetically determined degree of the deficiency, the clinical outcome may be very different--either metachromatic leukodystrophy (MLD), a lethal lysosomal storage disorder affecting the nervous system, or, more frequently, the so-called pseudodeficiency (PD), which has no apparent clinical consequence. Because of compound heterozygosity for MLD and PD, 1/1,000 individuals in the population have low residual enzyme activities, which are intermediate between those of MLD patients and those of PD homozygous normal individuals. In order to assess whether PD/MLD compound heterozygotes bear a health risk, we examined clinically and biochemically 16 individuals with this genotype. Of these subjects, two had neurological symptoms and two showed lesions, without clinical symptoms, in magnetic resonance imaging of the brain. None of these symptoms was progressive, nor did they resemble those of MLD. Nerve conduction velocities were normal in these probands, and they secreted only low amounts of sulfatide in the urine. We conclude that the observed neurological symptoms are unrelated to the ASA genotype and that PD/MLD compound heterozygotes are not at an increased risk for developing progressive nervous system diseases.
The role of monocyte cytotoxic factor in monocyte-mediated lysis of tumour cells. (1986)

The role of a monocyte cytotoxic factor (CF) in monocyte-mediated lysis of leukaemia cells (K562) has been investigated using a polyclonal rabbit antiserum raised against purified CF. The CF antiserum inhibited K562 cell lysis mediated by interferon gamma (IFN-gamma)-activated monocytes. CF antiserum also inhibited monocyte-mediated lysis of antibody-coated K562 cells (AbK562). Preimmune serum at the same concentration as CF antiserum did not affect monocyte-mediated lysis, and the CF antiserum did not inhibit binding between effector and target cells, indicating that inhibition of monocyte-mediated lysis by CF antiserum was not merely a result of toxic components present in the rabbit serum, or a result of a decrease in monocyte-target cell binding. Taken together, the data suggest that CF is involved in monocyte-mediated lysis of uncoated as well as antibody-coated K562 cells.
Phase III Randomized Study of Cisplatin Versus Paclitaxel Versus Cisplatin and Paclitaxel in Patients With Suboptimal Stage III or IV Ovarian Cancer: A Gynecologic Oncology Group Study (2000)

Cisplatin alone or in combination yielded superior response rates and PFS relative to paclitaxel. However, OS was similar in all three arms, and the combination therapy had a better toxicity profile. Therefore, the combination of cisplatin and paclitaxel remains the preferred initial treatment option.
Fluorination of copper phthalocyanines: Electronic structure and interface properties (2003)

We compare the electronic structure of differently fluorinated copper phthalocyanines (CuPC, CuPCF4, and CuPCF16) using x-ray photoemission spectroscopy and valence-band ultraviolet photoemission spectroscopy. Whereas the ionization potential (IP) is increased by more than 1 eV as a function of the degree of fluorination, further electronic properties such as the optical gap or the composition of the highest occupied molecular orbital and lowest unoccupied molecular orbital remain nearly unchanged. This fact renders these compounds an ideal tool for the investigation of the influence of the IP on the interface properties. At the interface to gold, besides interface dipoles we observe both downward and upward band bending. These phenomena depend clearly on the IP of the phthalocyanines.
Infection of Nonhuman Primates with Recombinant Human Metapneumovirus Lacking the SH, G, or M2-2 Protein Categorizes Each as a Nonessential Accessory Protein and Identifies Vaccine Candidates (2005)

Recombinant human metapneumovirus (HMPV) in which the SH, G, or M2 gene or open reading frame was deleted by reverse genetics was evaluated for replication and vaccine efficacy following topical administration to the respiratory tract of African green monkeys, a permissive primate host. Replication of the deltaSH virus was only marginally less efficient than that of wild-type HMPV, whereas the deltaG and deltaM2-2 viruses were reduced sixfold and 160-fold in the upper respiratory tract and 3,200-fold and 4,000-fold in the lower respiratory tract, respectively. Even with the highly attenuated mutants, there was unequivocal HMPV replication at each anatomical site in each animal. Thus, none of these three proteins is essential for HMPV replication in a primate host, although G and M2-2 increased the efficiency of replication. Each gene-deletion virus was highly immunogenic and protective against wild-type HMPV challenge. The deltaG and deltaM2-2 viruses are promising vaccine candidates that are based on independent mechanisms of attenuation and are appropriate for clinical evaluation.
Generation and characterization of variants of NWS/G70C influenza virus after in vitro passage in 4-amino-Neu5Ac2en and 4-guanidino-Neu5Ac2en (1996)

The compounds 4-amino-Neu5Ac2en (5-acetylamino-2,6-anhydro-4-amino-3,4,5- trideoxy-D-glycerol-D-galacto-non-2-enoic acid) and 4-guanidino-Neu5Ac2en (5-acetylamino-2,6-anhydro-4-guanidino-3,4,5- trideoxy-D-glycerol-D-galacto-non-2-enoic acid), which selectively inhibit the influenza virus neuraminidase, have been tested in vitro for their ability to generate drug-resistant variants. NWS/G70C virus (H1N9) was cultured in each drug by limiting-dilution passaging. After five or six passages in either compound, there emerged viruses which had a reduced sensitivity to the inhibitors in cell culture. Variant viruses were up to 1,000-fold less sensitive in plaque assays, liquid culture, and a hemagglutination-elution assay. In addition, cross-resistance to both compounds was seen in all three assays. Some isolates demonstrated drug dependence with an increase in both size and number of plaques in a plaque assay and an increase in virus yield in liquid culture in the presence of inhibitors. No significant difference in neuraminidase enzyme activity was detected in vitro, and no sequence changes in the conserved sites of the neuraminidase were found. However, changes in conserved amino acids in the hemagglutinin were detected. These amino acids were associated with either the hemagglutinin receptor binding site, Thr-155, or the left edge of the receptor binding pocket, Val-223 and Arg-229. Hence, mutations at these sites could be expected to affect the affinity or specificity of the hemagglutinin binding. Compensating mutations resulting in a weakly binding hemagglutinin thus seem to be circumventing the inhibition of the neuraminidase by allowing the virus to be released from cells with less dependence on the neuraminidase.
Solar-Powered Photocatalytic Fiber-Optic Cable Reactor for Waste Stream Remediation (1997)

The design and testing of a solar-powered fiber-optic cable reactor prototype for the photocatalytic destruction of organic pollutants is presented. A concentrating collector directs sunlight into a fiber-optic cable which transmits light to a TiO2 photocatalyst immobilized on the fibers and immersed in a reaction solution. The performance of the reactor using solar and artificial UV radiation are compared. The system is also compared to another fiber-optic cable reactor having a 50 percent higher photocatalytic surface area-to-reactor volume ratio to investigate mass transport limitations. Reaction rates for the oxidation of 4-chlorophenol of 25 and 12 μMmin−1 were measured for solar and artificial UV sources, respectively. The faster reaction rate using solar radiation is due to a higher UV light flux compared to the artificial source. Both fiber-optic reactor systems were determined not to be mass transport limited. Relative quantum efficiencies of φ = 0.014 and φ = 0.020 were determined for the solar and artificial irradiations, respectively. In agreement with previous findings, enhanced quantum efficiencies are attributed to a lower absorbed light intensity-to-photocatalytic surface area ratio. The solar reactor prototype was found to degrade effectively 4-chlorophenol and may prove useful for the in situ passive decontamination of subsurface and other remote environments.
Prevalence estimates of recurrent balanced cytogenetic aberrations and gene fusions in unselected patients with neoplastic disorders (2005)

Chromosome abnormalities have been reported in more than 46,000 benign and malignant neoplastic disorders, leading to the identification of numerous recurrent abnormalities. A substantial number of recurrent balanced aberrations (RBAs), in particular, reciprocal translocations, occur with remarkable specificity in association with clinical and tumor characteristics. This information has become increasingly important both in basic cancer research, as a means to identify pathogenetically important genes, and clinically, as a diagnostic and prognostic instrument. Knowledge of the frequencies of such aberrations thus is of theoretical as well as practical value. However, it is unknown to what extent the data available in the literature reflect reality. A large proportion of the published cases, at least 40%, are biased, in the sense that they were reported because of a specific or unusual karyotypic feature. We have systematically ascertained all RBAs and present data on the frequencies of these abnormalities and their molecular genetic consequences among unselected patients, that is, those studied as part of investigations of consecutive series of individuals with a particular neoplastic disorder. The salient features of the present study are: (1) published data clearly overestimate the prevalence of individual RBAs in most tumor types as well as the proportion of patients having such aberrations. In fact, several well-known published RBAs are not recurrent or have not even been seen among unselected patients, and in no tumor entity, except for chronic myeloid leukemia, does the frequency of unselected cytogenetically abnormal neoplasms with RBAs exceed 35%; (2) the proportions of unselected cases characterized by RBAs among those tumor entities in which at least one RBA has been identified vary considerably both within and among hematologic malignancies, malignant lymphomas, and solid tumors; and (3) the molecular consequences of a substantial proportion, ranging from 19% in hematologic malignancies to 65% in epithelial tumors, of the most common RBAs in unselected patients remain to be clarified.
A standard audit trail format (1995)

The central role of audit trails, or (more properly) logs, in security monitoring needs little description, for it is too well known for any to doubt it. Auditing, or the analysis of logs, is a central part of security not only in computer system security but also in analyzing financial and other non-technical systems. As part of this process, it is often necessary to reconcile logs from different
Role of podoplanin expression in squamous cell carcinoma of upper aerodigestive tract. (2013)

Podoplanin, a type-1 transmembrane glycoprotein, was originally named due to its expression in renal podocytes of rats. It was subsequently detected in a variety of normal human tissues, including lymphatic endothelium. Although podoplanin has been identified as the endogenous ligand of C-type lectin-like receptor 2 (CLEC-2) on platelets, its physiological functions and pathways remain largely unknown. A role in lymphangiogenesis has been suggested, since podoplanin-deficient mice were found to die at birth with a phenotype of dilated, malfunctioning lymphatic vessels and lymphedema. Podoplanin is invariably expressed in some tumors, such as lymphangioma, seminoma and follicular dendritic cell tumor, but tumor cell expression of podoplanin is highly variable in squamous cell carcinoma (SCC). It has been found that high podoplanin expression is associated with lymph node metastasis and poor prognosis in SCC of the upper aerodigestive tract. Now there is growing evidence that podoplanin is also involved in carcinogenesis, cell motility, tumor invasiveness, platelet aggregation and hematogenous metastasis. Additionally, animal studies confirmed some in vivo effects of podoplanin-overexpressing tumors, including formation of more tumor lymphatic vessels, larger lymph node metastases, more platelet aggregation, and more pulmonary metastases. Several recently developed anti-podoplanin antibodies, such as NZ-1, P2-0 and hP2-0, have been shown to attenuate podoplanin-induced platelet aggregation and prevent experimental hematogenous metastasis in nude mice. These antibodies may be applied in preclinical and clinical studies to evaluate the possibility of podoplanin-targeted therapy.
cDNA cloning and expression of a novel family of enzymes with calcium-independent phospholipase A2 and lysophospholipase activities. (1998)

Previous studies have suggested that activation of calcium-independent PLA2 (CaIPLA2) is an early event in cell death after hypoxic injury in proximal tubule cells. An approximately 28-kD CaIPLA2 with preferential activity toward plasmalogen phospholipids has been recently purified from rabbit kidney cortex (D. Portilla and G. Dai, J Biol Chem 271, 15,451-15,457, 1996). Their report describes the cloning of a full-length rat cDNA encoding CaIPLA2, using sequences derived from the purified rabbit kidney cortex enzyme. In addition, cDNA from rabbit kidney that encode the rabbit homologue of the enzyme and a closely related isoform were isolated. The rat cDNA is predicted to encode an approximately 24-kD protein, and each cDNA contains the sequence G-F-S-Q-G, which fits the active site consensus sequence G-X-S-X-G of carboxylesterases. Several lines of evidence (DNA sequence comparison, Southern blot analysis, and examination of the expressed sequence tag database) show that CaIPLA2 enzymes are encoded by a multigene family in rats, mice, rabbits, and humans. Northern analysis of various tissues from the rat indicated that the CaIPLA2 gene is ubiquitously expressed, with highest mRNA abundance observed in the kidney and small intestine. The rat CaIPLA2 cDNA, when expressed in a baculovirus expression system, and the purified rabbit kidney cortex protein exhibit both CaIPLA2 and lysophospholipase activities. The cloned CaIPLA2 cDNA are expected to aid in understanding the role of CaIPLA2 in cell death after hypoxic/ischemic cell injury.
Transcranial magnetic stimulation in amyotrophic and primary lateral sclerosis. (1999)

Conduction of the central motor pathways after transcranial magnetic stimulation (TMS) was investigated in 7 patients with amyotrophic lateral sclerosis (ALS) and 1 case with primary lateral sclerosis (PLS). Threshold intensity, central motor conduction time (CMCT) and amplitude of the motor evoked potentials (MEPs) were evaluated. Threshold was abnormal in 85% of tested limbs, and CMCT prolonged and amplitude of the MEPs attenuated in 28.5% of patients with ALS. Abnormal CMCT was asymmetric and related to clinical score. MEPs were absent in lower limbs in PLS, with prolonged or attenuated amplitude of the MEPs in upper limbs. EMG showed widespread signs of lower motor neuron involvement in ALS, but not in PLS. Cranial MRI showed frontoparietal cortical atrophy, more marked in pre-central gyrus, and SPECT there was lower tracer uptake in the perirolandic area in the PLS patient. EMG examination, TMS, cranial MRI and SPECT can help in the diagnosis of PLS.
The Study of Surface Phenomena Related to Electrochemical Lithium Intercalation into Li[sub x]MO[sub y] Host Materials (M = Ni, Mn) (2000)

We report herein on the comparative study of and electrodes in three salt solutions, namely, , , and in a mixture of the commonly used ethylene and dimethyl carbonates. The surface chemistry of the electrodes in these solutions was studied by surface‐sensitive Fourier transform infrared spectroscopy. X‐ray photoelectron spectroscopy, and energy‐dispersive X‐ray analysis, and their electrochemical behavior was studied by variable‐scan‐rate voltammetry and impedance spectroscopy. It was found that the electrochemical behavior of these electrodes is strongly dependent on their surface chemistry. Complicated reactions between the active mass and solution components, which include the solvents, the salt anions, and unavoidable contaminants such as HF and perhaps, , lead to the precipitation of surface films through which the Li ion has to migrate in order to reach the active mass. The impedance spectroscopy of these electrodes clearly reflects their surface chemistry. It demonstrates the serial nature of the Li insertion‐deinsertion processes, which includes, in addition to solid‐state diffusion and accumulation, Li‐ion migration through surface films and their charge transfer across the surface film/active mass interface, which strongly depends on the chemical composition of the surface films and hence, the solution chosen. is considerably more reactive with these solutions than , probably due to its stronger nucleophilic nature. In addition, in solutions, the electrodes' impedance is higher due to precipitation of films comprising LiF, which is highly resistive to Li ion transport (probably produced by reactions of the active mass with trace HF). © 2000 The Electrochemical Society. All rights reserved.
Cytoprotective effect of Artemisia capillaris fractions on oxidative stress‐induced apoptosis in V79 cells (2009)

The objectives of this study were to determine the effects of Artemisia capillaris on the viability, antioxidant status, and cytoprotective against oxidative stress induced by hydrogen peroxide in V79 cells. Pretreatment with ethyl acetate fraction increased 363% cell viability compared to the positive control (PC). The ethyl acetate fraction of A. capillaris scavenged intracellular reactive oxygen species (ROS) and increased the activities of cellular antioxidant enzymes like superoxide dismutase (SOD), glutathione peroxidase (GSH-px), and catalase (CAT), and also increased glutathione (GSH) content. It thereby prevented lipid peroxidation which was demonstrated by the inhibition of the formation of thiobarbituric acid reactive substance (TBARS). Furthermore, ethyl acetate fraction reduced the apoptotic cells and cell cycle arrest at G2/M phase induced by H(2)O(2). These findings suggest that A. capillaris ethyl acetate fraction protected V79 cells against H(2)O(2) damage, by enhancing the antioxidative activity.
Increased expression of histone deacetylase 2 is found in human gastric cancer (2005)

Accumulated evidence has established that aberrant regulation of histone deacetylases (HDACs) is one of the major causes of the development of human malignancies. Among different iso-enzymes of HDAC and sirtuins grouped as the HDAC super family, little is known as to how histone deacetylase 2 (HDAC2) causes carcinogenesis in solid tumors. Here, in order to investigate the possible role of HDAC2 in gastric carcinogenesis, we analyzed the expression of HDAC2 in 71 gastric adenocarcinomas by immunohistochemistry. Moderate to strong expression of HDAC2 was found in 44 (62%) out of a total of 71 tumors. The majority of positive tumors, which were detected in the nucleus but not in normal gastric epithelium, did not express HDAC2 or showed only weak positive staining. Interestingly, we also noted that HDAC2 expression appeared to be associated with tumor aggressiveness as HDAC2 expression was observed to be statistically significant in advanced gastric cancer (P=0.0023, Chi-square test) and in positive lymph node metastasis (P=0.0713, Chi-square test). Taken together, these results suggest that HDAC2 may play an important role in the aggressiveness of gastric cancer.
The miR-29 family: genomics, cell biology, and relevance to renal and cardiovascular injury (2012)

The human miR-29 family of microRNAs has three mature members, miR-29a, miR-29b, and miR-29c. miR-29s are encoded by two gene clusters. Binding sites for several transcriptional factors have been identified in the promoter regions of miR-29 genes. The miR-29 family members share a common seed region sequence and are predicted to target largely overlapping sets of genes. However, the miR-29 family members exhibit differential regulation in several cases and different subcellular distribution, suggesting their functional relevance may not be identical. miR-29s directly target at least 16 extracellular matrix genes, providing a dramatic example of a single microRNA targeting a large group of functionally related genes. Strong antifibrotic effects of miR-29s have been demonstrated in heart, kidney, and other organs. miR-29s have also been shown to be proapoptotic and involved in the regulation of cell differentiation. It remains to be explored how various cellular effects of miR-29s determine functional relevance of miR-29s to specific diseases and how the miR-29 family members may function cooperatively or separately.
Selectin catch-bonds mechanotransduce integrin activation and neutrophil arrest on inflamed endothelium under shear flow (2017)

E-selectin extends from the plasma membrane of inflamed endothelium and serves to capture leukocytes from flowing blood via long-lived catch-bonds that support slow leukocyte rolling under shear stress. Its ligands are glycosylated with the tetrasaccharide sialyl Lewis<sup>x</sup> (sLe<sup>x</sup>), which contributes to bond affinity and specificity. E-selectin-mediated rolling transmits signals into neutrophils that trigger activation of high-affinity β<sub>2</sub>-integrins necessary for transition to shear-resistant adhesion and transendothelial migration. Rivipansel is a glycomimetic drug that inhibits E-selectin-mediated vaso-occlusion induced by integrin-dependent sickle-red blood cell-leukocyte adhesion. How Rivipansel antagonizes ligand recognition by E-selectin and blocks outside-in signaling of integrin-mediated neutrophil arrest while maintaining rolling immune-surveillance is unknown. Here, we demonstrate that sLe<sup>x</sup> expressed on human L-selectin is preferentially bound by E-selectin and, on ligation, initiates secretion of MRP8/14 that binds TLR4 to elicit the extension of β<sub>2</sub>-integrin to an intermediate affinity state. Neutrophil rolling over E-selectin at precise shear stress transmits tension and catch-bond formation with L-selectin via sLe<sup>x</sup>, resulting in focal clusters that deliver a distinct signal to upshift β<sub>2</sub>-integrins to a high-affinity state. Rivipansel effectively blocked formation of selectin catch-bonds, revealing a novel mechanotransduction circuit that rapidly converts extended β<sub>2</sub>-integrins to high-affinity shear-resistant bond clusters with intracellular adhesion molecule 1 on inflamed endothelium.
DDQ-Mediated Oxidation of 4,6-O-Methoxybenzylidene-Protected Saccharides in the Presence of Various Nucleophiles:  Formation of 4-OH, 6-Cl, and 6-Br Derivatives (1996)

Treatment of 4,6-O-p-methoxybenzylidene-protected pyranosidic mono- and disaccharides with 2,3-dichloro-5,6-dicyano-p-benzoquinone (DDQ), in the presence of a few equivalents of water, gave the corresponding 6- and 4-O-p-methoxybenzoates with unprotected hydroxyl groups in the 4- and 6-position in the ratio ∼4:1 and in 85−98% yield. Dry conditions in the presence of halide salts gave the 6-deoxychloro and -bromo 4-O-p-methoxybenzoates exclusively, in >90% yield.