gebhart/patrepeval huggingface dataset:
Ultrastructural Characteristics of Keloid Fibroblasts (1988)

Myofibroblasts abound in granulation tissue, where they play an important role in the healing process. We evaluated the characteristics of fibroblasts in ten patients with keloids, a disorder of skin wound repair. Keloid lesions uniformly exhibited numerous fibroblasts with prominent Golgi complexes and abundant rough endoplasmic reticulum. Although rare fibroblasts exhibited a convoluted nucleus and tangled microfilaments, none could be characterized as myofibroblast, as defined by cytoplasmic myofilaments and cell to cell junctions. We conclude that fibroblast density and activity are increased in keloids, but true myofibroblasts are not a component of these lesions.
Expressional and Epigenetic Alterations of Placental Serine Protease Inhibitors (2006)

Preeclampsia is the major pregnancy-induced hypertensive disorder. It modifies the expression profile of placental genes, including several serine protease inhibitors (SERPINs). The objective of this study was to perform a systematic expression analysis of these genes in normal and pathological placentas and to pinpoint epigenetic alterations inside their promoter regions. Expression of 18 placental SERPINs was analyzed by quantitative RT-PCR on placentas from pregnancies complicated by preeclampsia, intrauterine growth restriction, or both and was compared with normal controls. SERPINA3, A5, A8, B2, B5, and B7 presented significant differences in expression in >or=1 pathological situation. In parallel, the methylation status of the CpG islands located in their promoter regions was studied on a sample of control and preeclamptic placentas. Ten SERPIN promoters were either totally methylated or totally unmethylated, whereas SERPINA3, A5, and A8 presented complex methylation profiles. For SERPINA3, the analysis was extended to 81 samples and performed by pyrosequencing. For the SERPINA3 CpG island, the average methylation level was significantly diminished in preeclampsia and growth restriction. The hypomethylated CpGs were situated at putative binding sites for developmental and stress response (hypoxia and inflammation) factors. Our results provide one of the first observations of a specific epigenetic alteration in human placental diseases and provide new potential markers for an early diagnosis.
The Penumbra Pivotal Stroke Trial (2009)

These results suggest the Penumbra System allows safe and effective revascularization in patients experiencing ischemic stroke secondary to large vessel occlusive disease who present within 8 hours from symptom onset.
Increased ferritin gene expression is associated with increased ribonucleotide reductase gene expression and the establishment of hydroxyurea resistance in mammalian cells. (1990)

In the present study, we show that hydroxyurea-inactivated ribonucleotide reductase protein M2 has a destabilized iron center, which readily releases iron. In addition, evidence is presented which indicates that single or multistep selection for hydroxyurea resistance, in a variety of mammalian cell lines, leads to alterations in the expression of the gene for the iron storage protein, ferritin. In all hydroxyurea-resistant cell lines examined, including human, hamster, rat, and mouse, there was an elevation in ferritin heavy (H)- and/or light (L)-mRNA levels, but no change in the corresponding gene copy number. A detailed analysis of ferritin expression in a hydroxyurea-resistant mouse L cell line showed that when compared to its wild type counterpart, there was an increase in H subunit concentration but no significant change in L subunit levels. The increased H/L subunit ratio was not brought about by specific changes in the rates of ferritin subunit biosynthesis, but rather resulted from changes in the post-translational stability of H subunits relative to L subunits in the resistant cell line compared to its parental wild type. Also, we show that treatment of cells with hydroxyurea results in an increased rate of ferritin biosynthesis in the absence of changes in H- or L-mRNA levels. These results indicate that the development of even low level hydroxyurea resistance in mammalian cells may require alterations in ferritin gene expression, and they show an interesting relationship between the expressions of two highly regulated activities, ribonucleotide reductase and ferritin.
Epigenomics of leukemia: from mechanisms to therapeutic applications (2011)

Leukemogenesis is a multistep process in which successive transformational events enhance the ability of a clonal population arising from hematopoietic progenitor cells to proliferate, differentiate and survive. Clinically and pathologically, leukemia is subdivided into four main categories: chronic lymphocytic leukemia, chronic myeloid leukemia, acute lymphocytic leukemia and acute myeloid leukemia. Leukemia has been previously considered only as a genetic disease. However, in recent years, significant advances have been made in the elucidation of the leukemogenesis-associated processes. Thus, we have come to understand that epigenetic alterations including DNA methylation, histone modifications and miRNA are involved in the permanent changes of gene expression controlling the leukemia phenotype. In this article, we will focus on the epigenetic defects associated with leukemia and their implications as biomarkers for diagnostic, prognostic and therapeutic applications.
The Gene Encoding Human Splicing Factor 9G8 (1995)

The 9G8 factor is a 30-kDa member of the SR splicing factor family. We report here the isolation and characterization of the human 9G8 gene. This gene spans 7745 nucleotides and consists of 8 exons and 7 introns within the coding sequence, thus contrasting with the organization of the SC35/PR264 or RBP1 SR genes. We have located the human 9G8 gene in the p22-21 region of chromosome 2. The 5'-flanking region is GC-rich and contains basal promoter sequences and potential regulatory elements. Transfection experiments show that the 400-base pair flanking sequence has a promoter activity. Northern blot analysis of poly(A)+ RNA isolated from human fetal tissues has allowed us to identify five different species, generated by alternative splicing of intron 3, which may be retained or excised as a shorter version, as well as the use of two polyadenylation sites. We also show that the different isoforms are differentially expressed in the fetal tissues. The persistence of sequences between exon 3 and 4 results in the synthesis of a 9G8 protein lacking the SR domain which is expected to be inactive in constitutive splicing. Thus, our results raise the possibility that alternative splicing of intron 3 provides a mechanism for modulation of the 9G8 function.
Evaluation of the Clinical use of Metformin or Pioglitazone in Combination with Meloxicam in Patients with Knee Osteoarthritis; using Knee Injury and Osteoarthritis outcome Score (2017)

Osteoarthritis is the most prevalent arthritic disease and a leading cause of disability. The pathogenesis of osteoarthritis involves multiple etiologies, including variable degree of synovial inflammation. Metformin and pioglitazone could potentially reduce the levels and activity of inflammatory mediators. This may consider as a new therapeutic approach added to the current used drugs in an attempt to decrease the pain, inflammation, and improve daily activity and quality of life in patients with knee osteoarthritis. This study designed to evaluate the clinical utility of using metformin or pioglitazone as anti-inflammatory agents in combination with non-steroidal anti-inflammatory drugs (NSAID) of selective type of cyclooxygenase-2 (COX-2) inhibitor, meloxicam, in the treatment of knee osteoarthritis (OA). Randomized, double blinded clinical study was performed on 98 patients who have symptomatic and radiologic evidence of painful OA of the knee (57 patients only completed the study). Patients were allocated into three groups, group (A); 20 patients treated with meloxicam (15mg/day) alone, group (B); 20 patients treated with metformin (1000mg/day) + meloxicam (15mg/day) and group (C); 17 patients treated with pioglitazone (15mg/day) + meloxicam (15mg/day). The treatment was followed for 12 weeks through measurement of the clinical effects of drugs each 7 days, using the Knee Injury and Osteoarthritis Outcome Score (KOOS) system. The results showed that metformin or pioglitazone, when used in combination with NSAID resulted in significant improvement in the components of KOOS, higher than that produced by meloxicam when used alone. In conclusion, administration of metformin or pioglitazone as adjuvant therapy to NSAID, meloxicam, in OA patients produced very well characterized analgesic and anti-inflammatory activities, and improves the therapeutic profile of meloxicam. Keywords: Metformin, Pioglitazone, Osteoarthritis, Knee injury, KOOS.
Phase I Study of Targeted Radioimmunotherapy for Leptomeningeal Cancers Using Intra-Ommaya 131-I-3F8 (2007)

Intra-Ommaya 131I-3F8 was generally well tolerated; the maximum-tolerated dose was 10 mCi. A high CSF-to-blood ratio was achieved. Tracer studies reliably predicted the therapeutic dose to the CSF. Radioimmunoconjugates targeting GD2 may have clinical utility in the treatment of CNS/LM malignancies.
The Effects of the pH and the Temperature on the Oxidation-reduction Properties of Adriamycin Adsorbed on a Mercury Electrode Surface (1985)

Abstract The effects of the pH and the temperature on the oxidation-reduction properties of the quinone moiety in adriamycin adsorbed on a mercury electrode surface have been investigated by means of cyclic d.c. voltammetry. The quinone waves have been fundamentally interpreted in terms of a two-step one-electron surface-redox reaction, even in a neutral or an alkaline solution, where the reduced product is liable to cause the following chemical reaction. The pH dependences of the standard surface-redox potential of the adsorbed adriamycin are −60 mV/pH (pH 2–6), −30 mV/pH (pH 7–8), and −60 mV/pH (pH 9–12). The semiquinone formation constant is 0.15 at pH 2–6 and 5 at pH 9–12. These results can be well explained by considering the protolytic equilibria of the phenolic hydroxyl groups among the oxidized, semiquinone, and reduced forms of adriamycin, the pKa’s of which are 8.53, 6.93, and 6.83 respectively. The thermodynamic constants of the semiquinone formation reaction at pH 4.5 have been determined to be ΔH=−24.6 kJ mol−1 and ΔS=−99.7 J K−1 mol−1.
Evidence of a trimolecular complex involving LPS, LPS binding protein and soluble CD14 as an effector of LPS response (2002)

The kinetics of the interaction of lipopolysaccharide (LPS), lipopolysaccharide binding protein (LBP) and CD14 was studied using surface plasmon resonance. The association and dissociation rate constants for the binding of LPS and rsCD14 were 2.9 x 10(4) M(-1) s(-1) and 0.07 s(-1) respectively, yielding a binding constant of 4.2 x 10(5) M(-1). Significantly, the presence of LBP increased not only the association rate but also the association constant for the interaction between LPS and CD14 by three orders of magnitude. Our experimental results suggest that LBP interacts with LPS and CD14 to form a stable trimolecular complex that has significant functional implications as it allows monocytes to detect the presence of LPS at a concentration as low as 10 pg/ml or 2 pM, and to respond by secreting interleukin-6. Thus, LBP is not merely transferring LPS to CD14 but it forms an integral part of the LPS-rLBP-rsCD14 complex.
Nonaqueous diazotization of 4‐amino‐3‐arylisothiazole‐5‐carboxylate esters (1987)

Abstract 4‐Amino‐3‐arylisothiazole‐5‐carboxylate esters are converted to the corresponding desamino, chloro, bromo, and iodo esters by processes involving nonaqueous diazotization. These related procedures open up the possibility for the conversion of readily available heterocyclic ortho ‐amino esters and nitriles to related heterocyclic derivatives, which are not easily obtained by alternate routes.
Intelligent decision support for protein crystal growth (2001)

Current structural genomics projects are likely to produce hundreds of proteins a year for structural analysis. The primary goal of our research is to speed up the process of crystal growth for proteins in order to enable the determination of protein structure using single crystal X-ray diffraction. We describe Max, a working prototype that includes a high-throughput crystallization and evaluation setup in the wet laboratory and an intelligent software system in the computer laboratory. A robotic setup for crystal growth is able to prepare and evaluate over 40 thousand crystallization experiments a day. Images of the crystallization outcomes captured with a digital camera are processed by an image-analysis component that uses the two-dimensional Fourier transform to perform automated classification of the experiment outcome. An information repository component, which stores the data obtained from crystallization experiments, was designed with an emphasis on correctness, completeness, and reproducibility. A case-based reasoning component provides support for the design of crystal growth experiments by retrieving previous similar cases, and then adapting these in order to create a solution for the problem at hand. While work on Max is still in progress, we report here on the implementation status of its components, discuss how our work relates to other research, and describe our plans for the future.
Solder joint reliability of flip chip and plastic ball grid array assemblies under thermal, mechanical, and vibrational conditions (1996)

The thermal, mechanical, and vibrational responses of flip chip and plastic ball grid array (PBGA) solder joints have been determined in this study. The effects of overload environmental stress factors on the mechanical responses of the solder joints have been determined by bending and twisting experiments. The effects of shipping environmental stress factors on the vibrational responses of the solder joints have been determined by out-of-plane vibration experiments. Also, the thermal fatigue behavior of solder joints have been investigated by nonlinear finite element (FE), Coffin-Manson, and fracture mechanics methods.
Transportation mode inference from anonymized and aggregated mobile phone call detail records (2010)

Transportation mode inference is an important research direction and has many applications. Existing methods are usually based on fine-grained sampling - collecting position data from mobile devices at high frequency. These methods can achieve high accuracy, but also incur cost and complexity in terms of the computational resource and system implementation. Finally, fine-grained sampling is not always available, especially for large-scale deployment. This paper proposes a novel method to infer transportation mode based on coarse-grained call detail records. The method allows estimating the transportation mode share from a given origin to a given destination, looking also at how the share changes over time. The method can achieve acceptable accuracy with trivial cost and complexity. It is suitable for the statistical analysis on transportation modes of a large population. The method can also be used as a complementary tool in situations where fine-grained sampling is unavailable or the balance between accuracy and complexity is critical. A case study using real call detail records data for the city of Boston shows the performance of the proposed method.
Effects of Temperature and Humidity on the Performance of Polymer-Coated Surface Acoustic Wave Vapor Sensor Arrays (1996)

The influences of temperature and atmospheric humidity on the performance of an array of eight polymer-coated 158-MHz surface acoustic wave vapor sensors were investigated. Sensitivities to the seven organic vapors examined all exhibited negative Arrhenius temperature dependencies, with responses increasing by factors of 1.5-4.4 on going from 38 to 18 degrees C. The magnitudes of the temperature effects, while generally similar, differed sufficiently among certain sensor-vapor combinations to cause marked changes in vapor response patterns. In addition, it was found that operating identically coated sensors at different temperatures could provide a means for discriminating certain vapors. The changes in sensor responses with temperature agreed reasonably well with those expected assuming ideal vapor sorption behavior and indicated that changes in the moduli of the sensor coatings were not important mediating factors. Responses to relative humidity (RH) from 0 to 85% RH were important even for the nonpolar sensor coatings. Significant changes in the sensitivities to the organic vapors were observed as a function of atmospheric humidity for several sensor-vapor combinations, which, in turn, affected the patterns of responses obtained from the sensor array. Results indicate that small changes in temperature or humidity have a larger effect on baseline stabilities than on the responses to the vapors. Monte Carlo simulations of sensor responses show that the ability to discriminate vapors in binary and ternary mixtures using a four-sensor array remains high regardless of the operating temperature and ambient humidity, provided that temperature-or humidity-induced changes in the response patterns are taken into account.
Molecular and Cellular Basis of Addiction (1997)

Drug addiction results from adaptations in specific brain neurons caused by repeated exposure to a drug of abuse. These adaptations combine to produce the complex behaviors that define an addicted state. Progress is being made in identifying such time-dependent, drug-induced adaptations and relating them to specific behavioral features of addiction. Current research needs to understand the types of adaptations that underlie the particularly long-lived aspects of addiction, such as drug craving and relapse, and to identify specific genes that contribute to individual differences in vulnerability to addiction. Understanding the molecular and cellular basis of addictive states will lead to major changes in how addiction is viewed and ultimately treated.
PROSTAGLANDIN E PLUS FAMCICLOVIR—A NEW CONCEPT FOR THE TREATMENT OF SEVERE HEPATITIS B AFTER LIVER TRANSPLANTATION1,2 (1994)

Transplantation is published monthly and is the most cited and influential journal in the field, with more than 25,000 citations per year. The journal celebrated its 50th year in 2016. Transplantation has been the trusted source for extensive and timely coverage of the most important advances in transplantation. The Editors and Editorial Board are an international group of research and clinical leaders that includes many pioneers of the field, representing a diverse range of areas of expertise. This capable editorial team provides thoughtful and thorough peer review, and delivers rapid, careful and insightful editorial evaluation of all manuscripts submitted to the journal.
Conditionally Reprogrammed Normal and Transformed Mouse Mammary Epithelial Cells Display a Progenitor-Cell–Like Phenotype (2014)

Mammary epithelial (ME) cells cultured under conventional conditions senesce after several passages. Here, we demonstrate that mouse ME cells isolated from normal mammary glands or from mouse mammary tumor virus (MMTV)-Neu-induced mammary tumors, can be cultured indefinitely as conditionally reprogrammed cells (CRCs) on irradiated fibroblasts in the presence of the Rho kinase inhibitor Y-27632. Cell surface progenitor-associated markers are rapidly induced in normal mouse ME-CRCs relative to ME cells. However, the expression of certain mammary progenitor subpopulations, such as CD49f+ ESA+ CD44+, drops significantly in later passages. Nevertheless, mouse ME-CRCs grown in a three-dimensional extracellular matrix gave rise to mammary acinar structures. ME-CRCs isolated from MMTV-Neu transgenic mouse mammary tumors express high levels of HER2/neu, as well as tumor-initiating cell markers, such as CD44+, CD49f+, and ESA+ (EpCam). These patterns of expression are sustained in later CRC passages. Early and late passage ME-CRCs from MMTV-Neu tumors that were implanted in the mammary fat pads of syngeneic or nude mice developed vascular tumors that metastasized within 6 weeks of transplantation. Importantly, the histopathology of these tumors was indistinguishable from that of the parental tumors that develop in the MMTV-Neu mice. Application of the CRC system to mouse mammary epithelial cells provides an attractive model system to study the genetics and phenotype of normal and transformed mouse epithelium in a defined culture environment and in vivo transplant studies.
Group B streptococci invade endothelial cells: type III capsular polysaccharide attenuates invasion (1993)

Group B streptococci (GBS) are the most common cause of neonatal sepsis and pneumonia. The pathogenesis of GBS disease is not completely defined. GBS-induced endothelial cell injury is suggested by histological findings at autopsy and in animal studies. We hypothesized that (i) type III GBS (COH-1) invade and injure human umbilical vein endothelial (HUVE) cells and (ii) isogenic mutations in GBS capsule synthesis would influence HUVE invasion. Confluent HUVE monolayers were infected for 0.5, 2, or 6 h. Media with penicillin plus gentamicin were added and incubated for 2 h to kill extracellular bacteria. Cells were washed and lysed, and the number of live intracellular bacteria was determined by plate counting. COH-1 invaded HUVE cells in a time-dependent manner at levels 1,000-fold higher than those of the noninvasive Escherichia coli strain but significantly lower than those of Staphylococcus aureus. There was no evidence for net intracellular replication of GBS within HUVE cells. COH-1 infection of HUVE cells caused the release of lactate dehydrogenase activity. GBS invasion was inhibited by cytochalasin D in a dose-dependent manner; GBS-induced lactate dehydrogenase release was attenuated by cytochalasin D. The isogenic strains COH 1-11, devoid of capsular sialic acid, and COH 1-13, devoid of all type III capsule, invaded HUVE cells three- to fivefold more than the parent COH-1 strain. The type III capsular polysaccharide and particularly the capsular sialic acid attenuate GBS invasion of HUVE cells. Electron micrographs of lung tissue from a GBS-infected newborn Macaca nemestrina also showed GBS within capillary endothelial cells. We conclude that endothelial cell invasion and injury are potential mechanisms in the pathogenesis of GBS disease.
Effects of channel aging in massive MIMO systems (2013)

Multiple-input multiple-output (MIMO) communication may provide high spectral efficiency through the deployment of a very large number of antenna elements at the base stations. The gains from massive MIMO communication come from the use of multiuser MIMO on the uplink and downlink, but with a large excess of antennas at the base station compared to the number of served users. Initial work on massive MIMO did not fully address several practical issues associated with its deployment. This paper considers the impact of channel aging on the performance of massive MIMO systems. The effects of channel variation are characterized as a function of different system parameters assuming a simple model for the channel time variations at the transmitter. Channel prediction is proposed to overcome channel aging effects. The analytical results on aging show how capacity is lost due to time variation in the channel. Numerical results in a multiceli network show that massive MIMO works even with some channel variation and that channel prediction could partially overcome channel aging effects.