gebhart/patrepeval huggingface dataset:
Fetal Globin Stimulant Therapies in the Beta-hemoglobinopathies: Principles and Current Potential (2008)

For the majority of children with beta- hemoglobinopathies and -thalassemias who do not have a transplant donor, survival is shortened and morbidity is high. Hydroxyurea, EPO preparations, sodium phenylbutyrate, arginine butyrate, and 5-azacytidine/decitabine have shown efficacy in approximately 40% to 70% of sickle cell and beta-thalassemia patients. Many responses, although significant, were not completely ameliorating of symptoms or pathology, and trials of new agents with dual actions, or drug combinations, are needed. Ideally, limiting chemotherapeutic exposure is desirable for long-term treatment of children, and an oral therapeutic at tolerable doses is necessary for practical use. A new oral therapeutic candidate that induces fetal hemoglobin production and also stimulates erythropoiesis is entering clinical evaluation. Use of agents that should have additive or synergistic effects in combination, such as EPO and hydroxyurea or a short-chain fatty acid derivative (SCFAD), offer better therapeutic potential than hydroxyurea alone. Childhood is an optimal time to introduce such therapies, particularly the non-mutagenic SCFADs, while the erythroid marrow reserve is preserved and before organ damage has become widespread. A challenge for successful application of these therapies is to define patient subsets that are most likely to respond to a particular agent, or which require combination therapies, and to develop optimal dose regimens in thalassemias with rapid erythroid apoptosis. Development of this therapeutic avenue will require close collaboration among treating and academic physicians, families and patients, funding agencies, and researchers.
The configuration of phenothiazine in various molecular complexes (1968)

C. J. Fritchie and B. L. Trus, Chem. Commun. (London), 1968, 833 DOI: 10.1039/C19680000833
A CSF‐1 receptor kinase inhibitor targets effector functions and inhibits pro‐inflammatory cytokine production from murine macrophage populations (2006)

CSF-1 regulates macrophage differentiation, survival, and function, and is an attractive therapeutic target for chronic inflammation and malignant diseases. Here we describe the effects of a potent and selective inhibitor of CSF-1R-CYC10268-on CSF-1R-dependent signaling. In in vitro kinase assays, CYC10268 was active in the low nanomolar range and showed selectivity over other kinases such as Abl and Kit. CYC10268 blocked survival mediated by CSF-1R in primary murine bone marrow-derived macrophages (BMM) and in the factor-dependent cell line Ba/F3, in which the CSF-1R was ectopically expressed. CYC10268 also inhibited CSF-1 regulated signaling (Akt, ERK-1/2), gene expression (urokinase plasminogen activator, toll-like receptor 9, and apolipoprotein E), and priming of LPS-inducible cytokine production in BMM. In thioglycollate-elicited peritoneal macrophages (TEPM), which survive in the absence of exogenous CSF-1, CYC10268 impaired LPS-induced cytokine production and regulated expression of known CSF-1 target genes. These observations support the conclusion that TEPM are CSF-1 autocrine and that CSF-1 plays a central role in macrophage effector functions during inflammation. CSF-1R inhibitors such as CYC10268 provide a powerful tool to dissect the role of the CSF-1/CSF-1R signaling system in a range of biological systems and have potential for a number of therapeutic applications.
Cloning and expression of an adhesin (AIDA-I) involved in diffuse adherence of enteropathogenic Escherichia coli (1989)

The adherence of enteropathogenic Escherichia coli (EPEC) to the small bowel mucosa is an important step in the pathogenesis of diarrheal diseases. It has been shown that many EPEC strains adhere to HEp-2 and especially HeLa cells in characteristic patterns termed localized adherence (LA) and diffuse adherence (DA). A plasmid-derived DNA fragment encoding a factor specific for LA hybridized only to EPEC strains expressing LA, which demonstrated that LA and DA are mediated by two genetically distinct adhesins. EPEC strain 2787 (O127:H27), isolated from a case of infantile diarrhea, exhibited three major properties: (i) it showed DA to HeLa cells, (ii) it carried two large (ca. 100-kilobase [kb]) plasmids and one small plasmid of about 3 kb, and (iii) no fimbriae could be detected by electron microscopy in organisms grown on agar plates or in liquid cultures. Whole isolated plasmid DNA was partially digested with EcoRI and cloned into the vector pBR322. One recombinant clone (pIB6) was found to exhibit the same DA pattern on HeLa cells as did the parent strain. This clone contained an 11-kb DNA fragment derived from the largest of the three plasmids, as shown by Southern hybridization. By deletion analysis, a 6.0-kb DNA fragment was shown to be sufficient for expression of the DA phenotype. This insert encoded the production of a 100,000-dalton protein mediating adhesion to HeLa cells.
Access PON using downstream 1550-nm WDM routing and upstream 1300-nm SCMA combining through a fiber-grating router (1996)

We describe an 8-channel access passive optical network using a fiber grating router at the remote node, 50 Mb/s 1550-nm WDM downstream transmission from an integrated multifrequency laser, and 3 Mb/s 1300 nm SCMA upstream transmission. This approach combines the advantages of a downstream WDM PON and an upstream low-cost power-combining PON.
Higher bone marrow LGALS3 expression is an independent unfavorable prognostic factor for overall survival in patients with acute myeloid leukemia (2013)

Alterations of galectin-3 expression are often seen in cancers and may contribute to tumorigenesis, cancer progression, and metastasis. The studies concerning clinical implications of galectin-3 expression in patients with acute myeloid leukemia (AML) are scarce. We investigated the expression of LGALS3, the gene encoding galectin-3, in the bone marrow (BM) mononuclear cells from an original cohort comprising 280 adults with primary non-acute promyelocytic leukemia. Higher LGALS3 expression was closely associated with older age, French-American-British M4/M5 subtypes, CD14 expression on leukemic cells, and PTPN11 mutation, but negatively correlated with CEBPA mutation and FLT3-ITD. Compared with patients with lower LGALS3 expression, those with higher expression had lower complete remission rates, higher primary refractory rates, and shorter overall survival. This result was validated in an independent validation cohort. A scoring system incorporating higher LGALS3 expression and 8 other risk factors, including age, white blood cell count, cytogenetics, and gene mutations, into survival analysis proved to be very useful to stratify patients with AML into different prognostic groups (P < .001). In conclusion, BM LGALS3 expression may serve as a new biomarker to predict clinical outcome in patients with AML, and galectin-3 may serve as a potential therapeutic target in those patients with higher expression of this protein.
Mini review: Biomimetic models and bioinspired surfaces for fouling control (2010)

Nature provides many examples of mechanisms to control fouling. These defences can be copied (biomimetic) or tailored (bioinspired) to solve problems of fouling on manmade structures. With increasing research in this area over the last two decades, it is timely to review this burgeoning subject, in particular as the biofouling field shifts focus towards novel, physical mechanisms to prevent and control fouling. This change is being promoted by advances in nano- and micro-scale patterning as well as in a variety of nano-biotechnologies, which are transforming the translation of natural surfaces into experimental materials. In this article, research on the defence of marine organisms against fouling and the technologies they are defining is reviewed.
Inflatable Aerocapture Decelerators for Mars Orbiters (2007)

A multi-disciplinary research program was recently completed, sponsored by NASA Marshall Space Flight Center, on the subject of aerocapture of spacecraft weighing up to 5 metric tons at Mars. Heavier spacecraft will require deployable drag area beyond the dimensional limits of current and planned launch fairings. This research focuses on the approach of lightweight inflatable decelerators constructed with thin films, using fiber reinforcement and having a temperature limitation of 500 C. Trajectory analysis defines trajectories for a range of low ballistic coefficients for which convective heat flux is compatible with the material set. Fluid-Structure Interaction (FSI) tools are expanded to include the rarified flow regime. Several non-symmetrical configurations are evaluated for their capability to develop lift as part of the necessary trajectory control strategy. Manufacturing technology is developed for 3-D stretch forming of polyimide films and for tailored fiber reinforcement of thin films. Finally, the mass of the decelerator is estimated and compared to the mass of a traditional rigid aeroshell.
Ligand-specific dimerization of the extracellular domain of the bovine growth hormone receptor. (1993)

The bovine growth hormone (bGH) receptor and its extracellular domain (bGHBP) bind two protein hormones with high affinity; bGH and bovine placental lactogen (bPL). However, each of these hormones bind with a different stoichiometry. bGH binds to the bGHBP in a 1:2 ratio while bPL binds in a 1:1 ratio. Scatchard analysis of saturation binding yields similar apparent dissociation constants (Kd) for bGH and bPL of 1.4 x 10(-11) M and 3.0 x 10(-11) M, respectively, for the membrane receptor and 6.8 x 10(-11) M and 4.2 x 10(-11) M, respectively, for bGHBP. In competition experiments using either liver membranes or bGHBP, bGH is 2-3-fold more effective than bPL in competing for 125I-bGH-binding sites. In similar experiments using 125I-bPL, bPL is 50-fold more effective than bGH in competing for binding sites. A rat monoclonal antibody raised against bGHBP competes effectively for 125I-bGH-binding sites, but not for 125I-bPL-binding sites. Since bPL cannot dimerize the bGHBP and yet it acts in part as a somatogen in vivo, homodimerization of the growth hormone receptor is apparently not essential for some biological responses signaled through this receptor.
Light-harvesting dendrimers (2000)

Natural photosynthetic systems collect sunlight using a vast array of light-harvesting chromophores that channel the absorbed energy to a single reaction center. Recently, it has been realized that dendritic macromolecules can exhibit similar properties, though on a more modest scale. The preparation of dendritic structures and assemblies composed of numerous light-collecting chromophores that transfer their energy to a single energy ‘sink’ at the core has been achieved in a number of diverse and creative ways. These novel structures are being used as model systems in light-emitting diodes, signal amplifiers, fluorescent sensors, frequency converters, and other photonic devices.
The Prevalence and Prognostic Value of BRAF Mutation in Thyroid Cancer (2007)

BRAF V600E mutation is primarily present in conventional papillary thyroid cancer. It is associated with an aggressive tumor phenotype and higher risk of recurrent and persistent disease in patients with conventional papillary thyroid cancer. Testing for this mutation may be useful for selecting initial therapy and for follow-up monitoring.
Rapid Evolution of RNA Viruses (1987)

The high error rate inherent in all RNA synthesis provides RNA virus genomes with extremely high mutation rates. Thus nearly all large RNA virus clonal populations are quasispecies collections of differing, related genomes (14, 49). These rapidly mutating populations can remain remarkably stable under certain conditions of replication. Under other conditions, virus-population equilibria become disturbed, and extremely rapid evolution can result. This extreme variability and rapid evolution can cause severe problems with previously unknown virus diseases (such as AIDS). It also presents daunting challenges for the design of effective vaccines for the control of diseases caused by rapidly evolving RNA virus populations.
Malignant hypertension resulting from deoxycorticosterone acetate and salt excess: role of renin and sodium in vascular changes. (1975)

The evolution of malignant hypertension was studied under metabolic balance conditions in 11 uninephrectomized rats given deoxycorticosterone acetate and 1% NaCl as drinking water. Changes in sodium and potassium balance were related to changes in blood pressure, plasma renin activity, hematocrit, and kidney histology. After 3-4 weeks of steadily positive sodium balance accompanied by continuously increasing blood pressure up to 185 plus or minus 19 (SE) mm Hg, periods of sodium loss accompanied by evidence of hemoconcentration were observed marking the onset of the malignant phase as defined by the development of fibrinoid necrosis in the kidney. Plasma renin activity remained markedly suppressed both at the fourth week (0.33 plus or minus 0.02 ng/ml hour-1) when the sodium balance was positive and the kidney biopsy negative and at the end of the experiment (0.35 plus or minus 0.36 ng/ml hour-1) when the sodium balance was negative and the kidney histology revealed malignant vasculitis. Infusion of the angiotensin II inhibitor 1-Sar-8-Ala-angiotensin II consistently failed to affect blood pressure, and the kidney tissue norepinephrine level was reduced (0.054 plus or minus 0.01 mug/g) compared with the control level (0.132 plus or minus 0.02 mug/g). We conclude that malignant vasculitis in this model is preceded by hypertension associated with sodium and water retention and is accompanied by negative sodium balance, decreases in body weight, falling blood pressure, and hemoconcentration without demonstrable participation of the renin-angiotensin system or the renal catecholamines.
Systematic Review: Glucose Control and Cardiovascular Disease in Type 2 Diabetes (2009)

Intensive glucose control reduced the risk for some cardiovascular disease outcomes (such as nonfatal myocardial infarction), did not reduce the risk for cardiovascular death or all-cause mortality, and increased the risk for severe hypoglycemia.
Differential cellular expression of the human MSH2 repair enzyme in small and large intestine. (1995)

The human MSH2 (hMSH2) protein is responsible for the initial recognition of mismatched nucleotides during the postreplication mismatch repair process. Loss of hMSH2 function has been demonstrated to lead to the accumulation of replication errors, resulting in a mutator phenotype, which may be responsible for the multiple mutations required for multi-stage carcinogenesis. Alterations of the hMSH2 gene has been linked to approximately 60% of hereditary nonpolyposis colon cancer cases. Colon tumors in hereditary nonpolyposis colon cancer patients originate within benign preneoplastic adenomas and display replication errors in the form of microsatellite instability. The aim of this study was to investigate the cellular expression of the hMSH2 protein in cells of the large and small intestines. Using antibody specific for hMSH2, we have determined that this protein is highly expressed in cells of the crypts of Lieberkühn that are undergoing rapid renewal in both the ileum and colon. Proliferative perifibroblasts in the colon also showed significant presence of the hMSH2 protein. These results confirm the hypothesis that hMSH2 is expressed in highly proliferative cells of the gut, and mutations in this gene could, therefore, be expected to expedite the progression of adenoma to carcinoma in this tissue.
Catalytic Antibodies (1990)

Exhausted CD8 T (Tex) cells are a distinct cell lineage that arise during chronic infections and cancers in animal models and humans. Tex cells are characterized by progressive loss of effector functions, high and sustained inhibitory receptor expression, ...Read More
Apoptosis and angiogenesis: an evolving mechanism for fibrosis (2013)

Fibrosis, seen in the liver, lung, heart, kidney, and skin, is a significant global disease burden. Currently, therapeutic treatment is limited, and the number of cases continues to grow. Apoptosis has been identified as a potential initiator and propagator of fibrosis. This review specifically examines the correlation between the presence of apoptotic cells and their effect on fibroblast phenotype and collagen metabolism in several different experimental models of fibrosis. Fibrosis in these models is generally preceded by robust angiogenesis and vascular regression, suggesting that the vascular apoptotic burden may be important to fibrotic outcomes. This review considers the emerging evidence that angiogenesis or vascular regression contributes to fibrosis and identifies initial vascular outgrowth or vascular apoptotic cell presence as possible regulators of fibrosis. A further understanding of the cellular mechanisms of fibrosis may suggest novel methods for the reduction of the fibrotic response and promotion of regeneration.
Binding of the delta endotoxin from Bacillus thuringiensis to brush‐border membrane vesicles of the cabbage butterfly (Pieris brassicae) (1988)

The insecticidal delta endotoxin of Bacillus thuringiensis was labeled with iodine-125. Brush-border membrane vesicles, prepared from the midgut epithelium of Pieris brassicae larvae, known to be highly susceptible to the toxin, and from a non-target tissue: the small intestine of rat, were examined for binding of 125I-toxin. The toxin was bound specifically only to insect vesicles. Its binding to the insect membrane system was competitively inhibited by 127I-toxin and non-iodinated toxin, whereas the binding of the 125I-toxin to the mammalian membrane system was not affected by unlabeled toxin. Vesicles of P. brassicae possess two individual binding-site populations for iodinated toxin with dissociation constants of 46 nM and 490 nM. The Hill coefficients of both sites were approximately 1 and the binding capacities were 0.2 pmol and 30 pmol/mg vesicle protein for the high and the low-affinity sites respectively. The estimation of the dissociation constant for non-iodinated toxin, using a competition experiment, revealed only one binding-site population which possessed a dissociation constant of 235 nM. It is concluded that this is the binding site for the native toxin. This site was sensitive towards treatment with proteases or mixed glycosidases. It is suggested that it is a protein or a glycoprotein.
SHIP is required for a functional hematopoietic stem cell niche (2008)

SH2-domain-containing inositol 5'-phosphatase-1 (SHIP) deficiency significantly increases the number of hematopoietic stem cells (HSCs) present in the bone marrow (BM). However, the reconstitution capacity of these HSCs is severely impaired, suggesting that SHIP expression might be an intrinsic requirement for HSC function. To further examine this question, we developed a model in which SHIP expression is ablated in HSCs while they are resident in a SHIP-competent milieu. In this setting, we find that long-term repopulation by SHIP-deficient HSCs is not compromised. Moreover, SHIP-deficient HSCs from this model repopulate at levels comparable with wild-type HSCs upon serial transfer. However, when HSCs from mice with systemic ablation of SHIP are transplanted, they are functionally compromised for repopulation. These findings demonstrate that SHIP is not an intrinsic requirement for HSC function, but rather that SHIP is required for the BM milieu to support functionally competent HSCs. Consistent with these findings, cells that comprise the BM niche express SHIP and SHIP deficiency profoundly alters their function.
On the Importance of Static Nonlinearity in Estimating Spatiotemporal Neural Filters With Natural Stimuli (2008)

Understanding neural responses with natural stimuli has increasingly become an essential part of characterizing neural coding. Neural responses are commonly characterized by a linear-nonlinear (LN) model, in which the output of a linear filter applied to the stimulus is transformed by a static nonlinearity to determine neural response. To estimate the linear filter in the LN model, studies of responses to natural stimuli commonly use methods that are unbiased only for a linear model (in which there is no static nonlinearity): spike-triggered averages with correction for stimulus power spectrum, with or without regularization. Although these methods work well for artificial stimuli, such as Gaussian white noise, we show here that they estimate neural filters of LN models from responses to natural stimuli much more poorly. We studied simple cells in cat primary visual cortex. We demonstrate that the filters computed by directly taking the nonlinearity into account have better predictive power and depend less on the stimulus than those computed under the linear model. With noise stimuli, filters computed using the linear and LN models were similar, as predicted theoretically. With natural stimuli, filters of the two models can differ profoundly. Noise and natural stimulus filters differed significantly in spatial properties, but these differences were exaggerated when filters were computed using the linear rather than the LN model. Although regularization of filters computed under the linear model improved their predictive power, it also led to systematic distortions of their spatial frequency profiles, especially at low spatial and temporal frequencies.
Multiple branch and block prediction (2002)

Accurate branch prediction and instruction fetch prediction of a microprocessor are critical to achieve high performance. For a processor which fetches and executes multiple instructions per cycle, an accurate and high bandwidth instruction fetching mechanism becomes increasingly important to performance. Unfortunately, the relatively small basic block size exhibited in many general-purpose applications severely limits instruction fetching. In order to achieve a high fetching rate for wide-issue superscalars, a scalable method to predict multiple branches per block of sequential instructions is presented. Its accuracy is equivalent to a scalar two-level adaptive prediction. Also, to overcome the limitation imposed by control transfers, a scalable method to predict multiple blocks is presented. As a result, a two black, multiple branch prediction mechanism for a block width of 8 instructions achieves an effective fetching rate of 8 instructions per cycle on the SPEC95 benchmark suite.
Bacterial cell factories for recombinant protein production; expanding the catalogue (2013)

Escherichia coli has been the pioneering host for recombinant protein production, since the original recombinant DNA procedures were developed using its genetic material and infecting bacteriophages. As a consequence, and because of the accumulated know-how on E. coli genetics and physiology and the increasing number of tools for genetic engineering adapted to this bacterium, E. coli is the preferred host when attempting the production of a new protein.