gebhart/patrepeval huggingface dataset:
Cathepsin D in cancer metastasis: A protease and a ligand (1999)

Cathepsin D (cath-D) overexpression in breast cancer cells is associated with increased risk of metastasis in patients according to several clinical studies. No alterations of pro-cath-D structure or activation have been demonstrated in cancer cells. However, overexpression and dysrouting of pro-cath-D in illegitimate compartments could have consequences on tumor progression. Transfection of a human cDNA cath-D expression vector increases the metastatic potential of 3Y1-Ad12 embryonic rat tumorigenic cells when intravenously injected into nude mice. The mechanism by which cath-D increases the incidence of clinical metastasis seems to involve increased cell growth and decreased contact inhibition rather than escape of cancer cells through the basement membrane. Different mechanisms are discussed by which cath-D could act as a protease following its activation or as a ligand of different membrane receptors at a more neutral pH.
Endothelial and smooth muscle cells alter low density lipoprotein in vitro by free radical oxidation. (1984)

Our purpose was to determine whether the action of oxidative free radicals released by endothelial cells and vascular smooth muscle cells grown in culture could be responsible for certain modifications to low density lipoprotein (LDL). In these experiments we showed that after a 48-hour incubation with human umbilical vein endothelial cells or bovine aortic smooth muscle cells, human LDL: 1) became oxidized, as evidenced by reactivity to thiobarbituric acid; 2) lost variable amounts of sterol relative to protein (up to 20%); 3) had an increased relative electrophoretic mobility (by 30% to 70%); and 4) became toxic to proliferating fibroblasts. None of these changes occurred after a 48-hour incubation with confluent fibroblasts or bovine aortic endothelial cells, and all could be virtually prevented by the presence of butylated hydroxytoluene or other free radical scavengers. The results suggest that cells modifying LDL do so in part by an oxidation of LDL subsequent to cellular generation of free radicals.
Polyamic acid interactions at metal surfaces (1990)

Abstract Pyromellitic dianhydride‐oxydianiline (PMDA‐ODA)‐derived polyamic acid‐metal interactions were delineated by grazing incidence infrared spectroscopy on mirror surfaces. Vast differences were observed between unreactive gold, titanium, chromium, and aliminum, and reactive copper and silver, where copper and silver form amic acid salts. Other polymer‐metal interactions were observed with unreactive metals where aromatic ether rings appear to align on the metal surface. Further, reactive meta and para diacid carboxylates appear to assume different surface conformations. Heating the surface‐bound metal salts destroys the polymer interface, but nonsalt film, formed from amic acid or amic ester, appears to establish near planar aromatic ether conformations on the metal surfaces, with resultant orthogonal imide links.
Novel Well Testing Procedures Prove Successful in Dakota Formation Infill Program, San Juan Basin (2001)

Abstract Conoco implemented a novel well testing program in six infill wells to evaluate the differential pressure depletion in the Dakota formation in a portion of the San Juan Basin in Rio Arriba County, New Mexico. The field program consisted of performing pre-fracture nitrogen slug tests or pressure buildup tests. Each of the three Dakota sands were evaluated separately, and in four wells, simultaneously to estimate permeability-thickness product, skin factor, reservoir pressure, and gas in place. The novel approach allowed for all sands to be tested quickly. The infill wells were drilled on 80-acre spacing among existing 160-acre spaced Dakota wells. The Dakota formation is a series of tight, normal-pressured sands and is one of the main productive units in the San Juan Basin. The average reservoir pressure, as indicated by these tests, ranges from 2,500 psi to 2,900 psi. The original reservoir pressure was 3,200 psi. The post-fracture in-line production rates were excellent averaging between 350 to 900 Mscf/D after two months in-line. Single- and multi-well reservoir models were developed to predict the expected longterm performance from the infill wells. This paper highlights the novel pre-fracture well testing program including the methodology utilized by Conoco to meet the challenging testing needs present in the Dakota formation in San Juan Basin. The testing approach of using either nitrogen slug tests or simultaneous, individual zone, buildup tests can be used in most tight gas sands consisting of multiple sands.
Heterogeneous Catalysis for Tandem Reactions (2014)

Financial support by Consolider-Ingenio 2010 (project MULTICAT), Spanish MICINN (Projects MAT2011-28009 and CTQ-2011-27550) and Program Severo Ochoa are gratefully acknowledged.
Convergent DNA synthesis: a non-enzymatic dimerization approach to circular oligodeoxynucleotides (1995)

We report a novel convergent approach to the construction of circular DNA oligonucleotides from two smaller linear precursors. Circular DNAs 34-74 nucleotides (nt) in size are constructed non-enzymatically in a single step from two half-length oligomers. A DNA template is used to assemble the constituent parts into a triple helical complex which brings the four reactive ends together for chemical ligation with BrCN/imidazole/Ni2+. A homodimerization reaction strategy is successfully used on a small scale to construct circles 42, 58 and 74 nt in size. In addition, a heterodimerization strategy is successfully used in two cases to construct circular 34mers from different 16mer and 18mer precursors. Measurement of preparative yields for one biologically active 34mer circle shows that the dimerization strategy gives a yield higher than that from conventional cyclization and nearly as high as that for a normally synthesized linear DNA, establishing that there is not necessarily a yield penalty for circle construction. Six additional preparative circle constructions, giving conversions of approximately 33-85% from precursors to circular product, are also described. Convergent strategies allow the construction of medium and large size DNA molecules in higher yields than can be achieved by standard linear synthesis alone.
ARIES/NT: a recovery method based on write-ahead logging for nested transactions (1989)

A simple and efficient recovery method for&#13;\nnested transactions, called ARIES/NT (Algorithm for&#13;\nRecovery and Isolation Exploiting Semantics for&#13;\nNested Transactions), that uses write-ahead logging&#13;\nand supports semantically-rich modes of locking and&#13;\noperation logging is presented. This method applies&#13;\nto a very general model of nested transactions, which&#13;\nincludes parlial rollbacks of subtransactions, upward&#13;\nand downward inheritance of locks, and concurrent&#13;\nexecution of ancestor and descendent subtransactions.&#13;\nThe adopted system architecture encompasses aspects&#13;\nof distributed data base management also. ARIES/NT&#13;\nis an extension of the ARIES recovery and concurrency&#13;\ncontrol method developed recently for the single-level&#13;\ntransaction model by Mohan. et. al. in the IBM Research&#13;\nReport RJ6649.
Structure−Function Studies of Polymyxin B Nonapeptide:  Implications to Sensitization of Gram-Negative Bacteria (2000)

Polymyxin B nonapeptide (PMBN), a cationic cyclic peptide derived by enzymatic processing from the naturally occurring peptide polymyxin B, is able to increase the permeability of the outer membrane of Gram-negative bacteria toward hydrophobic antibiotics probably by binding to the bacterial lipopolysaccharide (LPS). We have synthesized 11 cyclic analogues of PMBN and evaluated their activities compared to that of PMBN. The synthetic peptides were much less potent than PMBN in their capacity to sensitize Escherichia coli and Klebsiella pneumoniae toward novobiocin and to displace dansyl-PMBN from Escherichia coli LPS. Moreover, unlike PMBN, none of the analogues were able to inhibit the growth of Pseudomonas aeruginosa. The structural-functional features of PMBN were characterized and identified with regard to the ring size, the distance between positive charges and peptide backbone, the chirality of the DPhe-Leu domain, and the nature of the charged groups. Apparently, the structure of PMBN is highly specific for efficient perturbation of the outer membrane of Gram-negative bacteria as well as for LPS binding. The present study further increases our understanding of the complex PMBN-LPS and may, potentially, enable the design of compounds having enhanced permeabilization potency of the Gram-negative outer membrane.
High-affinity receptors for peptides of the bombesin family in Swiss 3T3 cells. (1985)

Gastrin-releasing peptide (GRP) labeled with 125I at tyrosine-15 (125I-GRP) binds to intact quiescent Swiss 3T3 cells in a specific and saturable manner. Scatchard analysis indicates the presence of a single class of high-affinity binding sites of Kd = 0.5 X 10(-9) M and a value for the number of sites per cell of about 100,000. 125I-GRP binding was not inhibited by other mitogens for these cells, and cell lines that are mitogenically unresponsive to GRP do not exhibit specific GRP binding. Structure-activity relationships show a close parallel between the ability of a range of GRP-related peptides to both inhibit GRP binding and to stimulate mitogenesis. Further, GRP binding is selectively blocked in a competitive fashion by a novel bombesin antagonist, [D-Arg1, D-Pro2, D-Trp7,9, Leu11] substance P. In addition, this compound selectively inhibits GRP and bombesin-induced mitogenesis. These results demonstrate that the mitogenic response of Swiss 3T3 cells to peptides of the bombesin family is mediated by a class of receptors distinct from those of other mitogens for these cells.
Regional variation in gene expression in the healthy colon is dysregulated in ulcerative colitis (2008)

Key findings are the expression gradient in the healthy adult colon and the involvement of novel gene families, as well as established candidate genes in the pathogenesis of ulcerative colitis.
Identification and sequence of the VH gene elements encoding a human anti-DNA antibody. (1987)

Antibodies to DNA similar to those found in patients with systemic lupus erythematosus (SLE) and autoimmune mice can be derived from the lymphocytes of normal individuals. It is not known whether these normal derived anti-DNA antibodies are made from the same VH gene elements as the anti-DNA antibodies made by SLE patients. To begin to answer this question, we examined mu chain cDNA clones from human hybrid clone C6B2 producing anti-DNA antibodies. The sequence of the 500 base pair restriction fragment containing the variable region (5' terminus) was determined and was sequenced. This antibody uses a VHII heavy chain subgroup gene, a J3 joining segment, a hitherto unknown D segment, and a previously reported leader sequence. Significant homology was found to a mouse anti-DNA antibody sequence in the use of VH subgroup in J3, and in the hypervariable regions with a shared Ser-Tyr construction in CDR1 and an identical five amino acid residue stretch in CDR2. Comparison with the limited sequence data of published SLE monoclonal anti-DNA antibodies, both human and mouse, suggests that this shared Ser-Tyr may be important in some but not all antibodies to DNA. Comparison of C6B2 antibody is made with other known antibody sequences with identification of those residues likely to be part of the antigen binding site.
Forward Osmosis Process for Dialysis Fluid Regeneration (2009)

In a preliminary experiment, 38% of the spent dialysis fluid water was reclaimed by a forward osmosis process through a cellulose triacetate membrane. The simplicity of forward osmosis and its minimal external energy requirements may allow the construction of a small bulk device that can reclaim a considerable portion of the water used in the patient's dialysis process. For developing an acceptable ambulatory dialysis system, decreasing the bulk of the fluid and equipment carried on the patient is essential. Forward osmosis may feasibly be used for dialysis fluid regeneration in ambulatory dialysis systems.
Bim-targeted cancer therapy: A link between drug action and underlying molecular changes (2009)

In the past few years, the pro-apoptotic molecule Bim has attracted increasing attention as a plausible target for tumor therapy. A variety of normal and pathological systems regulated by Bim, dependent on cell type, apoptotic stimulation, and chemotherapeutic agents, have been documented. Bim promotes anoikis of many tumor cells, such as lung cancer, breast cancer, osteosarcoma, and melanoma. Various chemotherapeutic agents use Bim as a mediating executioner of cell death. Hence, Bim suppression supports metastasis and chemoresistance. Imatinib, gefitinib, bortezomib, and Bim protein itself are spotlighted as current and future Bim-targeting therapeutic agents. The potential benefits of Bim-targeted therapies are selectivity of treatment for tumor cells and reduction in tumor-associated phenomena such as chemoresistance and metastasis. Thus, Bim-targeting therapies may provide more effective and unique tumor management modalities in future. This review article discusses all these issues.
MRMR optimized classification for automatic glaucoma diagnosis (2011)

Min-Redundancy Max-Relevance (mRMR) is a feature selection methodology based on information theory. We explore the mRMR principle for automatic glaucoma diagnosis. Optimal candidate feature sets are acquired from a composition of clinical screening data and retinal fundus image data. An mRMR optimized classifier is further trained using the candidate feature sets to find the optimized classifier. We tested the proposed methodology on eye records of 650 subjects collected from Singapore Eye Research Institute. The experimental results demonstrate that the new classifier is much compact by using less than ¼ of the initial feature set. The ranked feature set also enables the clinicians to better access the diagnostic process of the algorithm. The work is a further step towards the advancement of the automatic glaucoma diagnosis.
Chemotaxis of human osteoblasts. Effects of osteotropic growth factors. (1995)

The in vitro chemotactic response of human osteoblasts was investigated towards the following growth factors: TGF-beta, PDGFs, FGFs and IGFs. Human osteoblasts grown from trabecular bone after enzymatic digestion were studied. TGF-beta stimulated the migration of human osteoblasts in a dose-dependent manner with a four-fold increase in migrated cells at 100 pg/ml, which was the optimum concentration. PDGF-BB also stimulated migration four-fold in a dose-dependent manner with a maximum response at 10 ng/ml. PDGF-AA, IGF-I and IGF-II stimulated migration two-fold at 100 ng/ml. The results show that TGF-beta and PDGF-BB are important regulators of human osteoblast migration, but other growth factors IGF-I, IGF-II and PDGF-AA may also stimulate osteoblast migration. Our results additionally suggest that TGF-beta and PDGF-BB may participate in the recruitment of osteoblasts during bone remodeling since both TGF-beta and PDGF-BB are found in bone matrix and could be released during osteoclastic bone resorption. They furthermore support a possible use of TGF-beta and PDGF-BB in growth factor-induced osteogenesis.
Serum testosterone levels in healthy young black and white men. (1986)

Blacks in the United States have the highest prostate cancer rate in the world and nearly twice that of whites in the United States. The 2:1 black-to-white ratio in prostate cancer rates is already apparent at age 45 years, the age at which the earliest prostate cancer cases occur. This finding suggests that the factor(s) responsible for the difference in rates occurs, or first occurs, early in life. Testosterone has been hypothesized to play a role in the etiology of prostate cancer, because testosterone and its metabolite, dihydrotestosterone, are the principal trophic hormones that regulate growth and function of epithelial prostate tissue. This report gives the results of assays of circulating steroid hormone levels in white and black college students in Los Angeles, CA. Mean testosterone levels in blacks were 19% higher than in whites, and free testosterone levels were 21% higher. Both these differences were statistically significant. Adjustment by analysis of covariance for time of sampling, age, weight, alcohol use, cigarette smoking, and use of prescription drugs somewhat reduced the differences. After these adjustments were made, blacks had a 15% higher testosterone level and a 13% higher free testosterone level. A 15% difference in circulating testosterone levels could readily explain a twofold difference in prostate cancer risk.
A Loss-of-Function Mutation in Natriuretic Peptide Receptor 2 (Npr2) Gene Is Responsible for Disproportionate Dwarfism in cn/cn Mouse (2005)

The achondroplastic mouse is a spontaneous mutant characterized by disproportionate dwarfism with short limbs and tail due to disturbed chondrogenesis during endochondral ossification. These abnormal phenotypes are controlled by an autosomal recessive gene (cn). In this study, linkage analysis using 115 affected mice of F2 progeny mapped the cn locus on an approximately 0.8-cM region of chromosome 4, and natriuretic peptide receptor 2 (Npr2) gene was identified as the most potent candidate for the cn mutant in this region. This gene encodes a receptor for C-type natriuretic peptide (CNP) that positively regulates longitudinal bone growth by producing cGMP in response to CNP binding to the extracellular domain. Sequence analyses of the Npr2 gene in cn/cn mice revealed a T to G transversion leading to the amino acid substitution of highly conserved Leu with Arg in the guanylyl cyclase domain. In cultured chondrocytes of cn/cn mice, stimulus with CNP did not significantly increase intracellular cGMP concentration, whereas it increased in +/+ mice. Transfection of the mutant Npr2 gene into COS-7 cells also showed similar results, indicating that the missense mutation of the Npr2 gene in cn/cn mice resulted in disruption of the guanylyl cyclase activity of the receptor. We therefore concluded that the dwarf phenotype of cn/cn mouse is caused by a loss-of-function mutation of the Npr2 gene, and cn/cn mouse will be a useful model to further study the molecular mechanism regulating endochondral ossification by CNP/natriuretic peptide receptor B signal.
Effect of a fluoride‐containing chlorhexidine gel on bacteria in human plaque (1976)

The effect on the plaque flora of a fluoride-containing chlorhexidine gel in mouthpieces was studied in seven subjects. Use of the gel during a 3-month period resulted in a change in the pattern of sensitivity to cholorhexidine in the plaque flora as displayed by determination of the minimal inhibitory amount (MIA) of the drug in agar diffusion assays. Three months after the use of gel was discontinued, the MIA value for plaque bacteria had returned to its original level. The relative proportions of S. mutans and S. sanguis in plaque changed during the chlorhexidine period. Thus S. mutans could not be detected in plaque samples after 3-month use of the gel, and the frequency of S. sanguis was altered.
A high potency nonformylated peptide agonist for the phagocyte N-formylpeptide chemotactic receptor. (1994)

Analysis of synthetic tri- and tetrapeptides has previously indicated that N-formylation is required for high biological activity when they react with the phagocyte N-formylpeptide receptor, suggesting that the natural ligand for the receptor is from bacterial and/or mitochondrial sources. To explore this requirement further, we synthesized the pentapeptide methionyl-norleucyl-leucyl-phenylalanyl-phenylalanine (MNleLFF) and studied the effects of different NH2-terminal modifications on its activity. N-formyl-MNleLFF induced transient alterations of [Ca2+]i and superoxide production in human neutrophils with 10- and 100-fold greater potency, respectively, than the proto-type N-formylpeptide, N-formylmethionyl-leucyl-phenylalanine (fMLF). Surprisingly, N-acetyl-MNleLFF was a potent as N-formyl-MNleLFF. Moreover, the unacylated counterpart H-MNleLFF was also highly active, having an EC50 for calcium mobilization of 10 nM, and for respiratory burst activation of 100 nM. All three pentapeptides could completely desensitize calcium transients elicited by stimulation of neutrophils with fMLF, whereas the neutrophil chemoattractants C5a and interleukin 8 only weakly affected fMLF-induced transients, suggesting that they activate neutrophils via the same receptor as fMLF. Finally, all three pentapeptides activated the recombinant human N-formylpeptide receptor expressed in frog oocytes, but did not effectively activate related phagocyte receptors. These data broaden the potential sources of natural ligands for the N-formyl-peptide receptor from N-formylated bacterial and mitochondrial products to other nonformylated endogenous peptides.
The physiology of the β‐amyloid precursor protein intracellular domain AICD (2011)

The amyloid-β precursor protein (βAPP) undergoes several cleavages by enzymatic activities called secretases. Numerous studies aimed at studying the biogenesis and catabolic fate of Aβ peptides, the proteinaceous component of the senile plaques that accumulate in Alzheimer's disease-affected brains. Relatively recently, another secretase-mediated β-APP-derived catabolite called APP IntraCellular Domain (AICD) entered the game. Whether AICD corresponded to a biologically inert by-pass product of βAPP processing or whether it could harbor its own function remained questionable. In this study, we review the mechanisms by which AICD is generated and how its production is regulated. Furthermore, we discuss the degradation mechanism underlying its rapid catabolic fate. Finally, we review putative AICD-related functions and more particularly, the numerous studies indicating that AICD could translocate to the nucleus and control at a transcriptional level, the expression of a series of proteins involved in various functions including the control of cell death and Aβ degradation.
Health Information Monitoring System using Context Sensors based Band (2011)

헬스케어가 예방의료 중심으로 다변화 되어가는 생활환경 속에서 건강정보를 제공하는 것은 서비스 전략의 중요한 성공요소가 되고 있다. 최근에는 u-헬스케어의 다양한 어플리케이션이 연구자에 의해 제시되고 있다. 본 논문에서는 상황센서 기반의 밴드를 이용한 건강정보 모니터링 시스템을 제안하였다. 제안된 밴드를 착용하여, 건강상태를 수집하고 생체신호를 UMPC로 무선 전송되어 이를 사용자의 위치에 따라 실시간으로 모니터링 할 수 있도록 고안하였다. 체온, 기온, 조도, 습도, 자외선에 따른 건강지수를 제공하기 위해서, 기상청의 RSS로 부터 추출한 다양한 XML 링크를 활용한다. 건강정보는 천식지수, 뇌졸중지수, 피부질환지수, 폐질환지수, 꽃가루농도지수, 도시고온지수의 요소에 따라 분석한다. 제안하는 시스템을 개발하여 논리적 타당성과 유효성을 검증하기 위해 실험적인 적용을 시도하고자 한다. 따라서 헬스케어에서 서비스의 만족도와 질을 향상시켰다. It is important for the strategy of service to provide the health information in the environment that the healthcare has been changed focusing on the preventive medicine. Recently, the various applications of u-healthcare have been presented by researchers. In this paper, we proposed the health information monitoring system using the context sensors based band. By wearing the proposed hand, the health status is gathered and vital signals are transmitted to the connected UMPC. It can be easily monitored according to the user locations in real time. To provide the health index according to the temperature, the air conditioning, the illumination, the humidity, and the ultraviolet rays, we use the various XML links extracted from RSS of the Korea Meteorological Administration. The health information is analyzed in terms of factors, such as, the asthma index, the stroke index, the skin disease index, the pulmonary disease index, the pollen concentration index, and the city high temperature index. Ultimately, this paper suggests empirical application to verify the adequacy and the validity with the proposed system. Accordingly, the satisfaction and the quality of services will be improved the healthcare.