gebhart/patrepeval huggingface dataset:
Placental Lactogen Is Expressed but Is Not Translated into Protein in Breast Cancer (2014)

We call into question previous reports of hPL expression in breast cancer which relied on mRNA levels as surrogates for protein and/or used improperly validated antibodies to measure hPL protein levels. Our data suggests that an inhibitory mechanism(s) prevents translation of CSH mRNA in breast cancer when not highly expressed. The mechanism by which translation of CSH mRNA is inhibited is intriguing and should be further investigated.
The mathematics of statistical machine translation: parameter estimation (1993)

We describe a series o,f ive statistical models o,f the translation process and give algorithms,for estimating the parameters o,f these models given a set o,f pairs o,f sentences that are translations o,f one another. We define a concept o,f word-by-word alignment between such pairs o,f sentences. For any given pair of such sentences each o,f our models assigns a probability to each of the possible word-by-word alignments. We give an algorithm for seeking the most probable o,f these alignments. Although the algorithm is suboptimal, the alignment thus obtained accounts well for the word-by-word relationships in the pair o,f sentences. We have a great deal o,f data in French and English from the proceedings o,f the Canadian Parliament. Accordingly, we have restricted our work to these two languages; but we,feel that because our algorithms have minimal inguistic content hey would work well on other pairs o,f languages. We also,feel, again because of the minimal inguistic content o,f our algorithms, that it is reasonable to argue that word-by-word alignments are inherent in any sufficiently large bilingual corpus. 1.
Recommendation and Usage in the Digital Library (1998)

Artificial genetic polymers (XNAs) have enormous potential as new materials for synthetic biology, biotechnology, and molecular medicine; yet, very little is known about the biochemical properties of XNA polymerases that have been developed to synthesize and reverse-transcribe XNA polymers. Here, we compare the substrate specificity, thermal stability, reverse transcriptase activity, and fidelity of laboratory-evolved polymerases that were established to synthesize RNA, 2'-fluoroarabino nucleic acid (FANA), arabino nucleic acid (ANA), hexitol nucleic acid (HNA), threose nucleic acid (TNA), and phosphonomethylthreosyl nucleic acid (PMT). We find that the mutations acquired to facilitate XNA synthesis increase the tolerance of the enzymes for sugar-modified substrates with some sacrifice to protein-folding stability. Bst DNA polymerase was found to have weak reverse transcriptase activity on ANA and uncontrolled reverse transcriptase activity on HNA, differing from its known recognition of FANA and TNA templates. These data benchmark the activity of current XNA polymerases and provide opportunities for generating new polymerase variants that function with greater activity and substrate specificity.
Abstract 17036: Flk1 Mediated Activation of ER71 and Specification of Cardiovascular Lineages (2011)

We have previously demonstrated that Ets Related Protein 71 (ER71) is essential for primitive hematopoiesis and development of the endothelial/endocardial lineages. Lack of ER71 results in early (E8.0-E9.0) embryonic lethality. We generated an ER71-EYFP transgenic reporter mouse model using FACS and transcriptome analysis and determined that hematopoieitic and endothelial/endocardial molecular programs are restricted to the FACS sorted ER71-EYFP+ population. Using immunohistochemical techniques, we observed coexpression of EYFP (representing ER71 expression) and Flk1 between E7.0 and E9.5. However, Flk1 expression appears to precede ER71 expression in the primitive streak. Based on our observation that ER71 mutants phenocopy Flk1 null embryos at E8.0, we undertook a genetic analysis to determine whether Flk1 was upstream of ER71. We analyzed Flk1 expression in the ER71 mutant background by utilizing the Flk1-LacZ allele, FACS analysis, and qPCR. While Flk1-LacZ shows an aberrant spatial expression pattern, the frequency of cells expressing Flk1 is unchanged at E7.75 and is decreased modestly (two-fold) at E8.0. This demonstrates that Flk1 is not completely dependent on ER71 expression. In contrast, crossing the ER71-EYFP transgenic reporter allele into the Flk1 null background revealed that ER71 expression at E7.75 and E8.0 is dependent on Flk1. Furthermore, we have identified an evolutionarily conserved NFAT binding site in the essential ER71 promoter. NFAT is a family of transcription factors known to mediate a VEGF signalling cascade that involves the Flk1 receptor and Calcineurin. We have used ChIP and EMSA to verify that NFAT directly binds the ER71 promoter. Using transcriptional assays, we further demonstrate that ER71 is regulated by NFAT and Calcineurin. Collectively, these studies support the hypothesis that a Flk1-ER71 network specifies and coordinates the endothelial/endocardial lineages during cardiovascular development.
Altered functional connectivity architecture of the brain in medication overuse headache using resting state fMRI (2017)

These results provided evidence that MOH and EM suffered from altered intrinsic functional connectivity architecture, and the current study presented a new perspective for understanding the neuromechanism of MOH and EM pathogenesis.
Down-regulation of microfilamental network-associated proteins in leukocytes of breast cancer patients: potential application to predictive diagnosis. (2009)

Microfilamental network-associated proteins are involved in the regulation of a variety of central cellular processes functionally linked with each other and known to be highly relevant for all stages of tumorigenesis including precancerous lesions and metastases. Pathology-related molecular patterns are currently considered for the creation of a novel highly sensitive minimally-invasive approach for predictive diagnosis of breast cancer.
In the search for specific inhibitors of human 11beta-hydroxysteroid-dehydrogenases (11beta-HSDs): chenodeoxycholic acid selectively inhibits 11beta-HSD-I (2000)

Our in vitro results may offer a new concept for renal glucocorticoid targeting. Oral administration of small amounts of DH-D (low substrate affinity for 11beta-HSD-I) in combination with chenodeoxycholic acid (selective inhibition of 11beta-HSD-I) may prevent hepatic first pass reduction of DH-D, thus allowing selective activation of DH-D to D by the high affinity 11beta-HSD-II in the kidney. Moreover, selective inhibitors of the hepatic 11beta-HSD-I, like chenodeoxycholic acid, may become useful in the therapy of patients with hepatic insulin resistance including diabetes mellitus type II, because cortisol enhances gluconeogenesis.
Random sampling: new insights into the reconstruction of coarsely-sampled wavefields (2008)

In this paper, we turn the interpolation problem of coarsely-sampled data into a denoising problem. From this point of view, we illustrate the benefit of random sampling at sub-Nyquist rate over regular sampling at the same rate. We show that, using nonlinear sparsity promoting optimization, coarse random sampling may actually lead to significantly better wavefield reconstruction than equivalent regularly sampled data.
Hypermethylation of the CpG island of p16/CDKN2 correlates with gene inactivation in gliomas. (1996)

There is considerable evidence that lack of p16 protein expression is a frequent event in human gliomas. Nevertheless, the molecular mechanisms underlying this absence of p16 protein expression are not completely understood. In some gliomas, homozygous deletions are the main cause of p16/CDKN2 gene inactivation. However, other gliomas lacking p16 expression exhibit intact p16/CDKN2 gene, suggesting that p16/CDKN2 is down-regulated at the transcriptional level. In this study we investigated whether aberrant p16/CDKN2 gene methylation correlated with absence of p16 expression in the latter group of gliomas. In a series of 27 gliomas, 12 malignant tumors exhibited loss of p16/CDKN2 expression but not gene deletion. Methylation analysis of the CpG island in the 5' region of the p16/CDKN2 gene showed that exon 1 was extensively methylated in six and partially methylated in the other six of the 12 malignant gliomas. In contrast, no methylation was observed in four other malignant gliomas and two low-grade gliomas that expressed p16 protein. These results indicate that abnormal hypermethylation of the CpG island encompassing the 5' end of the p16/CDKN2 gene may be a mechanism of transcriptional silencing in gliomas without homozygous deletions.
Microsoft Transaction Server (2002)

The Microsoft Transaction Server represents a new category of product that makes it makes it easier to develop and deploy high performance, scaleable, and reliable distributed applications. This is achieved by combining the technology of component based development and deployment environments with the reliability and scaleability of transaction processing monitors.
Pervasive Personal Computing in an Internet Suspend/Resume System (2007)

The Internet suspend/resume model of mobile computing cuts the tight binding between PC state and PC hardware. By layering a virtual machine on distributed storage, ISR lets the VM encapsulate execution and user customization state; distributed storage then transports that state across space and time. This article explores the implications of ISR for an infrastructure-based approach to mobile computing. It reports on experiences with three versions of ISR and describes work in progress toward the OpenISR version
Plenary Session Addresses (1983)

First I may say that I regret very much not being able to be with you today and participate in the Congress.
Biological and biochemical activities of a chimeric epidermal growth factor-Elk receptor tyrosine kinase. (1993)

Eph, Elk, and Eck are prototypes of a large family of transmembrane protein-tyrosine kinases, which are characterized by a highly conserved cysteine-rich domain and two fibronectin type III repeats in their extracellular regions. Despite the extent of the Eph family, no extracellular ligands for any family member have been identified, and hence, little is known about the biological and biochemical properties of these receptor-like tyrosine kinases. In the absence of a physiological ligand for the Elk receptor, we constructed chimeric receptor molecules, in which the extracellular region of the Elk receptor is replaced by the extracellular, ligand-binding domain of the epidermal growth factor (EGF) receptor. These chimeric receptors were expressed in NIH 3T3 cells that lack endogenous EGF receptors to analyze their signaling properties. The chimeric EGF-Elk receptors became glycosylated, were correctly localized to the plasma membrane, and bound EGF with high affinity. The chimeric receptors underwent autophosphorylation and induced the tyrosine phosphorylation of a specific set of cellular proteins in response to EGF. EGF stimulation also induced DNA synthesis in fibroblasts stably expressing the EGF-Elk receptors. In contrast, EGF stimulation of these cells did not lead to visible changes in cellular morphology, nor did it induce loss of contact inhibition in confluent monolayers or growth in semisolid media. The Elk cytoplasmic domain is therefore able to induce tyrosine phosphorylation and DNA synthesis in response to an extracellular ligand, suggesting that Elk and related polypeptides function as ligand-dependent receptor tyrosine kinases.
Equivalent benefit of mTORC1 blockade and combined PI3K-mTOR blockade in a mouse model of tuberous sclerosis (2009)

Both mTORC1 blockade alone and combined PI3K-mTOR blockade lead to suppression of tumor development but not tumor elimination in this TSC model.
Do Alkanethiols Adsorb onto the Surfaces of Tl−Ba−Ca−Cu−O-Based High-Temperature Superconductors? The Critical Role of H2O Content on the Adsorption Process (1996)

The reactivity of Tl1.4Ba2CaCu2O7.0, a high-temperature superconductor (HTSC), toward a redox-active adsorbate molecule with thiol functionality has been investigated as a function of solvent type and H2O content. Previously it had been reported that alkanethiols do not stably chemisorb onto the surface of Tl2Ba2CaCu2O8/Tl2Ba2Ca2Cu3O10 phases, bringing into question the generality of alkanethiol adsorption onto cuprate-based HTSCs. Herein, we show that under rigorously dry conditions, 11-mercaptoundecanoylferrocene (1) adsorbs cleanly onto the surface of Tl1.4Ba2CaCu2O7.0 to form moderately stable, redox-active monolayer films. The redox activity of 1 was used to estimate adsorbate surface coverage, and it is shown that the addition of H2O to the modifying solutions of 1 adversely affects the monolayer adsorption process. No redox activity associated with 1 could be detected for electrodes soaked in 0.1 M solutions of 1 with 5% H2O in ethanol, which was attributed to the formation of a BaCO3 corrosion layer that prohibited the adsorption of 1 onto the HTSC surface. The importance of sample stoichiometry on the adsorption process also is discussed.
Therapeutic Applicability of Anti-Inflammatory and Proresolving Polyunsaturated Fatty Acid-Derived Lipid Mediators (2010)

The enzymatic oxygenation of polyunsaturated fatty acids by lipoxygenases and cyclo-oxygenases is a resourceful mode of formation of specific autacoids that regulate the extent and pace of the inflammatory response. Arachidonate-derived eicosanoids, such as lipoxin A4, prostaglandin (PG)D2, PGF2alpha, PGE2, and PGD2-derived cyclopentenones exert specific roles in counter-regulating inflammation and turning on resolution. Recently recognized classes of autacoids derived from long-chain ?-3 polyunsaturated fatty acids, the E- and D-series resolvins, protectin D1, and maresin 1, act as specialized mediators to dampen inflammation actively, afford tissue protection, stimulate host defense, and activate resolution. It is held that counter-regulatory lipid mediators and the specific molecular pathways activated by such endogenous agonists may be suitable for pharmacological use in the treatment of inflammatory disease. The anti-inflammatory drug aspirin is a striking example of a drug that is able to act in such a manner, namely through triggering the formation of 15-epi-lipoxin A4 and aspirin-triggered resolvins. Different aspects of the therapeutic applicability of lipid mediators have been addressed here, and indicate that the development of innovative pharmacotherapy based on anti-inflammatory and proresolution lipid mediators presents novel prospects for the treatment of inflammatory disease.
Lactate inhibits germ cell apoptosis in the human testis (2002)

Dysregulation of male germ cell apoptosis has been associated with the pathogenesis of male infertility. Therefore, factors involved in the regulation of germ cell death are being actively investigated. Here, we studied the effects of lactate on human male germ cell death, using as a model a testis tissue culture in which physiological contacts are maintained between the germ cells and the supportive somatic Sertoli cells. Apoptosis of spermatocytes, spermatids and a few spermatogonia was induced by culturing segments of seminiferous tubules under serum-free conditions. This germ cell death was inhibited effectively and dose-dependently by lactate, indicating that it plays a crucial role in controlling cell death cascades of male germ cells. Interestingly, the anti-apoptotic role of lactate was not associated with changes in testicular adenine nucleotide (ATP, ADP and AMP) levels. In the seminiferous tubules, the final site of the death-suppressing action of lactate appeared to be downstream along the cell death pathway activated by the Fas receptor of the germ cells. In conclusion, testicular cell death was effectively regulated by lactate, which may be regarded as a potential compound for optimizing in-vitro methods involving male germ cells for assisted reproduction.
Prediction of antigenic epitopes on protein surfaces by consensus scoring (2009)

Our work shows consensus scoring of multiple features has a better performance than any single term. The successful prediction is also due to the new score of residue epitope propensity based on atomic solvent accessibility.
Transplantation of human prostatic carcinoma into nude mice in Matrigel. (1991)

Previous successful transplantation of human primary prostatic carcinomas into nude mice has been described as "close to zero." When injected in Matrigel instead of culture medium, 25,000-fold fewer cells of the PC-3 human prostatic carcinoma cell line were required for the growth of tumors in nude mice during a 3-month period of observation; similar enhancement was observed with two other human prostatic carcinoma cell lines. Six of ten primary human prostatic carcinomas were transplanted successfully into nude mice when Matrigel was used as the vehicle.
Fast Drop Movements Resulting from the Phase Change on a Gradient Surface (2001)

The movement of liquid drops on a surface with a radial surface tension gradient is described here. When saturated steam passes over a colder hydrophobic substrate, numerous water droplets nucleate and grow by coalescence with the surrounding drops. The merging droplets exhibit two-dimensional random motion somewhat like the Brownian movements of colloidal particles. When a surface tension gradient is designed into the substrate surface, the random movements of droplets are biased toward the more wettable side of the surface. Powered by the energies of coalescence and collimated by the forces of the chemical gradient, small drops (0.1 to 0.3 millimeter) display speeds that are hundreds to thousands of times faster than those of typical Marangoni flows. This effect has implications for passively enhancing heat transfer in heat exchangers and heat pipes.
Usability meets security - the Identity-Manager as your personal security assistant for the Internet (2002)

In today's applications, most users disregard the security functionality. They do not have the knowledge and/or the motivation to configure or to use the existing security functions correctly. In this paper, we present a new concept to improve the usability of security mechanisms, introducing an extended classification of protection goals. As a result, the everyday use of security functionality can be reduced to selecting the user's identity, which is the basis of the Identity-Manager, a new security tool presented in this paper. It offers a user interface for security functionality that is compatible with all Internet applications, so even inexperienced users are able to configure and negotiate their security needs in a convenient way.
Combination brain and systemic injections of AAV provide maximal functional and survival benefits in the Niemann-Pick mouse (2007)

Niemann-Pick disease (NPD) is caused by the loss of acid sphingomyelinase (ASM) activity, which results in widespread accumulation of undegraded lipids in cells of the viscera and CNS. In this study, we tested the effect of combination brain and systemic injections of recombinant adeno-associated viral vectors encoding human ASM (hASM) in a mouse model of NPD. Animals treated by combination therapy exhibited high levels of hASM in the viscera and brain, which resulted in near-complete correction of storage throughout the body. This global reversal of pathology translated to normal weight gain and superior recovery of motor and cognitive functions compared to animals treated by either brain or systemic injection alone. Furthermore, animals in the combination group did not generate antibodies to hASM, demonstrating the first application of systemic-mediated tolerization to improve the efficacy of brain injections. All of the animals treated by combination therapy survived in good health to an investigator-selected 54 weeks, whereas the median lifespans of the systemic-alone, brain-alone, or untreated ASM knockout groups were 47, 48, and 34 weeks, respectively. These data demonstrate that combination therapy is a promising therapeutic modality for treating NPD and suggest a potential strategy for treating disease indications that cause both visceral and CNS pathologies.
Noncycling state of peripheral blood progenitor cells mobilized by granulocyte colony-stimulating factor and other cytokines (1995)

Incubation with high doses of tritiated thymidine in vitro was used to determine the percent of progenitor cells in the S phase of the cell cycle. Peripheral blood (PB), bone marrow (BM), and spleen populations from mice injected with granulocyte colony-stimulating factor (G-CSF) at 5 micrograms/day for 5 days and BM cells from uninjected littermates were assayed. Although the percentage of progenitor cells in S phase in the marrow (47% +/- 5%) and spleen (52% +/- 9%) was increased significantly in G-CSF-treated mice, only a small proportion of PB progenitor cells (PBPC) were in S phase (7% +/- 4%). In normal human subjects injected with G-CSF at 5 or 10 micrograms/kg/d, the proportions of PB myeloid (-1 +/- 4%) and erythroid (0% +/- 8%) progenitor cells in S phase were very low compared with the proportion of myeloid progenitor cells in S phase in normal BM (34% +/- 10%). Similarly, the large majority of steady-state PBPC and PBPC mobilized by interleukin-3 in combination with either granulocyte-macrophage colony-stimulating factor or G-CSF were also found not to be in S phase. Experiments indicated that the low percentages of PBPC in S phase were not ascribable either to inhibitory elements in the blood or to reduced responsiveness to growth factors.
Physiological properties of the normal lens (1997)

The lens is an avascular organ suspended between the aqueous and vitreous humors of the eye. The cellular structure is symmetric about an axis passing through its anterior and posterior poles but asymmetric about a plane passing through its equator. Because of its asymmetric structure, the lens has historically been assumed to perform transport between the aqueous and vitreous humors. Indeed, when anterior and posterior surfaces were isolated in an Ussing chamber, a translens current was measured. However, in the eye, the two surfaces are not isolated. The vibrating probe technique showed the current densities at the surface of a free-standing lens were surprisingly large, about an order of magnitude greater than measured in an Ussing chamber, and were not directed across the lens. Rather, they were inward in the region of either anterior or posterior pole and outward at the equator. This circulating current is the most dramatic physiological property of a normal lens. We believe it is essential to maintain clarity; hence, this review focuses on factors likely to drive and direct it. We review properties and spatial distribution of lens Na+/K+ pumps, ion channels, and gap junctions. Based on these data, we propose a model in which the difference in electromotive potential of surface versus interior cell membranes drives the current, whereas the distribution of gap junctions directs the current in the observed pattern. Although this model is clearly too simple, it appears to quantitatively predict observed currents. However, the model also predicts fluid will move in the same pattern as ionic current. We therefore speculate that the physiological role of the current is to create an internal circulatory system for the avascular lens.