gebhart/patrepeval huggingface dataset:
The therapeutic efficacy of an anti-IL-2 receptor monoclonal antibody correlates with an increase in serum soluble IL-2 receptor levels. (1989)

We tested the capacity of three rat monoclonal antibodies (MoAb), recognizing different epitopes on the L chain of mouse interleukin-2 receptor (IL-2R), to block delayed-type hypersensitivity (DTH) and local graft-versus-host reaction (GVHR). Furthermore, we investigated the effect of IL-2R-targeted immunotherapy on serum soluble IL-2R levels by ELISA technique. Following administration of AMT-13 MoAb, in sufficient amounts to suppress both DTH (60-90% inhibition) and local GVHR (55-70% inhibition), an increase in soluble IL-2R levels up to 12-fold was observed. In contrast, the administration of 7D4 MoAb did not show any immunosuppressive effect in vivo and even decreased the soluble IL-2R levels. The third anti-IL-2R MoAb AMT45-20 had an intermediate effect. AMT45-20 MoAb marginally suppressed the DTH as well as local GVHR (15-35% inhibition) and induced only a slight increase in soluble IL-2R levels (up to 4-fold). Both cyclosporin A, a conventional immunosuppressive drug, and the anti-L3T4 MoAb, which defines the entire T helper cell subset, suppressed GVH and DTH response but did not increase the soluble IL-2R serum levels. The increased concentration of soluble IL-2R in the serum of successfully treated mice may be due to destruction of IL-2R-positive cells by anti-IL-2R-targeted immunotherapy and seems to be a sensitive indicator for the success of such a therapy.
Expression of Low Density Lipoprotein Receptor Gene in Human Placenta during Pregnancy (1989)

Mammalian cells require cholesterol as a structural component of plasma membranes. It is also required for placental steroid synthesis. De novo synthesis of cholesterol is limited in human placenta and cholesterol is obtained mainly from plasma low density lipoprotein (LDL). Cholesterol delivery from LDL is mediated by receptor-mediated uptake and the receptor amount is the most important factor for cellular delivery. Thus, the regulation of receptor synthesis is important for placental development and function. Since the regulation of LDL receptor gene expression has not been studied in human placenta, LDL receptor mRNA was measured in placentae of 5-40 weeks of gestation by hybridization of RNA with 32P-labeled cDNA for human LDL receptor. Two mRNA species for LDL receptor were demonstrated by Northern blot analysis. The longer mRNA [5.3 kilobases (kb)] was much more abundant than the shorter mRNA (3.7 kb). The amount of 5.3 kb mRNA was highest early in gestation and decreased during pregnancy. However, the amount of 3.7 kb mRNA did not change appreciably during gestation. Dot blot analysis of 26 placental mRNAs obtained from various stages of gestation revealed a negative correlation between LDL receptor mRNA and gestation (r = -0.76, P less than 0.001). Considering the rapid growth of the trophoblast during gestation, especially in the first and the second trimester, increased expression of the LDL receptor gene and subsequent translation are expected for efficient cholesterol uptake to provide a sufficient substrate for cell growth. Possible mechanisms for the appearance of two mRNA species for LDL receptor are also discussed.
Targeting the embryonic gene Cripto-1 in cancer and beyond (2010)

Targeting Cripto-1 in human tumors has the potential to eliminate not only differentiated cancer cells but also destroy an undifferentiated subpopulation of cancer cells with stem-like characteristics that support tumor initiation and self-renewal.
Impact of obesity on metabolism in men and women. Importance of regional adipose tissue distribution. (1983)

The distribution of adipose tissue thickness, fat cell weight (FCW), and number (FCN) were studied in four regions in randomly selected middle-aged men and women and in 930 obese individuals. Both the obese and the randomly selected men were found to have the largest adipose tissue thickness in the abdominal region. Women, however, showed a relative preponderance for the gluteal and femoral regions. FCW increased with expanding body fat up to a maximal size of approximately 0.7-0.8 micrograms/cell in each region. After this increase in FCW, a more rapid increase in FCN was found. For the same degree of relative overweight, men had higher triglyceride, fasting glucose, and insulin levels; higher sums of glucose and insulin levels during an oral glucose tolerance test; and higher blood pressure. Furthermore, elevated fasting glucose levels (greater than 7.4 mM) occurred twice as often in the males. These differences between males and females persisted even after body fat matching. A male risk profile was seen in women characterized by abdominal obesity (high waist/hip circumference ratio) as compared to women with the typical peripheral obesity. Stepwise multiple regression analyses in both women and men showed the obesity complications to be associated in a first step to waist/hip circumference or body fat and in a second to abdominal fat cell size. It may thus be concluded that: (a) In both obese and nonobese subjects, regional differences exist between the sexes with regard to adipose tissue distribution. (b) Moderate expansion of body fat is mainly due to FCW enlargement, which is subsequently followed by increased FCN. (c) Men and women with a male abdominal type of obesity are more susceptible to the effect of excess body fat on lipid and carbohydrate metabolism.
Recommendations for standardization of clinical trials with Allergen Specific Immunotherapy for respiratory allergy. A statement of a World Allergy Organization (WAO) taskforce (2007)

Specific Immunotherapy for respiratory allergy is used since about one century and there is now solid documentation of its efficacy. Nevertheless, the methods and experimental designs used in clinical trials are quite heterogeneous and there is no unanimously accepted methodological standard. Many studies are planned with study designs that may not confirm the clinical value of SIT as an effective treatment to reduce disease severity. To ensure that patients are treated based on sound scientific evidence and to minimize the risk of misusing limited financial resources for scientific studies, the World Allergy Organization (WAO) convened a group of experts to provide guidelines for the methodology of future immunotherapy studies. This document summarizes the recommendations for study design, patients' selection, appropriate outcomes and statistical treatment to be used in planning and performing clinical trials with specific immunotherapy.
A brief review of retinitis pigmentosa and the identified retinitis pigmentosa genes. (2000)

The family of inherited ocular diseases that is collectively known as retinitis pigmentosa is a major cause of progressive retinal disease worldwide. As such, this family of diseases has been the object of much scientific scrutiny, both clinical and basic. The recent application of molecular genetic analyses has heralded the rapid elucidation of the underlying gene defects in many cases. In this article, the fundamental clinical and electroretinographic characteristics of retinitis pigmentosa will be recalled. Additionally, the current understanding of the genetic causes of retinitis pigmentosa will be reviewed, and the identified causative genes will be classified into groups related by function.
Facile Modification of Collagen Directed by Collagen Mimetic Peptides (2005)

Recent widespread interest in the development of engineered tissue and organ replacement therapies has prompted demand for new approaches to immobilize exogenous components to natural collagen. Chemical coupling of synthetic moieties to amino acid side chains has been commonly practiced for such purposes; however, such coupling reactions are difficult to control on large proteins and are generally not conducive to modifying integrated collagen scaffolds that contain live cells and tissues. As an alternative to the conventional "covalent" modification method, we have developed a novel "physical" modification technique that is based on collagen's native ability to associate into a triple-helical molecular architecture. Here, we present a finding that collagen mimetic peptides (CMPs) of sequence -(Pro-Hyp-Gly)x- exhibit strong affinity to both native and gelatinized type I collagen under controlled thermal conditions. We also show that the cell adhesion characteristics of collagen can be readily altered by applying a poly(ethylene glycol)-CMP conjugate to a prefabricated collagen film.
Fmoc Solid Phase Peptide Synthesis (1999)

Abstract In the years since the publication of Atherton and Sheppard's volume, the technique of Fmoc solid-phase peptide synthesis has matured considerably and is now the standard approach for the routine production of peptides. The basic problems outstanding at the time of publication of this earlier work have now been, for the most part, solved. As a result, innovators in the field have focussed their efforts to develop methodologies and chemistry for the synthesis of more complex structures. The focus of this new volume is much broader, and covers not only the essential procedures for the production of linear peptides but also more advanced techniques for preparing cyclic, side-chain modified, phospho- and glycopeptides. Many other methods also deserving attention have been included: convergent peptide synthesis; peptide-protein conjugation; chemoselective ligation; and chemoselective purification. The difficult preparation of cysteine and methionine-containing peptides is also covered, as well as methods for overcoming aggregation during peptide chain assembly and a survey of available automated instrumentation.
Structural Origins of the Surface Depressions at Alkanethiolate Monolayers on Au(111): A Scanning Tunneling and Atomic Force Microscopic Investigation (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStructural Origins of the Surface Depressions at Alkanethiolate Monolayers on Au(111): A Scanning Tunneling and Atomic Force Microscopic InvestigationChristie A. McDermott, Mark T. McDermott, John-Bruce Green, and Marc D. PorterCite this: J. Phys. Chem. 1995, 99, 35, 13257–13267Publication Date (Print):August 1, 1995Publication History Published online1 May 2002Published inissue 1 August 1995https://pubs.acs.org/doi/10.1021/j100035a033https://doi.org/10.1021/j100035a033research-articleACS PublicationsRequest reuse permissionsArticle Views315Altmetric-Citations122LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access options Get e-Alerts
Color transfer between images (2001)

We use a simple statistical analysis to impose one image's color characteristics on another. We can achieve color correction by choosing an appropriate source image and apply its characteristic to another image.
Identification of the First Fungal NADP-GAPDH from Kluyveromyces lactis (2002)

Deletion of the phosphoglucose isomerase gene, PGI1, in Saccharomyces cerevisiae leads to a phenotype for which glucose is toxic. This is related to overproduction of NADPH through the oxidative part of the pentose phosphate pathway and the incompetence of S. cerevisiae to deal with this overproduction. A similar deletion (rag2) in Kluyveromyces lactis does not lead to such a phenotype. We transformed a genomic library of K. lactis in a yeast vector to a S. cerevisiae strain with a pgi1 deletion and screened for growth on glucose. We found a gene (GDP1) which encodes a phosphorylating glyceraldehyde-3-phosphate dehydrogenase, NADP-GAPDH (EC 1.2.1.13), that accepts both NADP and NAD. This is the first report of a eukaryotic, nonplant, NADP-linked GAPDH. Presumably, operation of this enzyme in the reverse direction enabled the transformed S. cerevisiae pgi1 deletion mutant to reoxidize the excess NADPH produced when glucose catabolism was forced through the pentose pathway. On the other hand, transcription of the gene in K. lactis was upregulated during growth on D-xylose, which suggests that in K. lactis the enzyme is involved in regeneration of NADPH needed for xylose assimilation, but transcription was not detected in a rag2 mutant grown on glucose. The presence of an asparagine (Asn46 in NADP-GAPDH) instead of the conserved aspartate found in related but NAD-specific enzymes may explain the ability of NADP-GAPDH to work with NADP as well as NAD.
Designer monoclonal antibodies as drugs: the state of the art (2008)

With more than 130 antibodies in clini-cal development, designer antibodiesconstitute the most rapidly advancingdrug class in the pharmaceutical indus-try and the second largest drug classafter vaccines. Monoclonal antibodieshave shown the best track record (17marketed out of the 18 approved since1990). Currently, their use is also wide-spread, encompassing diverse clinicalsettings, including oncology and trans-plantation. They have also found a veryrich niche in certain conditions relatedto inflammatory, infectious and cardio-vascular diseases. The success rate ofdrug approval by the US FDA for chi-meric and humanized antibodiesremains well above 20% compared withthat of small molecular drugs at 11%
Synthesis of a Carbon-linked CMP-NANA Analog and Its Inhibitory Effects on GM3 and GD3 Synthases (1996)

A carbon-linked analog of cytidine monophospho-N-acetylneuraminic acid (CMP-NANA) was synthesized as the degradation resistant inhibitor for ~ial~ltransferases.The compound is the first example of synthetic CMP-NANA analog that exhibited inhibitoly effects on the activity of GM3 and GD3 synthases.
Hybrid speech recognition with Deep Bidirectional LSTM (2013)

Deep Bidirectional LSTM (DBLSTM) recurrent neural networks have recently been shown to give state-of-the-art performance on the TIMIT speech database. However, the results in that work relied on recurrent-neural-network-specific objective functions, which are difficult to integrate with existing large vocabulary speech recognition systems. This paper investigates the use of DBLSTM as an acoustic model in a standard neural network-HMM hybrid system. We find that a DBLSTM-HMM hybrid gives equally good results on TIMIT as the previous work. It also outperforms both GMM and deep network benchmarks on a subset of the Wall Street Journal corpus. However the improvement in word error rate over the deep network is modest, despite a great increase in framelevel accuracy. We conclude that the hybrid approach with DBLSTM appears to be well suited for tasks where acoustic modelling predominates. Further investigation needs to be conducted to understand how to better leverage the improvements in frame-level accuracy towards better word error rates.
Functional Proteomics Approach to Investigate the Biological Activities of cDNAs Implicated in Breast Cancer (2006)

Functional proteomics approaches that comprehensively evaluate the biological activities of human cDNAs may provide novel insights into disease pathogenesis. To systematically investigate the functional activity of cDNAs that have been implicated in breast carcinogenesis, we generated a collection of cDNAs relevant to breast cancer, the Breast Cancer 1000 (BC1000), and conducted screens to identify proteins that induce phenotypic changes that resemble events which occur during tumor initiation and progression. Genes were selected for this set using bioinformatics and data mining tools that identify genes associated with breast cancer. Greater than 1000 cDNAs were assembled and sequence verified with high-throughput recombination-based cloning. To our knowledge, the BC1000 represents the first publicly available sequence-validated human disease gene collection. The functional activity of a subset of the BC1000 collection was evaluated in cell-based assays that monitor changes in cell proliferation, migration, and morphogenesis in MCF-10A mammary epithelial cells expressing a variant of ErbB2 that can be inducibly activated through dimerization. Using this approach, we identified many cDNAs, encoding diverse classes of cellular proteins, that displayed activity in one or more of the assays, thus providing insights into a large set of cellular proteins capable of inducing functional alterations associated with breast cancer development.
Surviving Terrorisms (1982)

Abstract The increasingly random target strategy of terrorist movements presents a significant challenge to potential victims, but also one that can be minimized by sound advice on how to survive behind the terrorist barricade. Additional informationNotes on contributorsMartin Elliot Silverstein Martin Elliot Silverstein, associate professor of surgery and former chief of Section on Trauma Surgery at the University of Arizona, is on sabbatical at CSIS.
SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans -acting siRNAs in Arabidopsis (2004)

Higher plants undergo a transition from a juvenile to an adult phase of vegetative development prior to flowering. Screens for mutants that undergo this transition precociously produced alleles of two genes required for posttranscriptional gene silencing (PTGS)--SUPPRESSOR OF GENE SILENCING3 (SGS3) and SUPPRESSOR OF GENE SILENCING2(SGS2)/SILENCING DEFECTIVE1 (SDE1)/RNA-DEPENDENT POLYMERASE6 (RDR6). Loss-of-function mutations in these genes have a phenotype similar to that of mutations in the Argonaute gene ZIPPY (ZIP). Epistasis analysis suggests that ZIP, SGS3, SGS2/SDE1/RDR6, and the putative miRNA export receptor, HASTY (HST), operate in the same pathway(s). Microarray analysis revealed a small number of genes whose mRNA is increased in ZIP, SGS3, and SGS2/SDE1/RDR6 mutants, as well as genes that are up-regulated in SGS3 and SGS2/SDE1/RDR6 mutants, but not in ZIP mutants. One of these latter genes (At5g18040) is silenced posttranscriptionally in trans by the sRNA255 family of endogenous, noncoding, small interfering RNAs (siRNAs). The increase in At5g18040 mRNA in SGS3 and SGS2/SDE1/RDR6 mutants is attributable to the absence of sRNA255-like siRNAs in these mutants. These results demonstrate a role for endogenous siRNAs in the regulation of gene expression, and suggest that PTGS plays a central role in the temporal control of shoot development in plants.
<title>Optimization of optical properties for single-layer halftone masks</title> (1994)

An algorithm necessary to decide the optimum optical properties of a single-layer halftone (HT) mask has been established. This paper reveals the relations between the refractive index n and the extinction coefficient k, and thickness d, and describes how to select optimum films among various materials. It has been found that SiNx is a good material for a single-layer HT mask for I-line (365 nm) and KrF (248 nm). The lithographic performance of an I-line SiNx HT mask for grouped line and space (L&S) patterns under annular illumination has also been demonstrated.
Electrochemical Detection in a Paper-Based Separation Device (2010)

Prototypes of microfluidic paper-based separation devices with amperometric detection were developed and evaluated. Photolithography was used to make a gold electrochemical microcell on polyester and that microcell was coupled to a strip of paper where a chromatographic separation occurs. The device performance was demonstrated with the separation and quantification of uric and ascorbic acid in mixtures. The method provides an analytical alternative for the determination of compounds where low cost and simplicity are essential.
The Radon Transform and Some of Its Applications (1983)

Providing basic information about the properties of radon transform, this book contains examples and documents a wide variety of applications. It offers guidance to literature related to transform, and is aimed at those with a basic undergraduate background in mathematics.
Lane change intent prediction for driver assistance: On-road design and evaluation (2011)

Automobiles are quickly becoming more complex as new sensors and support systems are being added to improve safety and comfort. The next generation of intelligent driver assistance systems will need to utilize this wide array of sensors to fully understand the driving context and situation. Effective interaction requires these systems to examine the intentions, desires, and needs of the driver for preemptive actions which can help prepare for or avoid dangerous situations. This manuscript develops a real-time on-road prediction system able to detect a driver's intention to change lanes seconds before it occurs. In-depth analysis highlights the challenges when moving intent prediction from the laboratory to the road and provides detailed characterization of on-road performance.
RNA interference of argininosuccinate synthetase restores sensitivity to recombinant arginine deiminase (rADI) in resistant cancer cells (2011)

Our results demonstrate that rADI-resistance can be altered via AS RNA interference. Although transient enzyme down-regulation (siRNA) did not affect cell viability in MCF-7 cells, permanent down-regulation (shRNA) overcame the problem of rADI-resistance due to the more efficiency in AS silencing.
γ-Secretase Limits the Inflammatory Response Through the Processing of LRP1 (2008)

Inflammation is a potentially self-destructive process that needs tight control. We have identified a nuclear signaling mechanism through which the low-density lipoprotein receptor-related protein 1 (LRP1) limits transcription of lipopolysaccharide (LPS)-inducible genes. LPS increases the proteolytic processing of the ectodomain of LRP1, which results in the gamma-secretase-dependent release of the LRP1 intracellular domain (ICD) from the plasma membrane and its translocation to the nucleus, where it binds to and represses the interferon-gamma promoter. Basal transcription of LPS target genes and LPS-induced secretion of proinflammatory cytokines are increased in the absence of LRP1. The interaction between LRP1-ICD and interferon regulatory factor 3 (IRF-3) promotes the nuclear export and proteasomal degradation of IRF-3. Feedback inhibition of the inflammatory response through intramembranous processing of LRP1 thus defines a physiological role for gamma-secretase.