gebhart/patrepeval huggingface dataset:
Limits of Static Analysis for Malware Detection (2007)

Malicious code is an increasingly important problem that threatens the security of computer systems. The traditional line of defense against malware is composed of malware detectors such as virus and spyware scanners. Unfortunately, both researchers and malware authors have demonstrated that these scanners, which use pattern matching to identify malware, can be easily evaded by simple code transformations. To address this shortcoming, more powerful malware detectors have been proposed. These tools rely on semantic signatures and employ static analysis techniques such as model checking and theorem proving to perform detection. While it has been shown that these systems are highly effective in identifying current malware, it is less clear how successful they would be against adversaries that take into account the novel detection mechanisms. The goal of this paper is to explore the limits of static analysis for the detection of malicious code. To this end, we present a binary obfuscation scheme that relies on the idea of opaque constants, which are primitives that allow us to load a constant into a register such that an analysis tool cannot determine its value. Based on opaque constants, we build obfuscation transformations that obscure program control flow, disguise access to local and global variables, and interrupt tracking of values held in processor registers. Using our proposed obfuscation approach, we were able to show that advanced semantics-based malware detectors can be evaded. Moreover, our opaque constant primitive can be applied in a way such that is provably hard to analyze for any static code analyzer. This demonstrates that static analysis techniques alone might no longer be sufficient to identify malware.
Alternating Copolymerization of Epoxides and Cyclic Anhydrides:  An Improved Route to Aliphatic Polyesters (2007)

Beta-diiminate zinc catalysts are reported for the synthesis of aliphatic polyesters via the highly alternating copolymerization of epoxides and cyclic anhydrides under mild reaction conditions. The polymers formed have high Mn values and narrow molecular weight distributions.
Mechanical work for step-to-step transitions is a major determinant of the metabolic cost of human walking (2002)

In the single stance phase of walking, center of mass motion resembles that of an inverted pendulum. Theoretically, mechanical work is not necessary for producing the pendular motion, but work is needed to redirect the center of mass velocity from one pendular arc to the next during the transition between steps. A collision model predicts a rate of negative work proportional to the fourth power of step length. Positive work is required to restore the energy lost, potentially exacting a proportional metabolic cost. We tested these predictions with humans (N=9) walking over a range of step lengths (0.4-1.1 m) while keeping step frequency fixed at 1.8 Hz. We measured individual limb external mechanical work using force plates, and metabolic rate using indirect calorimetry. As predicted, average negative and positive external mechanical work rates increased with the fourth power of step length (from 1 W to 38 W; r(2)=0.96). Metabolic rate also increased with the fourth power of step length (from 7 W to 379 W; r(2)=0.95), and linearly with mechanical work rate. Mechanical work for step-to-step transitions, rather than pendular motion itself, appears to be a major determinant of the metabolic cost of walking.
Multiple importance sampling for first- and second-order polarization-mode dispersion (2002)

A simulation method that targets all possible combinations of first- and second-order polarization-mode dispersion (PMD) is described. Use of this method in importance-sampled Monte Carlo simulations yields a more comprehensive determination of PMD-induced system penalties than first-order biasing alone and significantly speeds up the calculation of outage probabilities, particularly when PMD compensation is employed. The technique is demonstrated by using it to calculate the probability distribution function (pdf) of second-order PMD and the joint pdf of the magnitude of first- and second-order PMD.
Safety of technology: Infection control standards in endoscopy (2002)

Transmission of infection related to gastrointestinal endoscopy continues to be a subject of much discussion. The principles of infection control during endoscopy are reviewed. Guidelines set forth by a number of gastrointestinal endoscopy associations have emphasized the need for meticulous cleaning of endoscopes immediately after use, followed by appropriate disinfection, rinsing and drying. Most, if not all, episodes of transmission of infection during endoscopy are associated with lapses in cleaning and disinfection protocols. The need for universal compliance with infection control standards, and for the development of strategies to achieve such compliance, is highlighted.
Pharmacological characterisation of a rat model of incisional pain (2004)

1. Both clinical and preclinical models of postsurgical pain are being used more frequently in the early evaluation of new chemical entities. In order to assess the validity and reliability of a rat model of postincisional pain, the effects of different classes of clinically effective analgesic drugs were evaluated against multiple behavioural end points. 2. Following surgical incision, under general anaesthesia, of the plantar surface of the rat hind paw, we determined the time course of mechanical hyperalgesia, tactile allodynia and hind limb weight bearing using the Randall-Selitto (paw pressure) assay, electronic von Frey and dual channel weight averager, respectively. Behavioural evaluations began 24 h following surgery, and were continued for 9-14 days. 3. Mechanical hyperalgesia, tactile allodynia and a decrease in weight bearing were present on the affected limb within 1 day of surgery with maximum sensitivity 1-3 days postsurgery. Accordingly, we examined the effect of nonsteroidal antiinflammatory drugs (NSAIDs), morphine and gabapentin, on established hyperalgesia and allodynia, 1 day following plantar incision.4. In accordance with previous reports, both systemic morphine and gabapentin administration reversed mechanical hyperalgesia and tactile allodynia in the incised rat hind paw. Both drugs were more potent against mechanical hyperalgesia than tactile allodynia. 5. All of the NSAIDs tested, including cyclooxygenase 2 selective inhibitors, reversed mechanical hyperalgesia and tactile allodynia in the incised rat hind paw. The rank order of potency for both hyperalgesia and allodynia was indomethacin > celecoxib > etoricoxib > naproxen. 6. We have investigated the potency and efficacy of different classes of analgesic drugs in a rat model of postincisional pain. The rank order of potency for these drugs reflects their utility in treating postoperative pain in the clinic. As these compounds showed reliable efficacy across two different behavioural end points, the Randall-Selitto (paw pressure) assay and electronic von Frey, these methods may prove useful in the study of postsurgical pain and the assessment of novel treatments.
Study on the synthesis of toltrazuril (2006)

An improved process for preparing toltrazuril(1) was described.The important intermediate phenylamino derivative(3) was prepared from 4-[(trifluoromethyl)thio]-phenol and 1-chloro-2-methyl-4-nitro-benzene by aromatic nucleophilic substitution and catalytic hydrogenation,then was phosgenated by using BTC instead of phosgene.The isomeric biurets(5 and 6) were prepared by the reaction of phenylisocyanate(4) with methylurea.Finally,1 was prepared by the reaction of 5 and 6 with dimethyl carbonate and sodium methoxide with an overall yield of 71%.
Expression of Alternatively Spliced Sodium Channel α-Subunit Genes (2004)

Molecular medicine requires the precise definition of drug targets, and tools are now in place to provide genome-wide information on the expression and alternative splicing patterns of any known gene. DNA microarrays were used to monitor transcript levels of the nine well-characterized alpha-subunit sodium channel genes across a broad range of tissues from cynomolgus monkey, a non-human primate model. Alternative splicing of human transcripts for a subset of the genes that are expressed in dorsal root ganglia, SCN8A (Na(v)1.6), SCN9A (Na(v)1.7), and SCN11A (Na(v)1.9) was characterized in detail. Genomic sequence analysis among gene family paralogs and between cross-species orthologs suggested specific alternative splicing events within transcripts of these genes, all of which were experimentally confirmed in human tissues. Quantitative PCR revealed that certain alternative splice events are uniquely expressed in dorsal root ganglia. In addition to characterization of human transcripts, alternatively spliced sodium channel transcripts were monitored in a rat model for neuropathic pain. Consistent down-regulation of all transcripts was observed, as well as significant changes in the splicing patterns of SCN8A and SCN9A.
Potent Dipeptide Inhibitors of the pp60c-src SH2 Domain (1998)

The design, synthesis, and evaluation of dipeptide analogues as ligands for the pp60c-src SH2 domain are described. The critical binding interactions between Ac-Tyr-Glu-N(n-C5H11)2 (2) and the protein are established and form the basis for our structure-based drug design efforts. The effects of changes in both the C-terminal (11-27) and N-terminal (51-69) portions of the dipeptide are explored. Analogues with reduced overall charge (92-95) are also investigated. We demonstrate the feasibility of pairing structurally diverse subunits in a modest dipeptide framework with the goal of increasing the druglike attributes without sacrificing binding affinity.
Cloning of the DNA Polymerase Gene of Bacillus caldotenax and Characterization of the Gene Product1 (1993)

The pol gene of the thermophilic eubacterium Bacillus caldotenax was cloned in a plasmid and expressed in Escherichia coli. The PCR method was used to clone the gene with no previous knowledge of the gene or protein sequence. The 3,329-bp DNA fragment containing the structural gene for DNA polymerase was sequenced. DNA polymerase, as deduced from the DNA sequence, consisted of 877 amino acids, had a molecular weight of 99,452, and was structurally homologous to the DNA polymerases of the Pol I family (family A), which includes E. coli DNA polymerase I and T7 DNA polymerase. B. caldotenax DNA polymerase (Bca polymerase) purified from the recombinant E. coli strain was characterized. Like E. coli Pol I, Bca polymerase had 5'-->3' exonuclease activity. The degraded product with the molecular weight of 65,000 was also purified and found to have polymerase activity. To overproduce this Klenow-type fragment of Bca polymerase, a recombinant expression plasmid pUI205 with a deletion in the 5'-region of the pol structural gene was constructed. The DNA polymerase produced by pUI205 is more suitable for use in the dideoxy sequencing method than the other DNA polymerases that have been used for sequencing.
Expression and Characterization of a 70-kDa Fragment of the Insulin Receptor That Binds Insulin (1998)

In order to characterize regions of the insulin receptor that are essential for ligand binding and possibly identify a smaller insulin-binding fragment of the receptor, we have used site-directed mutagenesis to construct a series of insulin receptor deletion mutants. From 112 to 246 amino acids were deleted from the alpha-subunit region comprising amino acids 469-729. The receptor constructs were expressed as soluble insulin receptor IgG fusion proteins in baby hamster kidney cells and were characterized in binding assays by immunoblotting and chemical cross-linking with radiolabeled insulin. The shortest receptor fragment identified was a free monomeric alpha-subunit deleted of amino acids 469-703 and 718-729 (exon 11); the mass of this receptor fragment was found by mass spectrometry to be 70 kDa. This small insulin receptor fragment bound insulin with an affinity (Kd) of 4.4 nM, which is similar to what was found for the full-length ectodomain of the insulin receptor (5.0 nM). Cross-linking experiments confirmed that the 70-kDa receptor fragment specifically bound insulin. In summary we have minimized the insulin binding domain of the insulin receptor by identifying a 70-kDa fragment of the ectodomain that retains insulin binding affinity making this an interesting candidate for detailed structural analysis.
A Novel Method to Determine the Topology of Peroxisomal Membrane Proteins in Vivo Using the Tobacco Etch Virus Protease (2001)

Most proteins essential for the biogenesis of peroxisomes (peroxins) that are identified to date are associated with or are integral components of the peroxisomal membrane. A prerequisite in elucidating their function is to determine their topology in the membrane. We have developed a novel tool to analyze the topology of peroxisomal membrane proteins in the yeast Hansenula polymorpha in vivo using the 27-kDa NIa protease subunit from the tobacco etch virus (TEVp). TEVp specifically cleaves peptides containing the consensus sequence, EXXYXQ downward arrowS (tev). We show that cytosolic TEVp and peroxisomal TEVp.SKL are selectively active on soluble cytosolic and peroxisomal tev-containing proteins in vivo, respectively, without affecting the viability of the yeast cells. The tev sequence was introduced in between the primary sequence of the peroxisomal membrane proteins Pex3p or Pex10p and the reporter protein enhanced green fluorescent protein (eGFP). Co-synthesis of these functional tev-GFP tagged proteins with either cytosolic TEVp or peroxisomal TEVp.SKL revealed that the C termini of Pex3p and Pex10p are exposed to the cytosol. Additional applications of the TEV protease to study peroxisome biogenesis are discussed.
A novel anti-pancreatic cancer agent, LY293111 (2005)

Arachidonic acid is metabolized by two major pathways, cyclooxygenases and lipoxygenases. The metabolites catalyzed by these enzymes are important mediators of acute and chronic inflammation. Both enzymes and their metabolites are well recognized to be involved in cancer development and progress. It is well documented that inhibition of cyclooxygenase 2 (COX-2) activity decreases cancer incidence and inhibits tumor growth. It has also been reported that 5-lipoxygenase is involved in cancer cell survival and proliferation. 5-lipoxygenase metabolites including both 5-HETE and leukotriene (LT) B4 directly mediate cancer cell growth. Although 5-HETE receptors are still elusive, two LTB4 receptor subtypes (BLT1 and BLT2) have been characterized. Both 5-lipoxygenase and LTB4 receptors are upregulated in both pancreatic cancer and early pancreatic cancer lesions; hence, these proteins are potential targets for cancer treatment and prevention. Recent studies have shown that an orally stable leukotriene (LT) B4 receptor antagonist, LY293111, has a potent anti-pancreatic cancer effect. LY293111 inhibits pancreatic cancer growth, induces tumor cell apoptosis both in vitro and in vivo, and enhances the anti-pancreatic cancer effect of gemcitabine. LY293111 exhibits its anti-cancer effects through LTB4 receptors and peroxisome-proliferator activated receptor-gamma. A phase I clinical trial indicated that LY293111 is well tolerated by patients with no significant side-effects. LY293111 may be a valuable drug for treatment of pancreatic cancer, especially in combination with gemcitabine. A double-blinded, placebo-controlled phase II clinical trial with LY293111 is currently underway. This review summarizes the current research status of LY293111 as an anti-cancer agent with a focus on pancreatic cancer.
Acylation of viral and eukaryotic proteins (1989)

Research Article| March 15 1989 Acylation of viral and eukaryotic proteins R J A Grand R J A Grand 1Department of Cancer Studies, Cancer Research Campaign Laboratories, University of Birmingham, The Medical School, Birmingham B15 2TJ, U.K. Search for other works by this author on: This Site PubMed Google Scholar Biochem J (1989) 258 (3): 625–638. https://doi.org/10.1042/bj2580625 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn MailTo Cite Icon Cite Get Permissions Citation R J A Grand; Acylation of viral and eukaryotic proteins. Biochem J 15 March 1989; 258 (3): 625–638. doi: https://doi.org/10.1042/bj2580625 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Journal Search Advanced Search This content is only available as a PDF. © 1989 London: The Biochemical Society1989 Article PDF first page preview Close Modal You do not currently have access to this content.
A pilot study of pi-class glutathione S-transferase expression in breast cancer: correlation with estrogen receptor expression and prognosis in node-negative breast cancer. (1993)

GST pi expression is inversely related to hormone receptor status in breast cancer. This pilot study also suggests that increased GST pi expression may be an important predictor of early recurrence and death in node-negative breast cancer patients that merits additional investigation.
Newcastle disease virus stimulates the cellular accumulation of stress (heat shock) mRNAs and proteins (1982)

A biological agent, Newcastle disease virus, stimulated the synthesis of stress proteins in cultured chicken embryo cells. Previously, only physical and chemical agents were known to induce these proteins. The levels of translatable stress mRNAs were elevated in cells infected with avirulent or virulent strains; however, stress protein synthesis was stimulated strongly only in cells infected by avirulent strains. As did several other paramyxoviruses, avirulent strains of Newcastle disease virus stimulated the synthesis of glucose-regulated proteins as well as stress proteins. Possible stimuli of the synthesis of these two sets of proteins in paramyxovirus-infected cells are considered.
<title>Protecting publicly available images with a visible image watermark</title> (1996)

In some cases, it is desired to produce images that are suitable for one application and unsuitable for others. With the 'Vatican Library Accessible Worldwide' and 'Luther Digital' projects, for example, it was desired to make available through the Internet images of Vatican Library and Luther Library manuscripts that are suitable for scholarly study yet are unsuitable as a source for unapproved publication. One of the techniques used to accomplish this is the visible image watermark. Our technical goals for watermarking include (1) applying a readily visible mark to the image that clearly identifies its ownership, (2) permitting all image detail to be visible through the watermark, and (3) making the watermark difficult to remove. In this paper, we describe the technique we use. We also discuss the characteristics of good watermarks and options we have used in their application. illustrative watermarked images are presented.
Evaluation of 3 Clinical Dendritic Cell Maturation Protocols Containing Lipopolysaccharide and Interferon-γ (2009)

Dendritic cells (DCs) are important adjuvants for cancer vaccines. Immature dendritic cells (iDCs) are often produced by the stimulation of peripheral blood monocytes with interleukin (IL)-4 and granulocyte macrophage-colony stimulating factor. For many applications iDCs are treated with cytokines or inflammatory signals to produce mature DCs (mDCs). iDCs are often treated ex vivo with lipopolysaccharide (LPS) and interferon (IFN)-gamma to produce mDCs for clinical therapy. The purpose of this study was to determine if the DC maturation cocktail LPS plus IFN-gamma could be improved by the addition of 2 other DC maturation agents IL-1beta and tumor necrosis factor (TNF)-alpha. Peripheral blood mononuclear cells were collected from 6 healthy subjects. Monocytes were isolated from the peripheral blood mononuclear cell concentrates by elutriation and were incubated for 3 days with granulocyte macrophage-colony stimulating factor and IL-4 to produce iDCs. iDCs from each subject were divided into 3 and were incubated for 24 hours with LPS plus IFN-gamma; LPS, IFN-gamma, plus IL-1beta; or LPS, IFN-gamma, IL-1beta, plus TNF-alpha to produce mDCs. The DCs were compared by measuring the expression of costimulator and antigen presenting molecules (CD80, CD83, CD86, and human leukocyte antigen-DR) by flow cytometry, cytokine production (IL-12p70 and IL-10) by enzyme-linked immunosorbent assay and global gene expression using an oligonucleotide microarray. There were no differences in the expression of costimulatory molecules, human leukocyte antigen-DR and CCR7 and production of IL-12p70 among the mDCs produced with the 3 cocktails. Global gene expression analysis found that the expression of 9576 genes differed between the iDCs and mDCs, but the expression of only 13 differed among the 3 different groups of mDCs. There was no benefit of adding IL-1beta and TNF-alpha to LPS and IFN-gamma to produce mDCs.
Isomerism and Adduct Stability in the Diels—Alder Reaction.1a I. The Adducts of Furan and Maleimide (1952)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIsomerism and Adduct Stability in the Diels—Alder Reaction.1a I. The Adducts of Furan and MaleimideHarold Kwart and Isabel BurchukCite this: J. Am. Chem. Soc. 1952, 74, 12, 3094–3097Publication Date (Print):June 1, 1952Publication History Published online1 May 2002Published inissue 1 June 1952https://pubs.acs.org/doi/10.1021/ja01132a042https://doi.org/10.1021/ja01132a042research-articleACS PublicationsRequest reuse permissionsArticle Views2480Altmetric-Citations80LEARN 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 optionsGet e-Alertsclose Get e-Alerts
Face recognition using the nearest feature line method (1999)

In this paper, we propose a novel classification method, called the nearest feature line (NFL), for face recognition. Any two feature points of the same class (person) are generalized by the feature line (FL) passing through the two points. The derived FL can capture more variations of face images than the original points and thus expands the capacity of the available database. The classification is based on the nearest distance from the query feature point to each FL. With a combined face database, the NFL error rate is about 43.7-65.4% of that of the standard eigenface method. Moreover, the NFL achieves the lowest error rate reported to date for the ORL face database.