gebhart/patrepeval huggingface dataset:
Cancer Vaccines and Immunotherapy (2000)

Rapid progress in the definition of tumour antigens, and improved immunisation methods, bring effective cancer vaccines within reach. In this wide-ranging survey, clinicians and scientists at the forefront of these developments review therapeutic cancer vaccine strategies against a variety of diseases and molecular targets. Intended for an interdisciplinary readership, chapters cover the rationale, development and implementation of vaccines in human cancers generally, and with specific reference to cancer of the cervix, breast, colon, bladder, and prostate, and to melanoma and lymphoma. Target identification, delivery vectors and clinical trial design are reviewed, and the book begins and ends with lucid overviews from the editors, including the most recent developments. Encapsulating recent scientific progress and the likely clinical potential of cancer vaccines, this book provides an essential introduction and guide for oncologists, immunologists and indeed all clinicians treating cancer patients.
Enhanced Expression of Matrix Metalloproteinase‐9 in Abdominal Aortic Aneurysms (2001)

Abdominal aortic aneurysms (AAAs) are characterized by structural alterations of the aortic wall resulting from degradation of collagen and elastin. Matrix metalloproteinases (MMPs), particularly MMP-2 and MMP-9, show strong elastinolytic activity. We examined the levels of mRNA for MMP-2, MMP-9, membrane type (MT)-MMP-1, tissue inhibitor of metalloproteinase-1 (TIMP-1), and TIMP-2 in AAAs (n = 8), atherosclerotic occlusive diseases (AOD) (n = 8), and normal subjects (n = 8) using the reverse transcription-polymerase chain reaction (RT-PCR). We also analyzed the gelatinolytic activity of these metalloproteinases using gelatin zymography. The levels of MMP-2 and MMP-9 mRNA were increased in the AAA group compared with those in the AOD group and normal subjects. The levels for TIMP-1 and TIMP-2 mRNA in the AAA group were also higher than those in the AOD and normal groups. Only in the case of MT-MMP-1 was the difference between AAA and AOD not statistically significant. By gelatin zymography with the same samples used for RT-PCR, gelatinolytic activity of MMP-9 was elevated in all AAA tissues. The 62-kDa form of MMP-2 was elevated in both the AAA and AOD groups and did not differ significantly between them. Linear regression analysis demonstrated a significant positive correlation between mRNA levels of MMPs and those of TIMPs. These observations suggest that aneurysm formation in patients with atherosclerosis is related to the degree of MMP-9 expression.
Amplification, overexpression, and rearrangement of the erbB-2 protooncogene in primary human stomach carcinomas. (1989)

Four of 51 primary gastric carcinomas exhibited amplification of the erbB-2 protooncogene ranging from 2- to 8-fold. In three cases gene amplification affected erbB-2 alleles of normal gene structure as determined by Southern blot analysis. In addition, one tumor displayed gene amplification of an apparently rearranged erbB-2 allele. Analysis of the rearranged allele revealed a structural alteration consistent with an internal deletion of approximately 2 kilobase pairs within the erbB-2 gene. Quantitation of erbB-2 mRNA in these tumors demonstrated that gene amplification coincided with overexpression of erbB-2 mRNA ranging from 8- to 32-fold above levels observed in stomach tumors without gene amplification. Furthermore, in one of the tumors with amplified normal size erbB-2 restriction fragments, elevated erbB-2 mRNA levels consisted of the normal size 5-kilobase transcript. Thus, overexpression of normal size erbB-2 mRNA accompanies gene amplification in primary stomach tumors. In addition, evidence for erbB-2 gene rearrangement suggests a role for such alteration in the development of certain gastric carcinomas.
Role of pilA, an essential regulatory gene of Neisseria gonorrhoeae, in the stress response (1992)

Sequence analysis has shown that PilA, a transcriptional regulator of pilin gene expression in Neisseria gonorrhoeae, has extensive homology with the 54-kDa protein of the signal recognition particle of eukaryotes and its receptor, as well as with two proteins of Escherichia coli, FtsY and Ffh, which have been proposed to be a part of a signal recognition particle-like apparatus. We tested the putative role of PilA in protein export in N. gonorrhoeae and did not find any effect. However, we did observe induction of a heat shock response and a previously described slow-growth phenotype when PilA function was impaired. We also examined the interference of pilA expression in E. coli with the function of the products of ftsY and ffh and observed an accumulation of pre-beta-lactamase. We argue against a direct role for PilA in protein export in gonococci and propose instead that PilA is involved in the modulation of cell growth rate in response to different environmental conditions.
Phase-Resolved Fiber-Optics Fluoroimmunosensor (1990)

This paper describes the development and application of a phase-resolved fiber-optics fluoroimmunosensor (PR-FIS), which combines the biochemical specificity of antigen-antibody reaction, the high sensitivity of laser excitation, the versatility of fiber-optics sensors, and the selectivity of phase-resolved detection. The PR-FIS device can differentiate benzo(a)pyrene and benzo(a)pyrene tetrol, a DNA-adduct product of the carcinogen benzo(a)pyrene. Benzo(a)pyrene tetrol can be detected at femtomole levels in the presence of an amount of interfacing benzo(a)pyrene that is 50-fold more concentrated.
The object primer (1995)

From the Publisher:
The Object Primer is the ultimate introductory text on object-oriented (OO) technology. By reading this book, you will gain a solid understanding of object-oriented concepts and object-oriented analysis techniques. Written by a developer for developers (not in the language of academia), this book will introduce you to object-oriented design within the context of class modeling. It begins with a description of why developers and their organizations want to take advantage of the object-oriented approach, then moves to issues like CRC Cards, use cases, and class modeling.
Transgenic indicator mice for studying activated retinoic acid receptors during development. (1992)

Retinoic acid (RA) receptors (RARs) are ligand-inducible transcription factors that bind to specific DNA sequences associated with the regulatory regions of RA-regulatable genes. Since RA has been implicated as an important factor both in normal development and in teratological studies, one would like to have a model system that detects the presence of activated receptors during development. We have constructed a recombinant reporter gene that has three copies of the RA response element (RARE) from the RAR beta-2 promoter 5' to the herpes simplex virus thymidine kinase promoter; this regulatory region is coupled to the bacterial beta-galactosidase reporter gene. This construct was RA inducible in transient transfection assays in F9 embryonal carcinoma cells. Transgenic embryos with this reporter gene construct exhibited restricted and reproducible patterns of beta-galactosidase activity during embryogenesis, beginning between gestational ages day 7.5 and 8.5. At day 8.5, beta-galactosidase activity was detected in the closed neurotube and somites. Day 8.5 embryos, from pregnant females fed RA 14 hr earlier, exhibited a greater intensity and distribution of beta-galactosidase activity. Similarly, at later stages of gestation, maternal RA exposure resulted in enhanced embryonic beta-galactosidase expression. This type of transgenic indicator mouse should be useful in detailing the role of activated RARs during embryonic development.
Expression of Rhizobium Chitin Oligosaccharide Fucosyltransferase in Zebrafish Embryos Disrupts Normal Developmenta, (1998)

In this report we present data about the effect of the Rhizobium NodZ enzyme on zebrafish development. We injected zebrafish embryos with a plasmid expressing NodZ protein, and we confirmed that the enzyme is active and has chitin oligosaccharide fucosyltransferase (NodZ) activity in vitro. In addition, the embryos injected with the NodZ-expressing plasmid, but not with a control plasmid, showed malformations or bends in the tail, and in some cases shunted tail structures and fused somites. These results clearly indicate that the likely substrates for this enzyme, chitin oligosaccharides and free N-glycans, have essential functions during early vertebrate embryogenesis.
Effects of electrode location on myoelectric conduction velocity and median frequency estimates (1986)

The effect of surface electrode location on the estimates of the median frequency and conduction velocity of the myoelectric signal was investigated. The locations were identified with respect to the innervation zone and the tendonous portion of the tibialis anterior muscle. Considerable modifications in the median frequency and conduction velocity parameters were noted. The highest values of the median frequency occurred at the region of the innervation zone and tendonous insertion of the muscle, and decreased proportionally with distance from these areas. The rate of change of median frequency was not effected by electrode location. Estimates of conduction velocity were most stable in a region between the distal tendon and the adjacent innervation zone. This region also provided the best linear fit when comparing conduction velocity to median frequency estimates. The implications for signal detection procedures are discussed.
Analysis of the expression of PHTF1 and related genes in acute lymphoblastic leukemia (2015)

PHTF1 overexpression is responsible for regulating cell proliferation and apoptosis in T-ALL cell lines. PHTF1 may be a tumor-suppressor like gene and a therapeutic target for triggering the PHTF1-FEM1b-Apaf-1 apoptosis pathway.
Sildenafil Inhibits Phosphodiesterase Type 5 in Human Clitoral Corpus Cavernosum Smooth Muscle (1998)

Phosphodiesterases play an important physiological role by regulating the intracellular levels of cyclic nucleotides. In this study, we investigated the kinetic parameters of inhibition of phosphodiesterase (PDE) type 5 (EC 3.1.4.35, 3',5'-cyclic GMP phosphodiesterase) by a novel, high-affinity, selective PDE type 5 inhibitor, sildenafil, in intact cells and in soluble extracts of human clitoral corpus cavernosum smooth muscle cells. Sildenafil inhibited cGMP hydrolysis in the crude extract (Ki = 7.2 +/- 2.7) and in partially purified preparations (Ki = 9 nM) in a competitive manner, as determined by Dixon plots. Sildenafil was a more effective PDE type 5 inhibitor than zaprinast (Ki = 400.0 +/- 76.4 nM, crude extracts; 250 nM, partially purified). Stimulation of intracellular cGMP synthesis by the nitric oxide donor sodium nitroprusside resulted in a 3.3- and 2.9-fold increase in cGMP concentration in the presence of sildenafil or zaprinast, respectively, compared to sodium nitroprusside treatment alone in intact cells at physiological temperatures. These observations suggest that human clitoral corpus cavernosum smooth muscle tone may be regulated by the synthesis and release of nitric oxide and that this pathway is dependent on PDE type 5 activity.
Incidence, Presentation, and Prognosis of Malignancies in Ataxia-Telangiectasia: A Report From the French National Registry of Primary Immune Deficiencies (2014)

B-cell NHL, HL, and acute lymphoblastic leukemia occur at a high rate and earlier age than carcinomas in AT. T-PLLs are rarer than initially reported. Prognosis is poor, but patients may benefit from treatment with an improved survival.
Endothelial dysfunction in diabetes (2000)

Endothelial dysfunction plays a key role in the pathogenesis of diabetic vascular disease. The endothelium controls the tone of the underlying vascular smooth muscle through the production of vasodilator mediators. The endothelium-derived relaxing factors (EDRF) comprise nitric oxide (NO), prostacyclin, and a still elusive endothelium-derived hyperpolarizing factor (EDHF). Impaired endothelium-dependent vasodilation has been demonstrated in various vascular beds of different animal models of diabetes and in humans with type 1 and 2 diabetes. Several mechanisms of endothelial dysfunction have been reported, including impaired signal transduction or substrate availibility, impaired release of EDRF, increased destruction of EDRF, enhanced release of endothelium-derived constricting factors and decreased sensitivity of the vascular smooth muscle to EDRF. The principal mediators of hyperglycaemia-induced endothelial dysfunction may be activation of protein kinase C, increased activity of the polyol pathway, non-enzymatic glycation and oxidative stress. Correction of these pathways, as well as administration of ACE inhibitors and folate, has been shown to improve endothelium-dependent vasodilation in diabetes. Since the mechanisms of endothelial dysfunction appear to differ according to the diabetic model and the vascular bed under study, it is important to select clinically relevant models for future research of endothelial dysfunction.
Fluorescence Energy Transfer Study of the Conformation of Oligonucleotides Covalently Bound to Polystyrene Latex Particles (1997)

Steady state fluorescence energy transfer experiments were carried out to probe the conformation of single-stranded DNA oligomers covalently bound to the surface of polystyrene latex microspheres. These oligonucleotides can adopt various conformations, from an adsorbed conformation on the latex particle surface to a brush conformation. To study this system, a donor of energy transfer (fluorescein) was covalently attached to the free ends of the oligonucleotides, and an acceptor of energy transfer (tetramethylrhodamine) was covalently bound to the latex surface. The extent of resonance energy transfer was found to be more effective at low pH and low ionic strength, reflecting a shorter distance between the free ends of the oligonucleotides and the latex particle surface. In contrast, the oligonucleotides move away from the surface at basic pH or high ionic strength, becoming more accessible for hybridization with complementary DNA strands and exhibiting less energy transfer. The addition of surfactant, or the presence of a large number of grafted oligonucleotides per latex particle, also promotes a brush conformation.
Elemental Sulfur as a Reactive Medium for Gold Nanoparticles and Nanocomposite Materials (2011)

Get yellow: The utilization of elemental sulfur as an unconventional medium for the synthesis and stabilization of colloidal gold is reported. In this system, sulfur serves multiple functions to sulfurate PPh3, solubilize and reduce AuI precursors into Au nanoparticles (NPs; see picture). Direct vulcanization of sulfur dispersions of AuNPs afforded cross-linked nanocomposites as confirmed by TEM, XRD, XPS, and Raman spectroscopy. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Induction of Oxidative Stress by Okadaic Acid Is Required for Activation of Transcription Factor NF-κB (1995)

The widely used phosphatase 1 and 2A inhibitor okadaic acid is one of the many stimuli activating transcription factor NF-kappa B in cultured cells. Phosphorylation of I kappa B-alpha, one of NF-kappa B's inhibitory subunits, is a prerequisite for I kappa B degradation and the subsequent liberation of transcriptionally active NF-kappa B. This observation suggested that the phosphorylation status of I kappa B is influenced by an okadaic acid-sensitive phosphatase. In this study, we provide evidence that the effect of okadaic acid on NF-kappa B activation is indirect and dependent on the production of reactive oxygen intermediates rather than the inhibition of an I kappa B-alpha phosphatase. Okadaic acid was found to be a strong inducer of cellular H2O2 and superoxide production in two distinct cell lines. The structurally unrelated phosphatase inhibitor calyculin A also induced oxidative stress. The delayed onset of reactive oxygen production in response to okadaic acid correlated with the delayed activation of NF-kappa B. Moreover, NF-kappa B induction was optimal at the same okadaic acid concentration that caused optimal H2O2 production. Both reactive oxygen intermediates production and NF-kappa B activation were inhibited by the antioxidant pyrrolidine dithiocarbamate and 8-(diethylamino)octyl-3,4,5-trimethyoxybenzoate, a Ca2+ chelator. Future experiments using phosphatase inhibitors in intact cells must consider that the compounds can act as strong inducers of oxidative stress, which provides one explanation for their tumor-promoting activity.
IL-12 is both required and sufficient for initiating T cell reactivity to a class I-restricted tumor peptide (P815AB) following transfer of P815AB-pulsed dendritic cells (1996)

Delayed-type hypersensitivity responses, mediated by CD8+ cells and detected by skin test assay, occur in sensitized mice in response to challenge with a class I-restricted synthetic peptide related to a poorly immunogenic tumor rejection Ag, P815AB, of murine mastocytoma cells. Efficient priming for this response, which requires functional CD4+ cells and production of IFN-gamma in the host, is achieved by transfer of dendritic cells (DC) pulsed in vitro with a physical mixture of P815AB and T helper peptides, such as a class II-restricted synthetic peptide of tetanus toxin. We now show that the adjuvant effect of the T helper peptide was associated with the appearance of early and late IL-12 transcripts in the spleens of DC recipient mice, correlated with a late IFN-gamma response, and was negated by serologic ablation of endogenous IL-12 at the time of cell transfer. rIL-12, administered in vivo to the DC recipient mice, could substitute for the T helper peptide in initiating skin test reactivity following transfer of DC pulsed with P815AB alone, leading to Ag-specific production of IFN-gamma by CD4+ and CD8+ T cells. In vitro and in vivo cell depletion experiments suggested the following: 1) the exogenous IL-12 required both CD4+ and CD8+ cells for activity; 2) the immune response initiated by IL-12 relied on later production of IL-12 by the host; and 3) the early adjuvanticity of the exogenous IL-12 involved improved recognition of class II-restricted epitopes of this otherwise poorly immunogenic tumor peptide.
Rapid Detection of Adenovirus in Throat Swab Specimens by PCR during Respiratory Disease Outbreaks among Military Recruits (2003)

We evaluated the performance of a generic PCR test to detect adenoviruses (AdV) in throat swab specimens collected from asymptomatic and ill military recruits with acute respiratory disease. Samples (n = 210) were collected at entry to basic training and at the time of large outbreaks of AdV-associated acute respiratory disease among military recruits at Fort Jackson, South Carolina, from 1997 to 1998. Compared to cell culture, a sensitivity of 99% and a specificity of 98% were noted for the PCR method to detect AdV in throat swabs. Similar results were obtained with or without DNA extraction, suggesting the absence of significant inhibitors for the PCR method in throat swab samples. No AdV was detected by culture or PCR in throat swabs from healthy recruits, suggesting the absence of latency or asymptomatic shedding. Throat swab specimens proved to be adequate, noninvasive samples to rapidly diagnose respiratory disease in young adults. This generic direct PCR proved to be a useful test for the rapid diagnosis of AdV-associated respiratory disease, detecting all serotypes tested to date and furnishing results within 6 h of specimen arrival. The use of this direct, rapid, sensitive, and specific assay would assist health care providers and public health practitioners in the early diagnosis, management, and control of AdV-associated respiratory disease.
Executing SOA: A Practical Guide for the Service-Oriented Architect (2008)

The Expert, Practical Guide to Succeeding with SOA in the Enterprise In Executing SOA, four experienced SOA implementers share realistic, proven, from-the-trenches guidance for successfully delivering on even the largest and most complex SOA initiative. This book follows up where the authors best-selling Service-Oriented Architecture Compass left off, showing how to overcome key obstacles to successful SOA implementation and identifying best practices for all facets of executiontechnical, organizational, and human. Among the issues it addresses: introducing a services discipline that supports collaboration and information process sharing; integrating services with preexisting technology assets and strategies; choosing the right roles for new tools; shifting culture, governance, and architecture; and bringing greater agility to the entire organizational lifecycle, not just isolated projects. Executing SOA is an indispensable resource for every enterprise architect, technical manager, and IT leader tasked with driving value from SOA in complex environments. Coverage includes Implementing SOA governance that reflects the organizations strategic and business focus Running SOA projects successfully: practical guidelines and proven methodologies around service modeling and design Leveraging reusable assets: making the most of your SOA repository Enabling the architect to choose the correct tools and products containing the features required to execute on the SOA method for service design and implementation Defining information services to get the right information to the right people at the right time Integrating SOA with Web 2.0 and other innovative products and solutions Providing highly usable human interfaces in SOA environments
The Heterogeneous Allelic Repertoire of Human Toll-Like Receptor (TLR) Genes (2009)

Toll-Like Receptors (TLR) are critical elements of the innate arm of the vertebrate immune system. They constitute a multigenic family of receptors which collectively bind a diverse array of--exogeneous as well as endogeneous--ligands. An exponential burst of knowledge has defined their biological role in fight against infections and generation/modulation of auto-immune disorders. Hence, they could at least be conceptually recognized--despite being structurally unrelated - as innate counterparts to Major Histocompatibility Complex (MHC) molecules--equally recognizing antigenic ligands (albeit structurally more homogeneous i.e., peptides), again derived from self and/or non-self sources--preeminent this time in adaptive immunity. Our great disparities in face of infections and/or susceptibility to auto-immune diseases have provoked an intense search for genetic explanations, in part satisfied by the extraordinary MHC allelic repertoire. An equally in-depth and systematic analysis of TLR diversity is lacking despite numerous independent reports of a growing number of SNPs within these loci. The work described here aims at providing a preliminary picture of the allelic repertoire--and not purely SNPs--of all 10 human TLR coding sequences (with exception of TLR3) within a single cohort of up to 100 individuals. It appears from our work that TLR are unequally polymorphic: TLR2 (DNA alleles: 7/protein alleles: 3), 4 (4/3), 7 (6/3), 8 (9/2) and 9 (8/3) being comparatively least diverse whereas TLR1 (11/10), 5 (14/12), 6 (10/8) and 10 (15/10) show a substantial number of alleles. In addition to allelic assignment of a large number of SNPs, 10 new polymorphic positions were hereby identified. Hence this work depicts a first overview of the diversity of almost all human TLR genes, a prelude for large-scale population genetics as well as genetic association studies.