gebhart/patrepeval huggingface dataset:
Utility of a Herpes Oncolytic Virus for the Detection of Neural Invasion By Cancer (2008)

Prostate, pancreatic, and head and neck carcinomas have a high propensity to invade nerves. Surgical resection is a treatment modality for these patients, but it may incur significant deficits. The development of an imaging method able to detect neural invasion (NI) by cancer cells may guide surgical resection and facilitate preservation of normal nerves. We describe an imaging method for the detection of NI using a herpes simplex virus, NV1066, carrying tyrosine kinase and enhanced green fluorescent protein (eGFP). Infection of pancreatic (MiaPaCa2), prostate (PC3 and DU145), and adenoid cystic carcinoma (ACC3) cell lines with NV1066 induced a high expression of eGFP in vitro. An in vivo murine model of NI was established by implanting tumors into the sciatic nerves of nude mice. Nerves were then injected with NV1066, and infection was confirmed by polymerase chain reaction. Positron emission tomography with [(18)F]-2'-fluoro-2'-deoxyarabinofuranosyl-5-ethyluracil performed showed significantly higher uptake in NI than in control animals. Intraoperative fluorescent stereoscopic imaging revealed eGFP signal in NI treated with NV1066. These findings show that NV1066 may be an imaging method to enhance the detection of nerves infiltrated by cancer cells. This method may improve the diagnosis and treatment of patients with neurotrophic cancers by reducing injury to normal nerves and facilitating identification of infiltrated nerves requiring resection.
Genus-Specific Detection of Alphaviruses by a Semi-Nested Reverse Transcription-Polymerase Chain Reaction (1997)

A reverse transcription-polymerase chain reaction (RT-PCR) was developed for the genus-specific detection of alphaviruses. Based on the available published sequences, degenerate primers were designed to ensure hybridization to a conserved region within the nonstructural protein 1 gene of all alphavirus species. The expected 434-basepair (bp) cDNA fragment was amplified from all 27 alphavirus species by using RNA extracted from 200 microl of infected cell culture supernatant. In addition, eight strains of Venezuelan equine encephalitis (VEE) virus and 10 strains of Sindbis virus were amplified. The viral origin of the amplicons was confirmed by restriction enzyme analysis and comparison with the expected cleavage pattern based on published sequence data. The PCR products of alphavirus species with thus far unknown nucleotide composition were sequenced. About 120 nucleotides downstream of the forward primer, a region showing sufficient homology for the design of another forward primer was found and used in a semi-nested PCR. The expected 310-bp semi-nested fragment was demonstrated for all viruses investigated. The sensitivity of the RT-PCR was about 1,200 plaque-forming units (PFU) for VEE virus reference strain Trinidad donkey. The detection limit after the semi-nested PCR was 1.2 PFU. The sensitivity was not hampered by the presence of human serum, thus making this test suitable for an application in viremic individuals. Chikungunya virus RNA was amplified from infected mouse brain tissue by the described RT-PCR assay. Our data suggest that the semi-nested RT-PCR may be applied as a highly sensitive alternative to virus isolation in the rapid screening and diagnosis of alphavirus infections, including post-mortem diagnosis. Phylogenetic analysis of the amplicon sequence data identified six genotypes within the Alphavirus genus.
Glutathione reductase is not required for maintenance of reduced glutathione in Escherichia coli K-12 (1985)

Seven independently isolated glutathione reductase-deficient (gor) Escherichia coli mutants were found to have an in vivo glutathione redox state that did not significantly differ from that of the parental strain, 98 to 99% reduced. Strains containing both a gor mutation and either a trxA mutation (thioredoxin deficient) or a trxB mutation (thioredoxin reductase deficient) were able to maintain a 94 to 96% reduced glutathione pool, suggesting that glutathione can be reduced independently of glutathione reductase and thioredoxin reductase.
Regulation of hepatic fasting response by PPARγ coactivator-1α (PGC-1): Requirement for hepatocyte nuclear factor 4α in gluconeogenesis (2003)

The liver plays several critical roles in the metabolic adaptation to fasting. We have shown previously that the transcriptional coactivator peroxisome proliferator-activated receptor gamma coactivator-1alpha (PGC-1alpha) is induced in fasted or diabetic liver and activates the entire program of gluconeogenesis. PGC-1alpha interacts with several nuclear receptors known to bind gluconeogenic promoters including the glucocorticoid receptor, hepatocyte nuclear factor 4alpha (HNF4alpha), and the peroxisome proliferator-activated receptors. However, the genetic requirement for any of these interactions has not been determined. Using hepatocytes from mice lacking HNF4alpha in the liver, we show here that PGC-1alpha completely loses its ability to activate key genes of gluconeogenesis such as phosphoenolpyruvate carboxykinase and glucose-6-phosphatase when HNF4alpha is absent. It is also shown that PGC-1alpha can induce genes of beta-oxidation and ketogenesis in hepatocytes, but these effects do not require HNF4alpha. Analysis of the glucose-6-phosphatase promoter indicates a key role for HNF4alpha-binding sites that function robustly only when HNF4alpha is coactivated by PGC-1alpha. These data illustrate the involvement of PGC-1alpha in several aspects of the hepatic fasting response and show that HNF4alpha is a critical component of PGC-1alpha-mediated gluconeogenesis.
The Presence and Role of the Tetrodotoxin-Resistant Sodium Channel Nav1.9 (NaN) in Nociceptive Primary Afferent Neurons (2002)

This is the first examination of sensory receptive properties and associated electrophysiological properties in vivo of dorsal root ganglion (DRG) neurons that express the TTX-resistant sodium channel Na(v)1.9 (NaN). Intracellular recordings in lumbar DRGs in Wistar rats enabled units with dorsal root C-, Adelta-, or Aalpha/beta-fibers to be classified as nociceptive, low-threshold mechanoreceptive (LTM), or unresponsive. Intracellular dye injection enabled subsequent immunocytochemistry for Na(v)1.9-like immunoreactivity (Na(v)1.9-LI). Na(v)1.9-LI was expressed selectively in nociceptive-type (C- and A-fiber nociceptive and C-unresponsive) units. Of the nociceptive units, 64, 54, and 31% of C-, Adelta-, and Aalpha/beta-fiber units, respectively, were positive for Na(v)1.9-LI. C-unresponsive units were included in the nociceptive-type group on the basis of their nociceptor-like membrane properties; 91% were positive. Na(v)1.9-LI was undetectable in Adelta- or Aalpha/beta-fiber LTM units and in one C-LTM unit. Na(v)1.9-LI intensity was correlated negatively with soma size and conduction velocity in nociceptive units and with conduction velocity in C-fiber units. There was a positive correlation with action potential rise time in nociceptive-type units with membrane potentials equal to or more negative than -50 mV. The data provide direct evidence that Na(v)1.9 is expressed selectively in (but not in all) C- and A-fiber nociceptive-type units and suggest that Na(v)1.9 contributes to membrane properties that are typical of nociceptive neurons.
Ethanol production by extractive fermentation (1982)

Abstract The ideal method to produce a terminal metabolite inhibitor of cell growth and production is to remove and recover it from the fermenting broth as it formed. Extractive fermentation is achieved in the case of ethanol production by coupling both fermentation and liquid‐liquid extraction, The solvent of extraction is 1‐dodecanol (or a mixture 1‐dedecanol, 1‐tetradecanol); study of the inhibitory effect of primary aliphatic alcohols of different chain lengths shows that no growth is observed in the presence of alcohols which have between 2 and 12 carbons. This effect is suppressed when the carbon number is 12 or higher. A new reactor has been used–1 pulsed packed column. Pulsation is performed pneumatically. Porous material used as a package adsorbs the cells. The fermentation broth is pulsed in order to (1) increase the interfacial area between the aqueous phase and the dodecanol, (2) decrease gas holdup. Alcoholic fermentation, performed at 35°C on glucose syrup, permits the total utilization of glucose solution of 409 g/L with a yeast which cannot–in classical process– completely use solutions with 200 g/L of glucose. The feasibility of a new method of fermentation coupling both liquid‐liquid extraction and fermentation is demonstrated. Extension of this method is possible to any microbial production inhibited by its metabolite excretion.
The role of CD95 in the regulation of peripheral T‐cell apoptosis (2003)

Apoptosis of activated peripheral T cells during the termination phase of an immune response is critical to maintain T-cell homeostasis. Activated T cells can be removed by two mechanisms: activation-induced cell death (AICD) and death by neglect. AICD is triggered by death receptors, whereas death by neglect is induced by cytokine withdrawal. CD95 (APO-1/Fas) belongs to the subfamily of death receptors and plays a major role in AICD. In this review, we focus on the molecular mechanisms of AICD, in particular those involving the CD95 system. Moreover, we discuss the relative contribution of AICD and death by neglect to terminate a T-cell immune response. In order to become fully activated, T cells require a second signal provided by antigen-presenting cells. We discuss how these costimulatory signals counteract pro-apoptotic signals and, finally, which signals might protect T cells from death to generate a pool of memory T cells.
Current Concepts in Mild Cognitive Impairment (2001)

The field of aging and dementia is focusing on the characterization of the earliest stages of cognitive impairment. Recent research has identified a transitional state between the cognitive changes of normal aging and Alzheimer's disease (AD), known as mild cognitive impairment (MCI). Mild cognitive impairment refers to the clinical condition between normal aging and AD in which persons experience memory loss to a greater extent than one would expect for age, yet they do not meet currently accepted criteria for clinically probable AD. When these persons are observed longitudinally, they progress to clinically probable AD at a considerably accelerated rate compared with healthy age-matched individuals. Consequently, this condition has been recognized as suitable for possible therapeutic intervention, and several multicenter international treatment trials are under way. Because this is a topic of intense interest, a group of experts on aging and MCI from around the world in the fields of neurology, psychiatry, geriatrics, neuropsychology, neuroimaging, neuropathology, clinical trials, and ethics was convened to summarize the current state of the field of MCI. Participants reviewed the world scientific literature on aging and MCI and summarized the various topics with respect to available evidence on MCI. Diagnostic criteria and clinical outcomes of these subjects are available in the literature. Mild cognitive impairment is believed to be a high-risk condition for the development of clinically probable AD. Heterogeneity in the use of the term was recognized, and subclassifications were suggested. While no treatments are recommended for MCI currently, clinical trials regarding potential therapies are under way. Recommendations concerning ethical issues in the diagnosis and the management of subjects with MCI were made.
Biorthogonal and nonuniform lapped transforms for transform coding with reduced blocking and ringing artifacts (1998)

New lapped transforms are introduced. The lapped biorthononal transform (LBT) and hierarchical lapped biorthogonal transform (HLBT) are appropriate for image coding, and the modulated HLBT biorthogonal transform (MMLBT) and nonuniform modulated lapped biorthogonal transform (NMLBT) are appropriate for audio coding. The HLBT has a significantly lower computational complexity than the lapped orthogonal transform (LOT), essentially no blocking artifacts, and fewer ringing artifacts than the commonly used discrete cosine transform (DCT). The LBT and HLBT have transform coding gains that are typically between 0.5 and 1.2 dB higher than that of the DCT. Image coding examples using JPEG and embedded zerotree coders demonstrate the better performance of the LET and HLBT. The NMLBT has fewer ringing artifacts and better reproduction of transient sounds than the MLT, as shown in audio coding examples. Fast algorithms for both the HLBT and the NMLBT are presented.
Molecular Evolution of a Type 1 Wild-Vaccine Poliovirus Recombinant during Widespread Circulation in China (2000)

Type 1 wild-vaccine recombinant polioviruses were isolated from poliomyelitis patients in China from 1991 to 1993. We compared the sequences of 34 recombinant isolates over the 1,353-nucleotide (nt) genomic interval (nt 2480 to 3832) encoding the major capsid protein, VP1, and the protease, 2A. All recombinants had a 367-nt block of sequence (nt 3271 to 3637) derived from the Sabin 1 oral poliovirus vaccine strain spanning the 3'-terminal sequences of VP1 (115 nt) and the 5' half of 2A (252 nt). The remaining VP1 sequences were closely (up to 99.5%) related to those of a major genotype of wild type 1 poliovirus endemic to China up to 1994. In contrast, the non-vaccine-derived sequences at the 3' half of 2A were more distantly related (<90% nucleotide sequence match) to those of other contemporary wild polioviruses from China. The vaccine-derived sequences of the earliest (April 1991) isolates completely matched those of Sabin 1. Later isolates diverged from the early isolates primarily by accumulation of synonymous base substitutions (at a rate of approximately 3.7 x 10(-2) substitutions per synonymous site per year) over the entire VP1-2A interval. Distinct evolutionary lineages were found in different Chinese provinces. From the combined epidemiologic and evolutionary analyses, we propose that the recombinant virus arose during mixed infection of a single individual in northern China in early 1991 and that its progeny spread by multiple independent chains of transmission into some of the most populous areas of China within a year of the initiating infection.
ACOG Practice Bulletin No. 89: Elective and Risk-Reducing Salpingooophorectomy (2008)

© 2008 by The American College of Obstetricians and Gynecologists. Published by Wolters Kluwer Health, Inc. All rights reserved.
Isolation of LUMINIDEPENDENS: a gene involved in the control of flowering time in Arabidopsis. (1994)

Plants have evolved the ability to regulate flowering in response to environmental signals such as temperature and photoperiod. The physiology and genetics of floral induction have been studied extensively, but the molecular mechanisms that underlie this process are poorly understood. To study this process, we isolated a gene, LUMINIDEPENDENS (LD), that is involved in the timing of flowering in Arabidopsis. Mutations in this gene render Arabidopsis late flowering and appear to affect light perception. The late-flowering phenotype of the ld mutation was partially suppressed by vernalization. Genomic and cDNA clones of the LD gene were characterized. The predicted amino acid sequence of the LD protein contains 953 residues and includes two putative bipartite nuclear localization signals and a glutamine-rich region.
<title>Distributed file management for remote clinical image-viewing stations</title> (1996)

The Geneva PACS is based on a distributed architecture, with different archive servers used to store all the image files produced by digital imaging modalities. Images can then be visualized on different display stations with the Osiris software. Image visualization require to have the image file physically present on the local station. Thus, images must be transferred from archive servers to local display stations in an acceptable way, which means fast and user friendly where the notion of file must be hidden to users. The transfer of image files is done according to different schemes including prefetching and direct image selection. Prefetching allows the retrieval of previous studies of a patient in advance. A direct image selection is also provided in order to retrieve images on request. When images are transferred locally on the display station, they are stored in Papyrus files, each file containing a set of images. File names are used by the Osiris viewing software to open image sequences. But file names alone are not explicit enough to properly describe the content of the file. A specific utility has been developed to present a list of patients, and for each patient a list of exams which can be selected and automatically displayed. The system has been successfully tested in different clinical environments. It will be soon extended on a hospital wide basis.
The Inhibitory Glycine Receptor — Simple Views of a Complicated Channel (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Personalized peptide vaccines: A new therapeutic modality for cancer (2006)

Therapeutic cancer vaccines have enjoyed little success so far, although many clinical trials have been conducted. Therefore, the creation of new protocols capable of inducing an objective response is required. We examined two of these protocols in the present review. The first is a personalized protocol to take into account the immunological diversity of cytotoxic T lymphocyte responses among patients. The second is a combination therapy designed to adapt to the presence of major histocompatibility complex (MHC)-loss cancer cells. The objective response rates of our classical (non-personalized) peptide vaccines were 0%, whereas that of personalized vaccines was 11.1% in the total advanced cancers and > or = 20% in malignant glioma and cervical cancers, respectively. A > or = 50% decrease in serum prostate-specific antigen (PSA) was seen in 8.7% of advanced hormone refractory prostate cancer patients by personalized vaccination alone, whereas such a decrease was seen in 54% of patients when the personalized vaccination was combined with a low dose of estramustine. Based on these experiences, we propose a personalized peptide vaccine combined with chemotherapy as a new treatment modality for cancers.
Introduction: Two Systems in Crisis (1997)

Even if the industrial relations crisis is perceived to have been in the making for a relatively long period, the US industrial relations system can still be described as having been ‘in crisis’ for a long time previous. Unionization — specifically ‘density’ or the ratio of employed salary and wage earners in unions — and collective bargaining have been on a decline in the USA since density figures have resembled those that were seen during the Great Depression. The British ‘crisis’ is more recent, it happened when the labour movement initiated a shift of unionization to a style seen in the USA. Other indications of this crisis include unemployment rates, the reappearance of poverty, and insecurity. Since the early 1970s, the real pay of most workers has been cut significantly because of the deductions of benefits and the undermining of welfare entitlements. This chapter illustrates the crisis of both the USA and Britain and draws attention to the need for the study of comparative industrial relations.
Kif7 regulates Gli2 through Sufu-dependent and -independent functions during skin development and tumorigenesis (2012)

Abnormal activation of Hedgehog (Hh) signaling leads to basal cell carcinoma (BCC) of the skin, the most common human cancer. Gli2, the major transcriptional activator of Hh signaling, is essential for hair follicle development and its overexpression in epidermis induces BCC formation and maintains tumor growth. Despite its importance in skin development and tumorigenesis, little is known about the molecular regulation of Gli2. Sufu and Kif7 are two evolutionarily conserved regulators of Gli transcription factors. Here, we show that Sufu and Kif7 regulate Gli2 through distinct mechanisms in keratinocytes. Sufu restricts the activity of Gli2 through cytoplasmic sequestration. Kif7 possesses Sufu-dependent and -independent regulatory functions in Hh signaling: while it promotes Hh pathway activity through the dissociation of Sufu-Gli2 complex, it also contributes to the repression of Hh target genes in the absence of Sufu. Deletion of both Sufu and Kif7 in embryonic skin leads to complete loss of follicular fate. Importantly, although inactivation of Sufu or Kif7 alone in adult epidermis cannot promote BCC formation, their simultaneous deletion induces BCC. These studies establish Sufu and Kif7 as crucial components in the regulation of Gli2 localization and activity, and illustrate their overlapping functions in skin development and tumor suppression.
A new approach to signal classification using spectral correlation and neural networks (2005)

Channel sensing and spectrum allocation has long been of interest as a prospective addition to cognitive radios for wireless communications systems occupying license-free bands. Conventional approaches to cyclic spectral analysis have been proposed as a method for classifying signals for applications where the carrier frequency and bandwidths are unknown, but is, however, computationally complex and requires a significant amount of observation time for adequate performance. Neural networks have been used for signal classification, but only for situations where the baseband signal is present. By combining these techniques a more efficient and reliable classifier can be developed where a significant amount of processing is performed offline, thus reducing online computation. In this paper we take a renewed look at signal classification using spectral coherence and neural networks, the performance of which is characterized by Monte Carlo simulations
miRNA-708 Control of CD44+ Prostate Cancer–Initiating Cells (2012)

Tumor recurrence in prostate cancer has been attributed to the presence of CD44-expressing tumor-initiating cells. In this study, we report that miR-708 is a key negative regulator of this CD44(+) subpopulation of prostate cancer cells, with important implications for diagnosis and prognosis of this disease. miR-708 was underexpressed in CD44(+) cells from prostate cancer xenografts. Reconstitution of miR-708 in prostate cancer cell lines or CD44(+) prostate cancer cells led to decreased tumorigenicity in vitro. Intratumoral delivery of synthetic miR-708 oligonucleotides triggered regression of established tumors in a murine xenograft model of human prostate cancer. Conversely, miR-708 silencing in a purified CD44(-) population of prostate cancer cells promoted tumor growth. Functional studies validated CD44 to be a direct target of miR-708 and also identified the serine/threonine kinase AKT2 as an additional target. Clinically, low miR-708 expression was associated significantly with poor survival outcome, tumor progression, and recurrence in patients with prostate cancer. Together, our findings suggest that reduced miR-708 expression leads to prostate cancer initiation, progression, and development by regulating the expression of CD44 as well as AKT2. miR-708 therefore may represent a novel therapeutic target or diagnostic and prognostic biomarker in prostate cancer.