gebhart/patrepeval huggingface dataset:
MAR1—A REGULATOR OF THE HM a AND HMα LOCI IN SACCHAROMYCES CEREVISIAE (1979)

A mutation in the MAR1 (mating-type regulator) locus causing sterility in Saccharomyces cerevisiae is reported. The mutation maps on the left arm of linkage group IV between trp1 and cdc2 at a distance of about 27 cM from trp1 and about 31 cM from cdc2. Haploid strains with genotype MATalpha HMalpha HMa mar1-1 and MATa HMalpha HMamar1-1 are sterile. However, MATalpha hmalpha HMa mar1-1 and MATa HMalpha hma mar1-1 strains exhibit alpha and a mating type, respectively. The sterile strains can be "rare mated" with standard strains as a consequence of mutational changes at HMa and HMalpha. It is proposed that the MAR1 locus blocks the expression of MATalpha and MATa information thought to exist at HMa and HMalpha loci, respectively (Hicks, Strathern and Herskowitz, 1977). In a mar1-1 mutant, the expression of both HMalpha and HMa information leads to a nonmating phenotype similar to that of MATa/MATalpha diploids. The genetic evidence reported here is consistent with a central feature of the "cassette model", namely that HMalpha and hma carry MATa information and HMa and hmalpha carry MATalpha information.
A Short History of the Polymerase Chain Reaction (2003)

The development of the polymerase chain reaction (PCR) has often been likened to the development of the Internet, and although this does risk overstating the impact of PCR outside the scientific community, the comparison works well on a number of levels. Both inventions have emerged in the last 20 years to the point where it is difficult to imagine life without them. Both have grown far beyond the confines of their original simple design and have created opportunities unimaginable before their invention. Both have also spawned a whole new vocabulary and professionals literate in that vocabulary. It is hard to believe that the technique that formed the cornerstone of the human genome project and is fundamental to many molecular biology laboratory protocols was discovered only 20 years ago. For many, the history and some of the enduring controversies are unknown yet, as with the discovery of the structure of DNA in the 1950s, the discovery of PCR is the subject of claim and counterclaim that has yet to be fully resolved. The key stages are reviewed here in brief for those for whom both the history and application of science holds interest.
AILIM/ICOS: a novel lymphocyte adhesion molecule (2000)

The adhesive interaction between T cells and antigen-presenting cells is required for the formation of the immunological synapse. Inducible co-stimulator (ICOS) is a third member of the CD28 family of co-stimulatory molecules. Here we describe a novel lymphocyte adhesion molecule, of relative molecular mass 47,000, designated AILIM, that is a rat homolog of ICOS. Rat AILIM was constitutively expressed on thymocytes and was induced on naive T cells after activation. Human thymoma cells bound to purified AILIM. Furthermore, cells transfected with the AILIM gene aggregated in an AILIM-dependent manner. These results suggest a novel function for AILIM/ICOS as an adhesion molecule, which plays an important role in T cell activation.
Remote ischemic preconditioning in percutaneous coronary revascularization: a double-blind randomized controlled clinical trial (2012)

These data suggest that ischemic preconditioning reduces the absolute risk of post-procedure cardiomyocyte necrosis by 27.5%, and reduces intra-procedural chest pain and ST-segment deviation in patients undergoing percutaneous coronary interventions. We suggest its routine use in percutaneous coronary intervention, although the long-term prognostic impact in this patient group warrants further investigation.
Growth of myxamoebae of the cellular slime mould Dictyostelium discoideum in axenic culture (1970)

1. A simple axenic medium suitable for the growth of the myxamoebae of a strain of the cellular slime mould Dictyostelium discoideum is described. 2. Procedures suitable for the growth of this strain in liquid and on solid media are described. 3. Conditions suitable for initiating the cell differentiation of myxamoebae grown axenically are described.
Overexpression of Human Insulin Receptor Substrate 1 Induces Cellular Transformation with Activation of Mitogen-Activated Protein Kinases (1996)

The receptor insulin substrate 1 protein (IRS-1) is a specific substrate for insulin receptor tyrosine kinase. Expression and tyrosyl phosphorylation of IRS-1 play an important role during normal hepatocyte growth, and the gene is overexpressed in hepatocellular carcinoma tissue. We determined if IRS-1 overexpression directly contributes to cellular transformation. The human IRS-1 gene was subcloned into a mammalian expression vector driven by the cytomegalovirus early promoter. NIH 3T3 cells transiently transfected with this vector subsequently developed transformed foci. Several stably transfected cell lines were established, and they grew efficiently under low-serum conditions and formed colonies when plated in soft agar. Cell lines overexpressing IRS-1 displayed increased tyrosyl phosphorylation of IRS-1 and association with Grb2 but not with the p85 subunit of phosphatidylinositol 3' kinase. Since Grb2 is a component of the son-of-sevenless-Ras pathway and upstream in the mitogen-activated protein kinase (MAPK) cascade, enzymatic activities of the major components of this cascade, such as MAPK kinase and MAPK were evaluated and found to be substantially increased in three independent cell lines with IRS-1 protein overexpression. Such cells, when injected into nude mice, were highly tumorigenic, and there may be a correlation between the degree of MAPK activation and tumor growth rate. This report describes the generation of a transformed phenotype by overexpression of a molecule without a catalytic domain far upstream in the signal transduction cascade and suggests that prolonged activation of MAPKs by this mechanism may be one of the molecular events related to hepatocellular transformation.
Alterations of myc , myb , and ras Ha Proto-Oncogenes In Cancers Are Frequent and Show Clinical Correlation (1986)

Alterations of c-myc, c-rasHa, or c-myb oncogenes were found in more than one-third of human solid tumors. Amplification of c-myc occurred in advanced, widespread tumors or in aggressive primary tumors. Apparent allelic deletions of c-rasHa and c-myb can be correlated with progression and metastasis of carcinomas and sarcomas.
Engineering Upper Hinge Improves Stability and Effector Function of a Human IgG1 (2011)

Upper hinge is vulnerable to radical attacks that result in breakage of the heavy-light chain linkage and cleavage of the hinge of an IgG1. To further explore mechanisms responsible for the radical induced hinge degradation, nine mutants were designed to determine the roles that the upper hinge Asp and His play in the radical reactions. The observation that none of these substitutions could inhibit the breakage of the heavy-light chain linkage suggests that the breakage may result from electron transfer from Cys(231) directly to the heavy-light chain linkage upon radical attacks, and implies a pathway separate from His(229)-mediated hinge cleavage. On the other hand, the substitution of His(229) with Tyr showed promising advantages over the native antibody and other substitutions in improving the stability and function of the IgG1. This substitution inhibited the hinge cleavage by 98% and suggests that the redox active nature of Tyr did not enable it to replicate the ability of His to facilitate radical induced degradation. We propose that the lower redox potential of Tyr, a residue that may be the ultimate sink for oxidizing equivalents in proteins, is responsible for the inhibition. More importantly, the substitution increased the antibody's binding to FcγRIII receptors by 2-3-fold, and improved ADCC activity by 2-fold, while maintaining a similar pharmacokinetic profile with respect to the wild type. Implications of these observations for antibody engineering and development are discussed.
A blackboard infrastructure for object-based image interpretation (1994)

The paper presents a blackboard infrastructure for the development of object-based image interpretation applications. The infrastructure is based on an abstract definition of important concepts in image interpretation: data objects, relationships, algorithms, strategies, and models. Building applications with the environment is effectuated by specializing the abstract concepts. Using abstract concepts as a basis guarantees a high level of extensibility, flexibility, and re-usability. 1 Introduction We conceive of image interpretation as establishing a relationship between an implicit or explicit model and the sensory data. The many different approaches to image interpretation reported in literature [1--5] supports the view that a complete and general solution to the problem does not yet exist [6]. The development and evaluation of image interpretation applications calls for the support of a software environment. The environment is to facilitate and to accelerate the development of new...
VEGF-A induces tumor and sentinel lymph node lymphangiogenesis and promotes lymphatic metastasis (2005)

The mechanisms of tumor metastasis to the sentinel lymph nodes are poorly understood. Vascular endothelial growth factor (VEGF)-A plays a principle role in tumor progression and angiogenesis; however, its role in tumor-associated lymphangiogenesis and lymphatic metastasis has remained unclear. We created transgenic mice that overexpress VEGF-A and green fluorescent protein specifically in the skin, and subjected them to a standard chemically-induced skin carcinogenesis regimen. We found that VEGF-A not only strongly promotes multistep skin carcinogenesis, but also induces active proliferation of VEGF receptor-2-expressing tumor-associated lymphatic vessels as well as tumor metastasis to the sentinel and distant lymph nodes. The lymphangiogenic activity of VEGF-A-expressing tumor cells was maintained within metastasis-containing lymph nodes. The most surprising finding of our study was that even before metastasizing, VEGF-A-overexpressing primary tumors induced sentinel lymph node lymphangiogenesis. This suggests that primary tumors might begin preparing their future metastatic site by producing lymphangiogenic factors that mediate their efficient transport to sentinel lymph nodes. This newly identified mechanism of inducing lymph node lymphangiogenesis likely contributes to tumor metastasis, and therefore, represents a new therapeutic target for advanced cancer and/or for the prevention of metastasis.
Multiple scattering in optical coherence tomography I Investigation and modeling (2005)

We present a new model of optical coherence tomography (OCT) taking into account multiple scattering. A theoretical analysis and experimental investigation reveals that in OCT, despite multiple scattering, the field backscattered from the sample is generally spatially coherent and that the resulting interference signal with the reference field is stationary relative to measurement time. On the basis of this result, we model an OCT signal as a sum of spatially coherent fields with random-phase arguments--constant during measurement time--caused by multiple scattering. We calculate the mean of such a random signal from classical results of statistical optics and a Monte Carlo simulation. OCT signals predicted by our model are in very good agreement with a depth scan measurement of a sample consisting of a mirror covered with an aqueous suspension of microspheres. We discuss other comprehensive OCT models based on the extended Huygens-Fresnel principle, which rest on the assumption of partially coherent interfering fields.
Ozone degrades floral scent and reduces pollinator attraction to flowers (2015)

In this work we analyzed the degradation of floral scent volatiles from Brassica nigra by reaction with ozone along a distance gradient and the consequences for pollinator attraction. For this purpose we used a reaction system comprising three reaction tubes in which we conducted measurements of floral volatiles using a proton-transfer-reaction time-of-flight mass spectrometer (PTR-TOF-MS) and GC-MS. We also tested the effects of floral scent degradation on the responses of the generalist pollinator Bombus terrestris. The chemical analyses revealed that supplementing air with ozone led to an increasing reduction in the concentrations of floral volatiles in air with distance from the volatile source. The results revealed different reactivities with ozone for different floral scent constituents, which emphasized that ozone exposure not only degrades floral scents, but also changes the ratios of compounds in a scent blend. Behavioural tests revealed that floral scent was reduced in its attractiveness to pollinators after it had been exposed to 120 ppb O3 over a 4.5 m distance. The combined results of chemical analyses and behavioural responses of pollinators strongly suggest that high ozone concentrations have significant negative impacts on pollination by reducing the distance over which floral olfactory signals can be detected by pollinators.
Determination of closed porosity in rocks by small-angle neutron scattering (2016)

Small-angle neutron scattering (SANS) and ultra-small-angle neutron scattering (USANS) have been used to study a carbonate rock from a deep saline aquifer that is a potential candidate as a storage reservoir for CO 2 sequestration. A new methodology is developed for estimating the fraction of accessible and inaccessible pore volume using SANS/USANS measurements. This method does not require the achievement of zero average contrast for the calculation of accessible and inaccessible pore volume fraction. The scattering intensity at high Q increases with increasing CO 2 pressure, in contrast with the low- Q behaviour where the intensity decreases with increasing pressure. Data treatment for high- Q scattering at different pressures of CO 2 is also introduced to explain this anomalous behaviour. The analysis shows that a significant proportion of the pore system consists of micropores (&lt;20 Å) and that the majority (80%) of these micropores remain inaccessible to CO 2 at reservoir pressures.
DNA methylation age of human tissues and cell types (2013)

I propose that DNA methylation age measures the cumulative effect of an epigenetic maintenance system. This novel epigenetic clock can be used to address a host of questions in developmental biology, cancer and aging research.
Identification of Envelope V3 Loop as the Major Determinant of CD4 Neutralization Sensitivity of HIV-1 (1992)

Laboratory isolates of human immunodeficiency virus type-1 (HIV-1) such as HTLV-IIIB are generally T cell line-tropic and highly sensitive to neutralization by soluble CD4 (sCD4), a potential antiviral agent that is undergoing clinical trial. However, many primary HIV-1 isolates are macrophage-tropic and sCD4-resistant. Envelope V3 loop sequences derived from primary HIV-1 isolates were sufficient to confer on HTLV-IIIB not only the tissue tropism but also the degree of sCD4 neutralization resistance characteristic of their HIV-1 strains of origin. Single amino acid changes in the V3 loop enhanced sCD4 resistance by up to tenfold. These observations suggest that the tissue tropism and sCD4 neutralization sensitivity of HIV-1 isolates are regulated by similar mechanisms.
Musical genre classification of audio signals (2002)

Musical genres are categorical labels created by humans to characterize pieces of music. A musical genre is characterized by the common characteristics shared by its members. These characteristics typically are related to the instrumentation, rhythmic structure, and harmonic content of the music. Genre hierarchies are commonly used to structure the large collections of music available on the Web. Currently musical genre annotation is performed manually. Automatic musical genre classification can assist or replace the human user in this process and would be a valuable addition to music information retrieval systems. In addition, automatic musical genre classification provides a framework for developing and evaluating features for any type of content-based analysis of musical signals. In this paper, the automatic classification of audio signals into an hierarchy of musical genres is explored. More specifically, three feature sets for representing timbral texture, rhythmic content and pitch content are proposed. The performance and relative importance of the proposed features is investigated by training statistical pattern recognition classifiers using real-world audio collections. Both whole file and real-time frame-based classification schemes are described. Using the proposed feature sets, classification of 61% for ten musical genres is achieved. This result is comparable to results reported for human musical genre classification.
Identification of Salmonella typhi promoters activated by invasion of eukaryotic cells (1995)

The interaction of pathogenic microorganisms with host tissues, and the underlying genetic events which regulate these interactions, are difficult to analyse where no suitable animal model exists. The approach described here, for obtaining information on the genes involved in these interactions, employs an infection system based on the invasion of Henle cells by Salmonella typhi to select promoter-containing DNA sequences able to activate gene expression inside eukaryotic cells. Several DNA fragments exhibiting different promoter strengths and extent of selective activation within eukaryotic cells were identified. Three were selected and characterized according to the expression level of the reporter gene, the polynucleotide sequence, the transcription start, and the dependence upon regulatory proteins. All fragments gave much stronger expression of the reporter gene when the recombinant S. typhi carrier strains invaded cells compared with the expression measured in growth medium. One promoter-containing region exhibited sequence homology to sigma 54-dependent promoters, whereas another appears to be dependent on the stationary-phase RNA polymerase subunit sigma s. S. typhi containing the S1 subunit gene of pertussis toxin cloned under the control of these promoters, selectively expressed the S1 subunit following infection of different phagocytic and non-phagocytic cell lines of human or murine origin. Deletion and point mutant derivatives of two promoters enabled the identification of the main motif required for promoter activity. This method may be helpful for the analysis of pathogenesis in organisms previously difficult to study because of the lack of a convenient animal model, and could provide insights into the chronology and topology of gene expression during infection, including a possible genetic basis for tissue tropism.
Assessment of the relative role of Penning ionization in low-pressure glow discharges (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTAssessment of the relative role of Penning ionization in low-pressure glow dischargesRebecca L. Smith, David. Serxner, and Kenneth R. HessCite this: Anal. Chem. 1989, 61, 10, 1103–1108Publication Date (Print):May 15, 1989Publication History Published online1 May 2002Published inissue 15 May 1989https://pubs.acs.org/doi/10.1021/ac00185a012https://doi.org/10.1021/ac00185a012research-articleACS PublicationsRequest reuse permissionsArticle Views194Altmetric-Citations65LEARN 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
Comparative Analysis of Brain Lipids in Mice, Cats, and Humans with Sandhoff Disease (2008)

Sandhoff disease (SD) is a glycosphingolipid (GSL) storage disease that arises from an autosomal recessive mutation in the gene for the beta-subunit of beta-Hexosaminidase A (Hexb gene), which catabolizes ganglioside GM2 within lysosomes. Accumulation of GM2 and asialo-GM2 (GA2) occurs primarily in the CNS, leading to neurodegeneration and brain dysfunction. We analyzed the total lipids in the brains of SD mice, cats, and humans. GM2 and GA2 were mostly undetectable in the normal mouse, cat, and human brain. The lipid abnormalities in the SD cat brain were generally intermediate to those observed in the SD mouse and the SD human brains. GM2 comprised 38, 67, and 87% of the total brain ganglioside distribution in the SD mice, cats, and humans, respectively. The ratio of GA2-GM2 was 0.93, 0.13, and 0.27 in the SD mice, cats, and humans, respectively, suggesting that the relative storage of GA2 is greater in the SD mouse than in the SD cat or human. Finally, the myelin-enriched lipids, cerebrosides and sulfatides, were significantly lower in the SD brains than in the control brains. This study is the first comparative analysis of brain lipids in mice, cats, and humans with SD and will be important for designing therapies for Sandhoff disease patients.
Gamma-radiation in Collagen Solutions (1972)

SummaryGamma-irradiation of ichthyocol solutions caused extensive intermolecular cross-linking of the collagen molecules, leading at higher doses to gelation. From the effect of added free radical scavengers on the gelation dose it was concluded that only the hydrogen atom initiates the cross-linking process. The reaction constant K (H· + collagen) was found to be about 1010 M−1 s−1. Four or less hydrogen atoms are needed to establish an intermolecular cross-link.It is suggested that the hydrogen atoms can reduce some special sites on the macromolecule to groups bearing an aldehyde function. Such groups are also involved in natural cross-links in matured collagen.