gebhart/patrepeval huggingface dataset:
Molecular recognition of amino acids by RNA aptamers: The evolution into an L-tyrosine binder of a dopamine-binding RNA motif (2000)

We report the evolution of an RNA aptamer to change its binding specificity. RNA aptamers that bind the free amino acid tyrosine were in vitro selected from a degenerate pool derived from a previously selected dopamine aptamer. Three independent sequences bind tyrosine in solution, the winner of the selection binding with a dissociation constant of 35 microM. Competitive affinity chromatography with tyrosine-related ligands indicated that the selected aptamers are highly L-stereo selective and also recognize L-tryptophan and L-dopa with similar affinity. The binding site was localized by sequence comparison, analysis of minimal boundaries, and structural probing upon ligand binding. Tyrosine-binding sites are characterized by the presence of both tyrosine (UAU and UAC) and termination (UAG and UAA) triplets.
Direct observation of intramolecular hydrogen bonding of a hydroxy proton to an indenide carbanion in apolar and polar non-hydrogen bond donor solvents by NMR and IR spectroscopy (1992)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDirect observation of intramolecular hydrogen bonding of a hydroxy proton to an indenide carbanion in apolar and polar non-hydrogen bond donor solvents by NMR and IR spectroscopyIan McEwen and Per AhlbergCite this: J. Am. Chem. Soc. 1992, 114, 27, 10869–10873Publication Date (Print):December 1, 1992Publication History Published online1 May 2002Published inissue 1 December 1992https://pubs.acs.org/doi/10.1021/ja00053a024https://doi.org/10.1021/ja00053a024research-articleACS PublicationsRequest reuse permissionsArticle Views124Altmetric-Citations6LEARN 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
HEPATITIS E: An Overview (1996)

Hepatitis E has a worldwide distribution and causes substantial morbidity and mortality in some developing countries, particularly among pregnant women. Hepatitis E virus (HEV) has recently been cloned and sequenced and new diagnostic tests have been developed; these tests have been used to begin to characterize the natural history and epidemiologic features of HEV infection. Experimental vaccines have also been developed that offer the potential to prevent hepatitis E. However, to develop effective strategies to prevent this disease, much remains to be learned about HEV, including the vehicles of transmission, the reservoir(s) of the virus, and the natural history of protective immunity.
Performance characteristics of a helical microwave interstitial antenna for local hyperthermia (1987)

A helical microwave antenna has been designed to improve heat deposition by interstitial applicators used for clinical hyperthermia. Iso-specific-absorption-rate (SAR) curves of the helical antenna as well as a conventional monopole antenna were measured and compared in both muscle and brain tissue phantoms. The heating pattern of the helical antenna is more uniform along the length of the antenna which has important implications for multiarray implant configurations.
Preparation of Monodisperse CdS Nanocrystals by Size Selective Photocorrosion (1996)

Narrowing the size distribution of polydisperse CdS nanocrystals whose average diameter was 42 Å and standard deviation was 19 Å was achieved utilizing size selective photocorrosion with sequential irradiation with monochromatic light whose wavelength was changed step by step from 490 to 430 nm in air-saturated sodium hexametaphosphate solution. With decreasing the wavelength of irradiated light, the first exciton peak was gradually developed in the absorption spectrum of the resulting CdS colloid, and the nearly monodisperse CdS nanocrystals of 22 Å were finally obtained, which were thought to be the smallest particles that were present in the original CdS colloid. Analyses of the amount of sulfate ions produced by photocorrosion of Q-CdS colloids revealed that the number of Q-CdS particles in the colloid decreased with promotion of photocorrosion, suggesting that during the course of photocorrosion photocorroded CdS particles were agglomerated to give larger particles which were further photocorroded. The molar absorption coefficient of CdS particles at the first exciton peak was found to be independent of the particle size.
Partial amino-acid sequences of human and rabbit C-reactive proteins: homology with immunoglobulins and histocompatibility antigens. (1977)

Partial amino-acid sequence analyses of the amino terminus of rabbit C-reactive protein and of a peptide isolated from human C-reactive protein after cyanogen bromide cleavage show an extensive sequence homology between these proteins. Computer analysis detected a distant but significant homology between rabbit C-reactive protein and the CH3 domain of human IgG, In addition, an examination of the limited data available for the amino-acid sequences of human and mouse histocompatibility antigens revealed a similarity between these proteins and C-reactive protein and, therefore, immunoglobulins; These relationships are presented as evidence in support of the hypothesis that C-reactive protein and immunoglobulins share, in addition to functional similarities, a common evolutionary origin with the major histocompatibility antigens.
Toward defining the preclinical stages of Alzheimer's disease: Recommendations from the National Institute on Aging‐Alzheimer's Association workgroups on diagnostic guidelines for Alzheimer's disease (2011)

The pathophysiological process of Alzheimer's disease (AD) is thought to begin many years before the diagnosis of AD dementia. This long "preclinical" phase of AD would provide a critical opportunity for therapeutic intervention; however, we need to further elucidate the link between the pathological cascade of AD and the emergence of clinical symptoms. The National Institute on Aging and the Alzheimer's Association convened an international workgroup to review the biomarker, epidemiological, and neuropsychological evidence, and to develop recommendations to determine the factors which best predict the risk of progression from "normal" cognition to mild cognitive impairment and AD dementia. We propose a conceptual framework and operational research criteria, based on the prevailing scientific evidence to date, to test and refine these models with longitudinal clinical research studies. These recommendations are solely intended for research purposes and do not have any clinical implications at this time. It is hoped that these recommendations will provide a common rubric to advance the study of preclinical AD, and ultimately, aid the field in moving toward earlier intervention at a stage of AD when some disease-modifying therapies may be most efficacious.
Starch-based second-harmonic-generated collinear frequency-resolved optical gating pulse characterization at the focal plane of a high-numerical-aperture lens (2004)

We report the use of starch as an ideal nonlinear medium with which to perform collinear frequency-resolved optical gating measurements of ultrashort pulses at the focal plane of a high-numerical-aperture (NA) lens. We achieved these measurements by simply sandwiching starch granules (suspended in water) between two coverslips and placing them within the focal plane of a high-NA lens. The natural nonlinear characteristics of starch allow the correct phase matching of pulses at the focal plane of a high-NA lens at different wavelengths. This elegant arrangement overcomes all the complexity and problems that were previously associated with pulse characterization within a multiphoton microscope.
Concurrent photoacoustic markers for direct three-dimensional ultrasound to video registration (2014)

Fusion of video and other imaging modalities is common in modern surgical procedures to provide surgeons with additional information that can provide precise surgical guidance. An example of such uses interventional guidance equipment and surgical navigation systems to register the tools and devices used in surgery with each other. In this work, we focus explicitly on registering three-dimensional ultrasound with a stereocamera system. These surgical navigation systems often use optical or electromagnetic trackers. However, both of these tracking systems have various drawbacks leading to target registration errors of approximately 3mm. Previous work has shown that photoacoustic markers can be used to register three-dimensional ultrasound with video resulting in target registration errors which are much lower than the current state of the art. This work extends this idea by generating multiple photoacoustic markers concurrently as opposed to the sequential method used in the previous work. This development greatly enhances the acquisition time by a factor equal to the number of concurrently generated photoacoustic markers. This work is demonstrated on a synthetic phantom and an ex vivo porcine kidney phantom. The resulting target registration errors for these experiments ranged from 840 to 1360 <i>&mu;</i>m and standard deviations from 370 to 640 <i>&mu;</i>m.
A Poliovirus Neutralization Epitope Expressed on Hybrid Hepatitis B Surface Antigen Particles (1986)

The hepatitis B virus (HBV) envelope protein carrying the surface antigen (HBsAg) is assembled with cellular lipids in mammalian cells into empty viral envelopes. In a study to evaluate the capacity of such particles to present foreign peptide sequences in a biologically active form, in-phase insertions were created in the S gene encoding the major envelope protein. One of the sequences inserted was a synthetic DNA fragment encoding a poliovirus neutralization epitope. Mammalian cells expressing the modified gene secreted hybrid particles closely resembling authentic 22-nanometer HBsAg particles. These particles reacted with a poliovirus-specific monoclonal antibody and induced neutralizing antibodies against poliovirus. The results indicate that empty viral envelopes of HBV may provide a means for the presentation of peptide sequences and for their export from mammalian cells.
Copy Number Variation and Schizophrenia (2008)

Over the last 12 months, a series of major articles have reported associations with schizophrenia of copy number variants at 1q21, 15q11.2, 15q13.3, 16p11.2, 22q12, and Neurexin 1 loci. These are rare high-penetrant mutations that increase risk not only of schizophrenia but also of a range of other psychiatric disorders including autism and mental retardation. In some cases, the same phenotype can occur irrespective of whether the copy number variant causes a deletion or duplication. Some of these mutations occur at very high rates in human populations, but because of reduced fecundity associated with major psychiatric disorders the overall frequency in the population remains low. These new findings raise fundamental clinical and scientific questions concerning classification of major neuropsychiatric disorders, modes of inheritance, diagnostics, and genetic counseling. Although the loci identified so far account for only a small proportion of cases, many more are likely to be discovered over the next few years. A major focus of research will be to identify the key, the genetic and environmental determinants of schizophrenia risk in carriers of these copy number variants, and to discover whether their rates of mutation are unstable or fixed.
The history of interstitial brachytherapy of prostatic cancer (1997)

The history of interstitial brachytherapy of the prostate began in 1917 when Barringer inserted radium needles transperineally into the prostate, guided by a finger in the rectum. In 1952, Flocks et al. injected radioactive gold solution in prostatic cancer during open operation. In 1972, Whitmore et al. described retropubic Iodine-125 seed implantation through an open operation with pelvic lymph node dissection. The basis for ultrasound (US)-guided seed implantation was established in the late 1960s by Kratochwil's description of the first puncture transducer for one-dimensional US-guidance and Watanabe's pioneer work in prostatic screening. Our group performed the first punctures guided by static two-dimensional ultrasonic scanning (1969) and by dynamic ultrasound scanning (1974). During the 1970s, US-guided biopsies of almost all abdominal organs were performed and, in 1981, we introduced US-guided seed implantation of abdominal tumors and developed a technique for precise needle placement in the prostate guided by transrectal ultrasound. This was followed in 1983 by a technique for seed implantation guided by transrectal (transverse) ultrasonic scanning. That same year, Fornage described prostatic biopsy guided by transrectal longitudinal scanning. In 1990, we developed the seed implantation technique further by combining transverse and longitudinal scannings. In the late 1980s, Ragde from Seattle transferred the technique to the U.S., and since then, Ragde, Blasko, and others have treated numerous patients, refined the technique, taught many courses, and published extensively. They have obtained very promising prostate-specific antigen (PSA)-based results which compare favorably with radical prostatectomy and external beam radiation in the treatment of prostatic cancer.
CD84 Leukocyte Antigen Is a New Member of the Ig Superfamily (1997)

cDNA isolated from a human B-cell line Raji library was analyzed and shown to encode the full-length cDNA sequence of a novel cell-surface glycoprotein, initially termed HLy9-β. The predicted mature 307-amino acid protein was composed of two extracellular Ig-like domains, a hydrophobic transmembrane region, and an 83-amino acid cytoplasmic domain. The extracellular Ig-like domains presented structural and sequence homology with a group of members of the Ig superfamily that included CD2, CD48, CD58, and Ly9. Northern blot analysis showed that the expression of HLy9-β was predominantly restricted to hematopoietic tissues. Chromosome localization studies mapped the HLy9-β gene to chromosome 1q24, where other members of this Ig superfamily (CD48 and HumLy9) have been mapped. CD84 monoclonal antibodies (MoAbs) were shown to react with cells transfected with the cloned cDNA. These MoAbs were further used to show that CD84 is expressed as a single chain cell-surface glycoprotein of Mr 64,000 to 82,000, which was highly glycosylated. CD84 had a unique pattern of expression, being found predominantly on lymphocytes and monocytes. Thus, the glycoprotein HLy9-β is recognized by MoAbs previously clustered as CD84 and represents a newly identified member of the Ig superfamily that may play a significant role in leukocyte activation.
Characterization of a Water-Soluble, Helical β-Peptide (1999)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTCharacterization of a Water-Soluble, Helical β-PeptideBenjamin W. Gung, Dong Zou, Apryll M. Stalcup, and Charles E. CottrellView Author Information Department of Chemistry and Biochemistry, Miami University, Oxford, Ohio 45056 Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221 Campus Chemical Instrument Center, The Ohio State University, Columbus, Ohio 43210 Cite this: J. Org. Chem. 1999, 64, 7, 2176–2177Publication Date (Web):March 11, 1999Publication History Received5 June 1998Published online11 March 1999Published inissue 1 April 1999https://pubs.acs.org/doi/10.1021/jo981070fhttps://doi.org/10.1021/jo981070frapid-communicationACS PublicationsCopyright © 1999 American Chemical SocietyRequest reuse permissionsArticle Views318Altmetric-Citations45LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Alcohols,Circular dichroism spectroscopy,Conformation,Nuclear magnetic resonance spectroscopy,Peptides and proteins Get e-Alerts
Genotype–Phenotype Correlation of MousePde6bMutations (2005)

These data demonstrate a correlation between genotype and phenotype. Four of the mutants with severe genetic lesions have rapid onset of retinal degeneration, as determined by fundus examination. These mice were indistinguishable from Pde6b(rd1) mice, which are effectively blind by 3 weeks of age. In contrast, the milder genetic lesions show a slower progression of the disease and provide the community with models that more closely mimic human retinitis pigmentosa.
LSF and NTF-1 Share a Conserved DNA Recognition Motif yet Require Different Oligomerization States to Form a Stable Protein-DNA Complex (1998)

The mammalian transcription factor LSF (also known as CP2 and LBP-1c) binds as a homo-oligomer to directly repeated elements in viral and cellular promoters. LSF and the Drosophila transcription factor NTF-1 (also known as Elf-1 and Grainyhead) share a similar DNA binding region, which is unlike any established DNA binding motifs. However, we demonstrate that dimeric NTF-1 can bind an LSF half-site, whereas LSF cannot. To characterize further the DNA binding and oligomerization characteristics of LSF, truncation mutants were used to demonstrate that between 234 and 320 amino acids of LSF are required for high affinity DNA binding. Mixing of a truncation mutant with full-length LSF in a DNA binding assay established that the form of LSF that binds DNA is larger than a dimer. Unexpectedly, one C-terminal deletion derivative, partially defective in oligomerization properties, could occupy odd numbers of adjacent, tandem LSF half-sites, unlike full-length LSF. The numbers of DNA-protein complexes formed on multiple half-sites with this mutant indicated that LSF binds DNA as a tetramer, although cross-linking experiments confirmed a previous report concluding that LSF is primarily dimeric in solution. The DNA binding and oligomerization properties of LSF support models depicting novel mechanisms to prevent continual, adjacent binding by a protein that recognizes directly repeated DNA sequences.
Heparin protects Opa+ Neisseria gonorrhoeae from the bactericidal action of normal human serum (1995)

The pathobiological significance of lipooligosaccharide (LOS) and outer membrane opacity protein (Opa) changes in gonorrheal disease are poorly understood. We assessed variants of strain MS11mk with different LOS and Opa phenotypes for their liability to killing by normal human sera. LOS differences correlated with strikingly disparate susceptibilities to serum killing; LOSa variants were serum resistant, LOSb variants were serum sensitive, and sialylation of LOSb variants enhanced their survival (as reported previously). Opa phenotype had little influence on the killing of serum-sensitive LOSb cells that were incubated directly in normal human sera, but preincubation of Opa+ LOSb variants in heparin increased their serum resistance whereas Opa- LOSb variants showed no change. Some Opa proteins conferred slightly higher resistance than others, but heparin preincubation increased serum resistance for variants expressing each of seven Opa proteins. These in vitro phenomena may relate to conditions within the male urethra where sulfate-containing proteoglycans are abundant and where antibody and complement may transude from blood plasma. The results suggest that the selective advantage for Opa+ Neisseria gonorrhoeae bacteria observed in vivo may reflect their ability to utilize host cell components to resist killing by host defenses.
A simulation model for field service with condition-based maintenance (2003)

We consider field service in which service providers are responsible for maintaining equipment performance. To do so, preventive maintenance work is usually required in addition to repairs. Field service managers are often faced with the conflicting objectives of maintaining a high level of equipment availability and keeping a low service cost. A condition-based maintenance (CBM) system can be used to achieve both goals by using equipment condition as a guide for taking maintenance actions. We developed a simulation model for field service with an integrated CBM system. A test case based on the field service operation of an elevator service provider has been built in a visual simulation environment to estimate the value of a CBM system.
From Harmless Commensal to Invasive Pathogen (1990)

Coagulase-negative staphylococci are constituents of the normal microflora of the skin, but they are also capable of harming patients who have benefited from medical innovations such as cerebrospinal fluid shunts, intravascular catheters, peritoneal dialysis, prosthetic heart valves, and joint prostheses. In this issue of the Journal, Freeman and colleagues1 report the results of a case–control study of risk factors associated with bacteremia due to coagulase-negative staphylococci in infants in a neonatal intensive care unit. Infants with bacteremia were significantly more likely than control infants to have received an intravenous lipid emulsion shortly before the onset of bacteremia. These data . . .
Genetic analysis of the wide compatiblity of rice variety huanuo from yunnan province (1998)

Both the spikelet fertility and apiculus color of plants was segregated with 1:1 ratio in the three cross F_(1) populations from Huanuo and indica tester and japonica tester. The spikelet fertility was correlated with apiculus color and with molecular marker RG213. The spikelet fertility of plants of F_(2) populations between Huanuo and the wide compatibility varieties with S~(n)_(5) was not segregated. Therefore, we considered that the wide compatibility gene in Huanuo is allelic with S_(5).