gebhart/patrepeval huggingface dataset:
Healing of the Perineal Wound (1980)

The operative management of the perineal wound of 100 consecutive patients undergoing abdominoperineal resection or total proctocolectomy was readily divided into four categories: (1) left open with simple packing, (2) closed primarily with simple drainage (Penrose or red rubber), (3) closed primarily with suction drainage (airtight and watertight), or (4) closed primarily with suction drainage plus continuous irrigation. At three weeks, none of the open wounds, 11% of those closed with simple drainage, 48% closed with suction, and 60% of those closed with suction plus irrigation were healed. By three months, the cumulative figures were 20%, 44%, 88%, and 87%, respectively, and at one year, 92%, 77%, 95%, and 97%. No difference was found between the wounds closed with suction and those closed with suction plus irrigation. There was a highly significant difference in the rate of wound healing when the wounds closed with suction alone or with irrigation were compared with those left open or closed with simple drainage. At three months, the former wounds were healed in 88% of the patients, and the latter in only 30%. The method of choice of management of the perineal wound appears to be that of primary closure with immediate suction drainage with or without concomitant irrigation.
A Tutorial on H.264/SVC Scalable Video Coding and its Tradeoff between Quality, Coding Efficiency and Performance (2011)

A Tutorial on H.264/SVC Scalable Video Coding and its Tradeoff between Quality, Coding Efficiency and Performance
Syntheses of Arbutin-.ALPHA.-glycosides and a Comparison of Their Inhibitory Effects with Those of .ALPHA.-Arbutin and Arbutin on Human Tyrosinase (2003)

The effects of 4-hydroxyphenyl alpha-glucopyranoside (alpha-arbutin) and 4-hydroxyphenyl beta-glucopyranoside (arbutin) on the activity of tyrosinase from human malignant melanoma cells were examined. The inhibitory effect of alpha-arbutin on human tyrosinase was stronger than that of arbutin. The K(i) value for alpha-arbutin was calculated to be 1/20 that for arbutin. We then synthesized arbutin-alpha-glycosides by the transglycosylation reaction of cyclomaltodextrin glucanotransferase using arbutin and starch, respectively, as acceptor and donor molecules. The structural analyses using 13C- and 1H-NMR proved that the transglycosylated products were 4-hydroxyphenyl beta-maltoside (beta-Ab-alpha-G1) and 4-hydroxyphenyl beta-maltotrioside (beta-Ab-alpha-G2). These arbutin-alpha-glycosides exhibited competitive type inhibition on human tyrosinase, and their K(i) values were calculated to be 0.7 mM and 0.9 mM, respectively. These arbutin-alpha-glycosides possessed stronger inhibitory activity than arbutin, but less activity than alpha-arbutin. These results suggested that the alpha-glucosidic linkage of hydroquinone-glycosides plays an important role in the inhibitory effect on human tyrosinase.
Formation and Stability of a Janus-Wedge Type of DNA Triplex (2003)

A new type of DNA targeting with the formation of a Janus-Wedge (J-W) triple helix is described. The "wedge" residue (W) attached to a PNA backbone is designed to insert itself into double-stranded DNA and base pair with both Watson-Crick faces. To study the stability of such an assembly, we have examined the formation of the J-W triplex with dC8 - T8 target sequence. The use of this target sequence permits the study of this new helix form without competing Watson-Crick interactions between the two target residues. Studies indicate that the W strand binds to both target strands, with defined polarity and a stability (-15.2 kcal/mol) that is roughly the sum of the two independent duplex interactions.
Regional wall mechanics in the ischemic left ventricle: numerical modeling and dog experiments (1996)

The mechanics of the ischemic left ventricle during a complete cardiac cycle were simulated using a finite-element model accounting for the thick-walled ventricular geometry, the fibrous nature of the myocardial tissue, and the dependency of active muscle fiber stress on time, strain, and strain rate. Ischemia was modeled by disabling the generation of active stress in a region comprising approximately 12% of total wall volume. In the model simulations, the approximately 12% reduction in the amount of normally contracting tissue resulted in an approximately 25% reduction in stroke work compared with the normal situation. The more-than-proportional loss of stroke work may partly be attributed to storage of elastic energy in the bulging ischemic region. Furthermore the mechanical performance in the nonischemic border zone deteriorated because of reduced systolic fiber stress (if fibers were in series with those in the ischemic region) or reduced fiber shortening (if fibers were parallel). The deformation pattern of the ventricle was asymmetric with respect to the ischemic region because of the anisotropy of the myocardial tissue. Epicardial fiber shortening in and around the ischemic region, as predicted from the model simulations, was in qualitative agreement with shortening, as measured in four dogs in which ischemia was induced by occlusion of the distal part of the left anterior interventricular coronary artery.
Ethylene-regulated expression of a tomato fruit ripening gene encoding a proteinase inhibitor I with a glutamic residue at the reactive site. (1988)

We report the isolation from tomato (Lycopersicon esculentum) of an ethylene-responsive member of the proteinase inhibitor gene family. DNA sequence analysis of a full-length cDNA clone indicates that the ethylene-responsive gene is distantly related to the tomato proteinase inhibitor I gene, having 53% sequence identity. The predicted amino acid sequence reveals 47% and 45% sequence identity with the tomato and potato proteinase inhibitor I polypeptides, respectively. Additionally, the ethylene-responsive inhibitor has evolved a completely different pattern of gene expression and inhibitory specificity than other members of the inhibitor I family. Gel blot hybridization experiments show that, unlike the tomato proteinase inhibitor I gene, it is not induced in wounded leaves. In contrast, it is activated by the plant hormone ethylene in leaves and during fruit ripening. Furthermore, the ethylene-responsive inhibitor exhibits a novel reactive site, having glutamic acid as the P1 residue. This suggests that the ethylene-responsive proteinase inhibitor does not react with chymotrypsin, as does proteinase inhibitor I, but that it reacts with proteolytic enzymes that cleave at glutamic residues, such as the Staphylococcus aureus V8 proteinase, for which no inhibitors are known. Finally, isolation and analysis of a genomic clone reveals that the ethylene-responsive proteinase inhibitor gene is tightly linked to another, yet unidentified, coordinately expressed gene. We discuss these results with regard to the function and evolution of proteinase inhibitor genes in tomato.
Regulation of the immune response. VI. Inability of F(ab') 2 antibody to terminate established immune responses and its ability to interfere with IgG antibody-mediated immunosuppression. (1973)

Intact IgG antibody can terminate established immune responses, whereas F(ab′)(2) antibody cannot do so. The difference between the two antibodies appears to be qualitative. F(ab′)(2) antibody, but not pepsin-digested normal serum, can interfere with the suppression and termination of immune responses induced by intact IgG antibody. These results are discussed in terms of the tripartite inactivation model.
Conditional site-specific recombination in mammalian cells using a ligand-dependent chimeric Cre recombinase. (1995)

We have developed a strategy to generate mutant genes in mammalian cells in a conditional manner by employing a fusion protein, Cre-ER, consisting of the loxP site-specific Cre recombinase linked to the ligand-binding domain of the human estrogen receptor. We have established homozygous retinoid X receptor alpha-negative (RXR alpha-/-) F9 embryonal carcinoma cells constitutively expressing Cre-ER and have shown that estradiol or the estrogen agonist/antagonist 4-hydroxytamoxifen efficiently induced the recombinase activity, whereas no activity was detected in the absence of ligand or in the presence of the antiestrogen ICI 164,384. Furthermore, using a targeting vector containing a selection marker flanked by loxP sites, we have inactivated one retinoic acid receptor alpha allele in such a line, demonstrating that the presence of the recombinase does not inhibit homologous recombination. Combining this conditional site-specific recombination system with tissue-specific expression of Cre-ER may allow modification of the mammalian genome in vivo in a spatiotemporally regulated manner.
A test for Fanconi's anemia (1987)

A simple and reliable cytogenetic test for Fanconi's anemia (FA) that is based on the hypersensitivity of FA cells to mitomycin C (MC) is described. Equal volumes of whole blood from a patient in whom the diagnosis of FA is suspected and from a normal person of the opposite sex are co-cultured in phytohemagglutinin-containing medium in the presence and absence of MC. After five days' co-cultivation, 100 quinacrine-stained metaphases from both the MC-containing and the MC- free cultures are examined for the presence of a Y chromosome using fluorescence microscopy. In all bona fide FA patients in whom testing was successful, hypersensitivity to MC was readily demonstrated by the striking deficiency of FA metaphases (0.9% to 14.9%) in the MC- containing co-cultures. In contrast, none of the three patients with Diamond-Blackfan anemia and none of the five with undiagnosed conditions reminiscent of FA exhibited hypersensitivity to MC; cells from them, from parents of FA patients, and from several normal laboratory personnel constituted approximately half of the metaphases (40.4% to 71.2%) of MC-containing co-cultures, as would be expected in the absence of hypersensitivity to MC.
Electron Pulse Compression With a Practical Reflectron Design for Ultrafast Electron Diffraction (2011)

Ultrafast electron diffraction (UED) is a powerful method for studying time-resolved structural changes. Currently, space-charge-induced temporal broadening prevents obtaining high-brightness electron pulses with sub-100 fs durations limiting the range of phenomena that can be studied with this technique. We review the state of the art of UED in this respect and propose a practical design for reflectron-based pulse compression that utilizes only electrostatic optics and has a tunable temporal focal point. Our simulation shows that this scheme is capable of compressing an electron pulse containing 100 000 electrons with 60:1 temporal compression ratio.
Abnormal expression of perlecan proteoglycan in metastatic melanomas. (1994)

Abnormal expression of proteoglycans has been implicated in cancer and metastasis primarily because these macromolecules are involved in the control of cell growth and matrix assembly. In this report, we have investigated the expression and immunolocalization of perlecan, a major heparan sulfate proteoglycan of basement membranes and pericellular matrices, in human metastatic melanomas. Twenty-six of the 27 tumor samples showed a significant increase (up to 15-fold) in the perlecan mRNA levels when compared with normal tissue. This change correlated with a vast deposition of perlecan protein core in the pericellular matrix of metastatic melanomas. Furthermore, we have established a relationship between perlecan expression in clonal melanoma cells (70W) stimulated with neurotrophins and their increased invasiveness. Interestingly, perlecan mRNA levels were up-regulated within 10 min of neurotrophin stimulation, indicating that perlecan is an early response gene. This upregulation also occurred prior to heparanase production, suggesting that perlecan expression and its regulation might play a pivotal role in the initial onset of invasion.
Encapsidation of adeno-associated virus type 2 Rep proteins in wild-type and recombinant progeny virions: Rep-mediated growth inhibition of primary human cells (1997)

The adeno-associated virus type 2 (AAV) arrests the growth of primary human fibroblasts in vitro at high particle-to-cell ratios. To test the role of AAV gene expression in the observed growth inhibition, primary human cells were infected, under identical conditions, with wild-type (wt) AAV or with recombinant AAV that lacked all viral promoters and coding sequences. Significant, dose-dependent growth inhibition of primary human cells was observed with both wt and recombinant AAV at particle-to-cell ratios equal to or exceeding 10(4). In contrast, neither virus affected the growth of immortalized human cells even at a 10-fold-higher particle-to-cell ratio. AAV-induced growth arrest could be overcome by reculturing cells after treatment with trypsin. Even after reculturing, cells still harbored the proviral AAV genome. Thus, neither integration nor expression of the AAV genome appears to be required for the virus-induced growth-inhibitory effect on primary human cells. The growth-inhibitory effect of AAV was hypothesized to be mediated by virion-associated AAV Rep proteins, since these proteins have been reported to inhibit cellular DNA synthesis. Rep proteins tightly associated with wt as well as recombinant AAV could be detected on Western blots. Coinfection by adenovirus was necessary and sufficient for ample replication of recombinant AAV genomes lacking the rep gene. Although wt AAV-like particles arose during production of the recombinant AAV stocks, their low-titer levels were insufficient to cause the observed growth inhibition. AAV rep gene expression from these contaminating particles was not required for replication of the recombinant AAV genomes, which could be detected even in the absence of de novo Rep protein synthesis. Exposure of recombinant AAV to anti-AAV Rep protein antibodies did not abrogate viral infectivity. These results suggest that biologically active Rep proteins are encapsidated in mature progeny AAV particles. AAV Rep protein-mediated growth inhibition of primary human cells has implications in the use of AAV-based vectors in human gene therapy.
Fullerides of alkaline-earth metals (1992)

Synchrotron radiation photoemission studies show that the mixing of Mg, Sr, and Ba with ${\mathrm{C}}_{60}$ yields metallic (Sr and Ba) and nonmetallic (Mg) fullerides. In all cases, fulleride formation leads to the occupation of hybrid bands near the Fermi level that are derived from ${\mathrm{C}}_{60}$ states and the s states of the alkaline-earth atoms. The nonmetallic character of ${\mathrm{Mg}}_{\mathit{x}}$${\mathrm{C}}_{60}$ probably reflects electron correlation effects, and metallic ${\mathrm{Sr}}_{\mathit{x}}$${\mathrm{C}}_{60}$ and ${\mathrm{Ba}}_{\mathit{x}}$${\mathrm{C}}_{60}$ fullerides are candidates for superconductivity.
Integrated Polarization-Analyzing CMOS Image Sensor for Detecting the Incoming Light Ray Direction (2011)

A complementary metal–oxide–semiconductor (CMOS) image sensor used to detect the incoming light ray direction using polarization information is presented. The chip consists of an array of 128 <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$\times$</tex></formula> 128 pixels, and each pixel is embedded with a metallic wire-grid micropolarizer. It occupies an area of <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$5 \times 4\ \hbox{mm}^{2}$</tex> </formula> , and it has been designed and fabricated in a 180-nm CMOS process. Extinction ratios of 6.3 and 7.7 were achieved in two different polarization sense regions. The Stokes parameters, which are needed to evaluate the degree of polarization (DOP) and electric-field vector intensity, are computed from the pixel with the micropolarizer oriented at 0 <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$^{\circ}$</tex></formula> , 45 <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$^{ \circ}$</tex></formula> , and 90 <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$^{\circ}$</tex></formula> . We show that the variations in the DOP and the e-vector pattern with the incoming polarized light ray direction can be used as a directional reference source for autonomous agent navigation. We also show that the measurement results of ellipticity and azimuthal angles for the incoming light ray using the Stokes parameters can allow on-chip position detection based on the angle of the incoming light ray with little complexity. A very high correlation coefficient bigger than 0.94 was obtained between the measured and theoretical incoming light ray angles.
How Stereoselective Are Alkene Addition Reactions on Si(100)? (2000)

Peer reviewed: Yes
Studies on organosulfur compounds. XII. Syntheses and pharmacological activities of 2-heterocyclic substituted 4(3H)-quinazolinones. (1975)

Four useful procedures for preparing a series of new 2-pyridyl-4(3H)-quinazolinones were investigated and twelve quinazolinones were evaluated for hypnotic activity. Some of them showed a definite hypnotic effect in intraperitoneal doses above 100 mg/kg, whose structure-activity relationship demonstrated that 3-pyridyl and 4-pyridyl substitution at 2-position of 4 (3H)-quinazolinone ring and ο-fluorophenyl and ο-chlorophenyl at 3-position are appropriate for the manifestation of hypnotic activity. A maximum hypnotic effect was observed in 2-(4-pyridyl)-3-(ο-fluorophenyl)-4(3H)-quinazolinone (1), the potency of which was equal to methaqualone in mice.
Vitamin D Deficiency in Mice Impairs Colonic Antibacterial Activity and Predisposes to Colitis (2010)

Vitamin D insufficiency is a global health issue. Although classically associated with rickets, low vitamin D levels have also been linked to aberrant immune function and associated health problems such as inflammatory bowel disease (IBD). To test the hypothesis that impaired vitamin D status predisposes to IBD, 8-wk-old C57BL/6 mice were raised from weaning on vitamin D-deficient or vitamin D-sufficient diets and then treated with dextran sodium sulphate (DSS) to induce colitis. Vitamin D-deficient mice showed decreased serum levels of precursor 25-hydroxyvitamin D(3) (2.5 +/- 0.1 vs. 24.4 +/- 1.8 ng/ml) and active 1,25-dihydroxyvitamin D(3) (28.8 +/- 3.1 vs. 45.6 +/- 4.2 pg/ml), greater DSS-induced weight loss (9 vs. 5%), increased colitis (4.71 +/- 0.85 vs. 1.57 +/- 0.18), and splenomegaly relative to mice on vitamin D-sufficient chow. DNA array analysis of colon tissue (n = 4 mice) identified 27 genes consistently (P < 0.05) up-regulated or down-regulated more than 2-fold in vitamin D-deficient vs. vitamin D-sufficient mice, in the absence of DSS-induced colitis. This included angiogenin-4, an antimicrobial protein involved in host containment of enteric bacteria. Immunohistochemistry confirmed that colonic angiogenin-4 protein was significantly decreased in vitamin D-deficient mice even in the absence of colitis. Moreover, the same animals showed elevated levels (50-fold) of bacteria in colonic tissue. These data show for the first time that simple vitamin D deficiency predisposes mice to colitis via dysregulated colonic antimicrobial activity and impaired homeostasis of enteric bacteria. This may be a pivotal mechanism linking vitamin D status with IBD in humans.
New-onset psoriasis following treatment with the interleukin-1 receptor antagonist anakinra (2008)

Conflicts of interest: none declared. Sir, Anakinra is a recombinant human form of interleukin‐1 receptor antagonist (IL‐1Ra) that blocks interleukin‐1 (IL‐1) signalling. It is administered as a daily subcutaneous injection, and is used to treat patients with rheumatoid arthritis (RA). The drug is generally well tolerated and has a good safety profile.1 The most common adverse effects are injection site reactions.2 We report a patient with RA who developed psoriasis following anakinra therapy. Recently, other biologic anticytokine drugs, such as all of the tumour necrosis factor (TNF)‐α blocking agents (etanercept, infliximab, adalimumab), have been reported to cause or exacerbate psoriasis.3 However, to our knowledge, no psoriatic lesions have been reported in patients treated with anakinra. A 75‐year‐old woman developed in 1995 a symmetrical polyarthritis involving shoulders, small joints of hands and feet, and knees. The rheumatoid factor was negative. She fulfilled the diagnostic criteria for RA.4 There was no personal or familial history of psoriasis. She had been treated with multiple disease‐modifying antirheumatic drugs, that were discontinued because of side‐effects or lack of efficacy. Despite treatment, her RA was still active and she developed typical erosions in metacarpophalangeal joints. Therefore, she was started on combined therapy with TNF‐α antagonists and methotrexate. Etanercept and infliximab were discontinued because of lack of efficacy, and adalimumab was withdrawn because of an episode of left cardiac failure. In March 2006, anakinra (100 mg daily subcutaneously) was started. In December 2006, 9 months later, she presented with typical psoriatic, scaly, erythematous plaques on the elbows (Fig. 1a). Skin biopsy from the patient’s left elbow showed psoriasiform hyperplasia, parakeratosis and a lymphocytic infiltrate in the upper dermis, consistent with psoriasis (Fig. 1b). Treatment with anakinra was discontinued, and the psoriatic lesions improved significantly with the addition of topical steroids and vitamin D.
Matrix-attachment regions can impart position-independent regulation of a tissue-specific gene in transgenic mice. (1992)

Matrix-attachment regions (MARs) may function as domain boundaries and partition chromosomes into independently regulated units. We have tested whether MAR sequences from the chicken lysozyme locus, the so-called A-elements, can confer position-independent regulation to a whey acidic protein (WAP) transgene in mammary tissue of mice. In the absence of MARs, expression of WAP transgenes was observed in 50% of the lines, and regulation during pregnancy, during lactation, and upon hormonal induction did not mimic that of the endogenous WAP gene and varied with the integration site. In contrast, all 11 lines in which WAP transgenes were juxtaposed to MAR elements showed expression. Accurate position-independent hormonal and developmental regulation was seen in four out of the five lines analyzed. These results indicate that MARs can establish independent genetic domains in transgenic mice.
In Vivo Structure/Function Analysis of the Drosophila fat facets Deubiquitinating Enzyme Gene (2000)

The Drosophila Fat facets protein is a deubiquitinating enzyme required for patterning the developing compound eye. Ubiquitin, a 76-amino-acid polypeptide, serves as a tag to direct proteins to the proteasome, a protein degradation complex. Deubiquitinating enzymes are a large group of proteins that cleave ubiquitin-protein bonds. Fat facets belongs to a class of deubiquitinating enzymes called Ubps that share a conserved catalytic domain. Fat facets is unique among them in its large size and also because Fat facets is thought to deubiquitinate a specific substrate thereby preventing its proteolysis. Here we asked which portions of the Fat facets protein are essential for its function. P-element constructs that express partial Fat facets proteins were tested for function. In addition, the DNA sequences of 12 mutant fat facets alleles were determined. Finally, regions of amino acid sequence similarity in 18 Drosophila Ubps revealed by the Genome Project were identified. The results indicate functions for specific conserved amino acids in the catalytic region of Fat facets and also indicate that regions of the protein both N- and C-terminal to the catalytic region are required for Fat facets function.