gebhart/patrepeval huggingface dataset:
Measurements of molecular second order optical susceptibilities using dc induced second harmonic generation (1981)

We have developed an infinite dilution extrapolation procedure for determining the molecular second order optical susceptibility β using dc induced second harmonic generation. We show how the effects of solute–solute and solvent–solvent interactions are minimized by this procedure, and how several local field models used in the procedure affect the calculation of β. Using hexane as a solvent for nitrobenzene, we have determined the best experimental value in solution for the intrinsic β of nitrobenzene of (1.11±0.17)×10−30 esu.
Cardiac fibrosis in mice lacking brain natriuretic peptide (2000)

Cardiac fibrosis, defined as a proliferation of interstitial fibroblasts and biosynthesis of extracellular matrix components in the ventricles of the heart, is a consequence of remodeling processes initiated by pathologic events associated with a variety of cardiovascular disorders, which leads to abnormal myocardial stiffness and, ultimately, ventricular dysfunction. Brain natriuretic peptide (BNP) is a cardiac hormone produced primarily by ventricular myocytes, and its plasma concentrations are markedly elevated in patients with congestive heart failure and acute myocardial infarction. However, its precise functional significance has been undefined. In this paper, we report the generation of mice with targeted disruption of BNP (Nppb(-/-) mice). We observed multifocal fibrotic lesions in the ventricles from Nppb(-/-) mice. No signs of systemic hypertension and ventricular hypertrophy are noted in Nppb(-/-) mice. In response to ventricular pressure overload, focal fibrotic lesions are increased in size and number in Nppb(-/-) mice, whereas no focal fibrotic changes are found in wild-type littermates (Nppb(+/+) mice). This study establishes BNP as a cardiomyocyte-derived antifibrotic factor in vivo and provides evidence for its role as a local regulator of ventricular remodeling.
Pattern scaling with directed self assembly through lithography and etch process integration (2012)

Directed self-assembly (DSA) has the potential to extend scaling for both line/space and hole patterns. DSA has shown the capability for pitch reduction (multiplication), hole shrinks, CD self-healing as well as a pathway towards line edge roughness (LER) and pattern collapse improvement [1-4]. The current challenges for industry adoption are materials maturity, practical process integration, hardware capability, defect reduction and design integration. Tokyo Electron (TEL) has created close collaborations with customers, consortia and material suppliers to address these challenges with the long term goal of robust manufacturability. This paper provides a wide range of DSA demonstrations to accommodate different device applications. In collaboration with IMEC, directed line/space patterns at 12.5 and 14 nm HP are demonstrated with PS-<i>b</i>-PMMA (poly(styrene-b-methylmethacrylate)) using both chemo and grapho-epitaxy process flows. Pre-pattern exposure latitudes of &gt;25% (max) have been demonstrated with 4X directed self-assembly on 300 mm wafers for both the lift off and etch guide chemo-epitaxy process flows. Within TEL's Technology Development Center (TDC), directed selfassembly processes have been applied to holes for both CD shrink and variation reduction. Using a PS-b-PMMA hole shrink process, negative tone developed pre-pattern holes are reduced to below 30 nm with critical dimension uniformity (CDU) of 0.9 nm (3s) and contact edge roughness (CER) of 0.8 nm. To generate higher resolution beyond a PS-<i>b</i>-PMMA system, a high chi material is used to demonstrate 9 nm HP line/ space post-etch patterns. In this paper, TEL presents process solutions for both line/space and hole DSA process integrations.
Clinical next generation sequencing to identify actionable aberrations in a phase I program (2015)

Multiplex testing in the CLIA environment facilitates genomic characterization across multiple tumor lineages and identification of novel opportunities for genotype-driven trials.
Use of the Saline Infusion Electrode Catheter for Improved Energy Delivery and Increased Lesion Size in Radiofrequency Catheter Ablation (1995)

Although radiofrequency catheter ablation has undergone explosive growth as the treatment for a variety of arrhythmias, a limiting factor with the existing catheter delivery system has been the relatively small size of the lesions, which appears to be in part due to coagulum formation around the catheter tip, producing a rise in impedance and limiting energy delivery. In order to test the hypothesis that infusion of saline during radiofrequency current application can increase the lesion size and decrease the incidence of impedance rise, ten dogs were each given two radiofrequency ablation lesions to the left ventricular endocardium. One of these lesions was delivered with a standard 7 French quadripolar catheter with a 2-mm tip, and the second was done with a 7 French luminal electrode catheter (also with a 2-mm tip) for the infusion of normal saline during the delivery of radiofrequency energy. Energy was delivered for 60 seconds at either 10 or 20 watts at two distinct sites in the left ventricle for each animal. Four to 7 days following ablation, the animals were sacrificed for pathological examination. The lesions created with the saline infusion catheter were significantly bigger than those produced with a standard catheter (7.3 x 7.0 x 5.1 vs 5.2 x 4.9 x 3.5 mm, respectively, P < 0.001). At the lower energy level (10 W), none of the animals with the saline infusion catheter experienced an impedance rise versus 3 of 5 of the animals in whom the standard catheter was used.(ABSTRACT TRUNCATED AT 250 WORDS)
Identification and molecular mapping of a single Arabidopsis thaliana locus determining resistance to a phytopathogenic Pseudomonas syringae isolate (1991)

We present a model pathosystem to dissect genetically the disease resistance response of plants against phytopathogenic bacteria. The interaction between Pseudomonas syringae pathovar maculicola (Psm) and Arabidopsis thaliana displays phenotypic varia-ion which depends on the genotype of both partners. Compatible interactions are defined by sustained in-planta bacterial growth and are normally accompanied of their appearance. For compatible interactions, resistance is defined by limited in-planta bacterial growth accompanied by a typical 'hypersensitive response' (HR). We show that at least parts of this system fit the paradigms of Flor's 'gene-for-gene' hypothesis. We identify functionally a putative bacterial avirulence gene (avrRpm 1) from a Psm isolate which conditions the HR on A. thaliana ecotypes Oy-0 abd Col- 0, but not Nd-0. We also demonstrate that resistance to the Psm strain from which avrRpm1 was isolated segregates as a single trait in the crosses Col-o x Nd-0 and Nd-0 x Oy-0. Furthermore, we map this locus (RPM1) molecularly in the Col-0 x Nd-0 cross to a relatively small interval defined by two RFLP markers on A. thliana chromosome 3. Resistance in the second cross also maps to this locus and co-segregates with resistance to avrRpm1.
Interactions of the Human Immunodeficiency Virus and Tuberculosis and the Implications for BCG Vaccination (1989)

AIDS has become a global epidemic, with greater than 100,000 cases officially reported in 140 countries and an estimated 5-10 million asymptomatic carriers of the human immunodeficiency virus (HIV), the etiologic agent of AIDS. With an increase in HIV infection in some developing countries, there has been a resurgence in tuberculosis, and concern has been raised about the indications, efficacy, and safety of bacille Calmette-Guérin (BCG) vaccination. Anecdotal reports of local reactions and disseminated disease have been described in HIV-infected children and adults. Ten HIV-infected infants, who received BCG vaccination within 2 months of birth, developed local lymphadenitis at 4-15 months. However, in one preliminary survey in Zaire, the rates of local lymphadenitis were equal in HIV-infected and HIV-uninfected children, and no dissemination has been observed to date. Until further information is known, BCG vaccinations should not be given to symptomatic HIV-infected individuals and should only be given to HIV-infected children who are asymptomatic and who reside in areas where tuberculosis is highly endemic and where the risk of tuberculosis may outweigh the potential complications of BCG immunization.
Stress evolution during metalorganic chemical vapor deposition of GaN (1999)

The evolution of stress in gallium nitride films on sapphire has been measured in real time during metalorganic chemical vapor deposition. In spite of the 16% compressive lattice mismatch of GaN to sapphire, we find that GaN consistently grows in tension at 1050 °C. Furthermore, in situ stress monitoring indicates that there is no measurable relaxation of the tensile growth stress during annealing or thermal cycling.
The cell dissociation and motility triggered by scatter factor/hepatocyte growth factor are mediated through the cytoplasmic domain of the c-Met receptor. (1993)

Scatter factor (SF), which dissociates epithelial cell colonies into individual cells and stimulates the migration of epithelial cells, is identical to hepatocyte growth factor (HGF), a mitogen for melanocytes, endothelial cells and epithelial cells, including hepatocytes. It was previously shown by cDNA transfection that the mitogenic effect of SF/HGF is mediated by activation of the tyrosine phosphorylation of the c-Met receptor (the c-met proto-oncogene product). In this study, we constructed a cDNA encoding a chimeric receptor composed of the extracellular domain of the epidermal growth factor (EGF) receptor and the transmembrane and cytoplasmic domains of the c-Met receptor. We transfected the cDNA into the B16-F1 mouse melanoma cell line to investigate whether the cell dissociation and motility were mediated through this chimeric receptor following ligand stimulation. The chimeric receptor cDNA was expressed in the transfected cells and the protein product was transported to the cell surface in the correct transmembrane orientation. EGF treatment of the chimeric receptor-expressing cells markedly enhanced tyrosine phosphorylation of the chimeric receptor and led to scattered morphology and enhanced motility. This scattered morphology was inhibited by a tyrosine kinase inhibitor. Based on these results, we concluded that the cell dissociation and motility triggered by SF/HGF were mediated through the cytoplasmic domain of the c-Met receptor by activation of its tyrosine kinase. Thus, it is likely that the different biological effects of SF/HGF are mediated by different intracellular signal cascades.
Linear epitope mapping of an Sm B/B’ polypeptide (1992)

Autoantibodies binding the Sm B/B' peptides are commonly associated with SLE. IgG antibodies binding overlapping octapeptides of Sm B/B' have been evaluated in 10 patients with anti-Sm and anti-nRNP precipitins, 5 patients with other autoimmune serology, and 4 normal human sera. Neither normal controls nor patients without an anti-Sm precipitin significantly bind any of the Sm B/B' octapeptides. All sera tested containing an anti-Sm precipitin strongly bind octapeptides from eight regions of the Sm B/B' sequence. Three of these eight regions share the same octapeptide sequences (PPPGMRPP) that are consistently the most immunoreactive octapeptides from Sm B/B'. Binding of the similar PPPGIRGP, as well as binding to deletion and substitution peptides, suggest that the motif PPPG(I,M) (R,K) appears to best define this binding. Interestingly, PAPGMRPP in the nRNP C peptide is as antigenic as PPPGMRPP and may provide a partial explanation for the cross-reactivity shown between Sm and nRNP autoantibodies. However, the sequence, PPPGMIPP, from nRNP A is not antigenic. These data define the linear sequence autoantigenicity of the Sm B/B' protein. They also demonstrate that the predominant autoimmune epitope is a proline-rich sequence from which limited variance is permitted before antigenicity is destroyed.
Cloning of aMycobacterium tuberculosisGene Encoding a Purifed Protein Derivative Protein That Elicits Strong Tuberculosis‐Specific Delayed‐Type Hypersensitivity (2000)

The purified protein derivative (PPD) skin test has been used for the diagnosis of tuberculosis for more than 75 years. However, the test lacks specificity because all mycobacteria share antigens present in PPD. Therefore, sensitization with nontuberculous pathogenic or with environmental nonpathogenic mycobacteria can lead to positive skin tests. This communication describes a novel PPD protein present only in tuberculous complex mycobacteria. A recombinant protein was obtained and named DPPD on the basis of the first 4 amino acids of its N-terminus sequence. DPPD elicited delayed-type hypersensitivity (DTH) in 100% of Mycobacterium tuberculosis-infected guinea pigs but in no animals sensitized with several organisms representative of all members of the Mycobacterium genus. Preliminary results indicate that DPPD induces strong and specific DTH in humans. This work points to the definition of a single recombinant M. tuberculosis protein that may be an alternative to the PPD test.
Injecting Puragen Plus into the nasolabial folds: Preliminary observations of FDA trial (2006)

Based on participation in ongoing FDA trials, the author presents his initial impressions of Puragen Plus for treatment of the nasolabial folds. Puragen and Puragen Plus (Mentor Corp., Santa Barbara, CA) are double-cross-linked NASHA products. Depending on double cross-linking for duration of effect, instead of a varying particle size, may allow for use of one filler at all levels in the soft tissue. Other features observed by the author in the clinical setting included reduced injection pain, minimal erythema and tenderness, typically 9 to 12 months' duration of effect, and high patient satisfaction.
Regulation of Isopentenoid Metabolism (1992)

Mevalonic acid biosynthesis and its subsequent metabolism into a plethora of isoprenoid compounds has reemerged as a prominent field of study in chemical and biochemical science. The conversion of mevalonic acid into key intermediates of cellular metabolism, as structural components of cellular membranes, as natural products of significant commercial utility, and as natural protectants against infection and disease highlights the significance of this biochemical pathway. Additionally, the isoprenoid pathway has served as the target for important therapeutics and agrochemicals used to combat such diverse diseases such as fungal infections and infestations, hypercholesterolemia, and atherosclerosis. The contents of this volume will expand on these topics with details on the chemical, biochemical, and molecular biological progress made in this field presented at two recent ACS symposia.
Delayed Hypoxic Postconditioning Protects Against Cerebral Ischemia in the Mouse (2009)

Altogether, this study demonstrates for the first time the existence of a delayed hypoxic postconditioning in cerebral ischemia and in vitro studies highlight hypoxia-inducible factor-1alpha and its target genes, erythropoietin and adrenomedullin, as potential effectors of postconditioning.
Novel α-Glucosidase from Aspergillus nidulans with Strong Transglycosylation Activity (2002)

ABSTRACT Aspergillus nidulans possessed an α-glucosidase with strong transglycosylation activity. The enzyme, designated α-glucosidase B (AgdB), was purified and characterized. AgdB was a heterodimeric protein comprising 74- and 55-kDa subunits and catalyzed hydrolysis of maltose along with formation of isomaltose and panose. Approximately 50% of maltose was converted to isomaltose, panose, and other minor transglycosylation products by AgdB, even at low maltose concentrations. The agdB gene was cloned and sequenced. The gene comprised 3,055 bp, interrupted by three short introns, and encoded a polypeptide of 955 amino acids. The deduced amino acid sequence contained the chemically determined N-terminal and internal amino acid sequences of the 74- and 55-kDa subunits. This implies that AgdB is synthesized as a single polypeptide precursor. AgdB showed low but overall sequence homology to α-glucosidases of glycosyl hydrolase family 31. However, AgdB was phylogenetically distinct from any other α-glucosidases. We propose here that AgdB is a novel α-glucosidase with unusually strong transglycosylation activity.
[Magnetic resonance tomography in the diagnosis of peripheral joints]. (1991)

Magnetic resonance imaging (MRI) provides an excellent soft tissue contrast with high spatial resolution. Using spin echo and fast gradient echo sequences all relevant joint structures such as the hyaline cartilage, the meniscus, the ligaments, the tendons, the capsulae, and their adjacent muscles and their pathology are visualized. Diagnosis of osteonecrosis, meniscal and cruciate ligament lesions, as well as tumors, represents the major current indication for MRI. Due to its high cost MRI should be employed for the diagnosis of joint disease only to clarify equivocal findings of conventional radiographic, nuclear and tomographic methods. Prior clinical examination and laboratory tests are mandatory. As a component of a stepwise diagnostic approach, MRI often provides reliable differential diagnostic information.
Circulating Prostate Cancer Cells Detected by Reverse Transcription-Polymerase Chain Reaction (RT-PCR): What Do They Mean? (1998)

BACKGROUND: Molecular techniques have been developed recently to assess for circulating tumor cells. This "molecular staging" of prostate cancer uses the reverse transcription-polymerase chain reaction (RT-PCR) to detect cells that contain PSA or PSMA in the bloodstream. Currently, the clinical application of this concept is controversial. METHODS: The authors discuss the current status of molecular biologic methods to detect circulating prostate cancer cells. They report on the limitations of the technology and the advances that will allow the quantification of these circulating cells. RESULTS: Studies generally indicate an increasing level of PSA RT-PCR positivity as disease advances. However, reports have been significantly diverse, and there is no clear explanation for this disparity. CONCLUSIONS: The determination of the "circulating prostate cancer cell load" by RT-PCR or other techniques may prove to be useful in the management of patients with prostate cancer, but questions remain to be answered before we can develop and assess new therapeutic strategies that will advance the treatment of prostate cancer before metastasis becomes evident. A better understanding of the biology of tumor cells present in the circulatory system is also needed.
Activation of blood coagulation in cancer: implications for tumour progression (2013)

Several studies have suggested a role for blood coagulation proteins in tumour progression. Herein, we discuss (1) the activation of the blood clotting cascade in the tumour microenvironment and its impact on primary tumour growth; (2) the intravascular activation of blood coagulation and its impact on tumour metastasis and cancer-associated thrombosis; and (3) antitumour therapies that target blood-coagulation-associated proteins. Expression levels of the clotting initiator protein TF (tissue factor) have been correlated with tumour cell aggressiveness. Simultaneous TF expression and PS (phosphatidylserine) exposure by tumour cells promote the extravascular activation of blood coagulation. The generation of blood coagulation enzymes in the tumour microenvironment may trigger the activation of PARs (protease-activated receptors). In particular, PAR1 and PAR2 have been associated with many aspects of tumour biology. The procoagulant activity of circulating tumour cells favours metastasis, whereas the release of TF-bearing MVs (microvesicles) into the circulation has been correlated with cancer-associated thrombosis. Given the role of coagulation proteins in tumour progression, it has been proposed that they could be targets for the development of new antitumour therapies.
Writing a Goal-Centered Syllabus (2017)

BRIEF SESSION DESCRIPTION: Syllabi don't always align well with stated course goals. It is important for students and faculty both to have a clear idea of the bigger picture purpose of a course and be able to see what students will do to accomplish learning in line with these goals.Â Developing a goal centered syllabus is critical for those teaching core courses, courses with a large number of sections, or distance courses that may be â€œhanded offâ€ to other instructors. Particularly in survey courses it is easy to let content drive the instruction and lose sight of broader course goals. Â This session will showcase different versions of a science course syllabus as an example to explore strategies for creating effective syllabi for a class in any discipline that centers around specified learning outcomes. Â Participants will have time to work on and receive feedback on their learning outcomes and syllabi. ________________________________________________________________ FULL ABSTRACT: Syllabi don't always align well with stated course goals. It is important for students and faculty both to have a clear idea of the bigger picture purpose of a course and be able to see what students will do to accomplish learning in line with these goals.Â Developing a goal centered syllabus is critical for those teaching core courses, courses with a large number of sections, or distance courses that may be â€œhanded offâ€ to other instructors. Particularly in survey courses it is easy to let content drive the instruction and lose sight of broader course goals. I will present two versions of a current syllabus for a science course to show discontinuities regarding goasl in the original document and how these were reduced or eliminated in the re-write. I will explain how learning goals can be integrated into a syllabus in a way that will help instructors, as well as students, get a clear picture of what the course should be about. Research on learning goals and their value in structuring student thinking as they approach course material will give depth and broaden the value of the exercise. While based on a specific example, I plan to generalize the approach so that it could be used by instructors at multiple levels in a variety of disciplines. Because the syllabus is often the first encounter a student has with a course beyond a title and a sentence long description, I will encourage making the syllabus somewhat more enjoyable to read, and clear in its vision of what the student be able to do as a result of the course. I plan to include a handout that faculty can use to read more abut designing goal-oriented syllabi and research that supports the concept. I would hope that faculty from any discipline will benefit from stepping back to take a look a their own syllabi after the presentation with the idea of seeing how goals are woven into the whole document rather than merely stated. Â Participants will have time to work on and receive feedback on their syllabi. More more resources about writing a syllabus:Â https://stearnscenter.gmu.edu/teaching/designing-your-syllabus
NK Cell Compartments and Their Activation by Dendritic Cells (2004)

Natural killer cells are innate effector cells of the immune system, believed to limit viremia and tumor burden before the onset of adaptive T and B cell immunity ([1][1], [2][2]). This task is met by an increase of NK cells in peripheral blood 3–5 days after infection or tumor cell transfer. This