gebhart/patrepeval huggingface dataset:
Rigid-Core Fluorescent Oligothiophene-S,S-dioxide Isothiocyanates. Synthesis, Optical Characterization, and Conjugation to Monoclonal Antibodies (2003)

In this paper we report the synthesis of a new class of fluorescent thiophene-based isothiocyanates containing a 3,5-disubstituted dithieno[3,2-b:2',3'-d]thiophene-4,4-dioxide moiety as the rigid core, using the palladium-catalyzed cross-coupling reaction of aryl stannanes with aryl bromides (Stille coupling). By changing the molecular structure through the progressive addition of thienylene or phenylene units, light emission from blue to orange was obtained. Photoluminescence quantum yields ranged from 0.65 to 0.90 for blue and green light emitters to 0.10-0.35 for yellow and orange ones. Optically and chemically stable fluorescent bioconjugates were prepared by spontaneous reaction of the isothiocyanates with monoclonal antibodies anti-CD3 and anti-CD8 in slightly basic solutions.
Simultaneous Determination of Anionic Intermediates for Bacillus subtilis Metabolic Pathways by Capillary Electrophoresis Electrospray Ionization Mass Spectrometry (2002)

A method for simultaneous determination of anionic metabolites based on capillary electrophoresis (CE) coupled to electrospray ionization mass spectrometry is described. To prevent current drop by the system, electroosmotic flow (EOF) reversal by using a cationic polymer-coated capillary was indispensable. A mixture containing 32 standards including carboxylic acids, phosphorylated carboxylic acids, phosphorylated saccharides, nucleotides, and nicotinamide and flavin adenine coenzymes of glycolysis and the tricarboxylic acid cycle pathways were separated by CE and selectively detected by a quadrupole mass spectrometer with a sheath-flow electrospray ionization interface. Key to the analysis was EOF reversal using a cationic polymer-coated capillary and an electrolyte system consisting of 50 mM ammonium acetate, pH 9.0. The relative standard deviations of the method were better than 0.4% for migration times and between 0.9% and 5.4% for peak areas. The concentration detection limits for these metabolites were between 0.3 and 6.7 micromol/L with pressure injection of 50 mbar for 30 s (30 nL); i.e., mass detection limits ranged from 9 to 200 fmol, at a signal-to-noise ratio of 3. This method was applied to the comprehensive analysis of metabolic intermediates extracted from Bacillus subtilis, and 27 anionic metabolites could be directly detected and quantified.
Recent advances in solid sorbents for CO2capture and new development trends (2014)

Carbon dioxide (CO<sub>2</sub>) capture using solid sorbents has been recognized as a very promising technology that has attracted intense attention from both academic and industrial fields in the last decade.
Chemical Methods for the Simultaneous Quantitation of Metabolites and Proteins from Single Cells (2015)

We describe chemical approaches for integrated metabolic and proteomic assays from single cells. Quantitative assays for intracellular metabolites, including glucose uptake and three other species, are designed as surface-competitive binding assays with fluorescence readouts. This enables integration into a microarray format with functional protein immunoassays, all of which are incorporated into the microchambers of a single-cell barcode chip (SCBC). By using the SCBC, we interrogate the response of human-derived glioblastoma cancer cells to epidermal growth factor receptor inhibition. We report, for the first time, on both the intercellular metabolic heterogeneity as well as the baseline and drug-induced changes in the metabolite-phosphoprotein correlation network.
State and Context-Dependent Information Management and Wealth Accumulation: An Information Analysis of the Billionaires between Taiwan and China (2008)

From the Forbes Magazine survey of the world’s 538 richest, seventy seven (77) or about 14.4% were identified as born in Asia (Asia Week, June 28, 2001). In addition, the top 100 billionaires (in $NT) in Taiwan, 2001 and 2002 were surveyed by Taiwan Smart Monthly magazine ( Nov 11, 2002) and another top 100 billionaires in China (in U.S dollars) were reported by the Forbes magazine in 2004. This paper utilizes Liu ,Lin, Lee and Chou’s (1996) state and context dependent information management model specification (Joseph & John, 2006), and equity account dependent variables to study the underlying intercultural factors affecting the richest 77 Asian and the top 100 Taiwanese and Chinese entrepreneurs respectively by such attributes and characteristics as shown in the bamboo network (Weidenbaun & Hughes 1996), Liu and Grawford(1996) and Fedorowicz, Gogan and Ray,(2004). Using regression and categorical techniques, this paper shows that important intercultural information factors affecting the world’s richest Asian billionaires are age, marital status, Chinese cultural background and self-made accomplishment, economic and national business condition, education, training and total quality management, and the human development index, etc. While most billionaires in Taiwan came from the information technology (IT) industry, but due to different stage of IT development, many billionaires in China were found in real estate and manufacturing management.
Enhanced MAF Oncogene Expression and Breast Cancer Bone Metastasis (2015)

These results suggest that MAF is a mediator of breast cancer bone metastasis. 16q23 gain or MAF protein overexpression in tumors may help to select patients at risk of bone relapse.
PEP-FOLD3: fasterde novostructure prediction for linear peptides in solution and in complex (2016)

Structure determination of linear peptides of 5-50 amino acids in aqueous solution and interacting with proteins is a key aspect in structural biology. PEP-FOLD3 is a novel computational framework, that allows both (i) de novo free or biased prediction for linear peptides between 5 and 50 amino acids, and (ii) the generation of native-like conformations of peptides interacting with a protein when the interaction site is known in advance. PEP-FOLD3 is fast, and usually returns solutions in a few minutes. Testing PEP-FOLD3 on 56 peptides in aqueous solution led to experimental-like conformations for 80% of the targets. Using a benchmark of 61 peptide-protein targets starting from the unbound form of the protein receptor, PEP-FOLD3 was able to generate peptide poses deviating on average by 3.3Å from the experimental conformation and return a native-like pose in the first 10 clusters for 52% of the targets. PEP-FOLD3 is available at http://bioserv.rpbs.univ-paris-diderot.fr/services/PEP-FOLD3.
Les arts décoratifs appliqués à l'horlogerie des XVIIIe et XIXe siècles en France (2014)

L'aspect qui intéresse ce travail de mémoire est une ébauche de normalisation de terminologie décorative des pendules car cela nous est apparu indispensable. La chronologie de notre étude s'étend du règne de Louis XIV (1643-1715) à la fin de celui de Louis-Philippe (1848). Ces deux siècles ainsi couverts sont une période faste pour les arts décoratifs et l'horlogerie a évolué au gré des modes qui ont marqué ces époques. Cette fourchette chronologique nous permet de mesurer l'impact qu'ont eu les arts de l'ameublement sur les pendules, objets scientifiques et mécaniques. Cette période voit se combiner pour les horloges les statuts d'objets d'art et d'objets scientifiques. Les pendules reflètent-elles les décors dominants des XVIIIe et XIXe siècles en France, ou sont-elles novatrices ? Existait-il un type de décor spécifique aux pendules ?
Fluid flow fundamentals (1996)

Proper application of new developments in production logging technology requires a thorough understanding of complex fluid dynamics. The basics of fluid flow in pipe are reviewed. 5 figs., 2 refs.
Apoptotic and proliferative activity in the neoplastic progression of Barrett's oesophagus: a comparative study (1999)

The balance between proliferation and apoptosis within a tissue is important in controlling its overall growth. When either or both are altered, uncontrolled cell proliferation can contribute to cancer. The aim of this study was to investigate apoptosis and proliferation in the progression from Barrett's oesophagus to adenocarcinoma. Fifty-one paraffin sections of Barrett's mucosa with both intestinal and gastric-type Barrett's mucosa, dysplasia, and adenocarcinoma, from 28 patients, were examined for apoptosis using haematoxylin and eosin (H&E)-stained sections counterstained immunohistochemically with CD45 to distinguish leucocytes from apoptotic bodies. Proliferation was detected by immunohistochemistry using the MIB-1 (Ki-67) antibody. There was an increase in proliferation in dysplastic and carcinomatous tissue compared with metaplastic tissue (p=0.0001). In dysplasia, proliferation was distributed throughout the basal-luminal axis, whereas in metaplasia, cell division was compartmentalized to the lower crypt (p<0.001). Conversely, there was a decrease in apoptosis in the upper crypt and luminal surface in dysplasia and adenocarcinoma compared with metaplasia (p<0.0008). There was a significant increase in apoptotic activity in intestinal-type Barrett's mucosa compared with gastric-type. There was a highly significant increase in the glandular proliferation to apoptosis ratio (GPAR) in the progression of metaplasia to dysplasia to adenocarcinoma (p=0.001). The shift in the GPAR in the progression of neoplastic change suggests that it may be a useful and sensitive marker of neoplastic change in Barrett's oesophagus, especially if the assessment of both apoptotic and proliferative activity in the mucosa can be made easier by more sophisticated technical methods.
Isolation and characterization of human peripheral blood dendritic cells (1993)

Dendritic cells (DC) are potent APC that can be purified from cultured peripheral blood non-T cells. Because no specific cell surface marker has been found, the lineage of DC remains obscure. The purpose of these studies was to determine the circulating blood cells that could give rise to functional human DC. DC were enriched when purified by standard techniques from non-T cells that were treated with L-leucyl-L-leucine methyl ester, known to be toxic to monocytes and cytolytic cells. To determine whether monocytes or B cells could give rise to DC, fresh non-T cells were sorted into CD14+ monocytes, CD19+ B cells, and CD14- and CD19- cells. Although there was some enrichment for APC function by cultured nonadherent CD14- or CD19- cells, a marked enrichment for cells with dendritic morphology and potent APC function was found in the population that was sorted by the absence of expression of CD14, CD19, CD3, and CD16. More than 90% of the CD14-CD19-CD16-CD3- sorted cells, and of control DC, expressed the myeloid markers CD13 and CD33. Therefore, fresh non-T cells were sorted based on the expression of these myeloid markers. In comparison with CD33-CD14- B cells, some of the CD33+ cells expressed CD14 dimly. However, they were easily distinguished from monocytes, which intensely expressed CD14. CD33+CD14dim cells developed dendritic processes and were more potent APC than control DC, CD33+CD14+, or CD33-CD14- cells. Although freshly isolated CD33+CD14dim DC expressed a number of cell surface molecules also expressed by CD14+ monocytes, they demonstrated lower levels of lysosomal enzymes and a lack of FcR-mediated phagocytosis in comparison with monocytes. Differentiation of morphology and phenotype of CD33+CD14dim cells occurred within 6 to 36 h in culture. However, the CD33+CD14dim cells could effectively function as APC without prolonged preincubation to develop dendritic morphology. These data indicate that human blood DC arise from precursors that express the myeloid lineage markers CD13 and CD33, but are functionally distinct from classic CD14+ monocytes.
Structurally Altered Peptides Reveal an Important Role for N-terminal Heptad Repeat Binding and Stability in the Inhibitory Action of HIV-1 Peptide DP178 (2006)

Human immunodeficiency virus 1 gp41 folds into a six-helix bundle whereby three C-terminal heptad repeat regions pack in an anti-parallel manner against the coiled-coil formed by three N-terminal heptad repeats (NHR). Peptides that inhibit bundle formation contributed significantly to the understanding of the entry mechanism of the virus. DP178, which partially overlaps C-terminal heptad repeats, prevents bundle formation through an undefined mechanism; additionally it has been suggested to bind other ENV regions and arrest fusion in an unknown manner. We used two structurally altered DP178 peptides; in each, two sequential amino acids were substituted into their d configuration, d-SQ in the hydrophilic N-terminal region and d-LW in the hydrophobic C-terminal. Importantly, we generated an elongated NHR peptide, N54, obtaining the full N-helix docking site for DP178. Interestingly, d-LW retained wild type fusion inhibitory activity, whereas d-SQ exhibited significantly reduced activity. In correlation with the inhibitory data, CD spectroscopy and fluorescence studies revealed that all the DP178 peptides interact with N54, albeit with different stabilities of the bundles. We conclude that strong binding of DP178 N-terminal region to the endogenous NHR, without significant contribution of the C-terminal sequence of DP178 to core formation, is vital for DP178 inhibition. The finding that d-amino acid incorporation in the C terminus did not affect activity or membrane binding as revealed by surface plasmon resonance correlates with an additional membrane binding site, or membrane anchoring role, for the C terminus, which works synergistically with the N terminus to inhibit fusion.
Preparation and characterization of recombinant DNA-derived human interferon-gamma. (1985)

An attempt was made to prepare a highly purified, active recombinant DNA-derived human interferon-gamma. When the protein was denatured in urea and refolded, gel filtration and sedimentation velocity experiments indicated the presence of two forms, which are different in size and are not in a rapid reversible equilibrium. The two forms could be chromatographically separated. Far-UV circular dichroic spectra indicated the presence of secondary structures for both forms. Near-UV circular dichroic spectra revealed that the smaller form is folded into a rigid tertiary structure. The antiviral activity of the two forms of interferon-gamma showed a significant difference, i.e. the smaller form was 4-8-fold more active than the larger form. A variety of experiments show that the smaller form is more active, homogeneous, soluble, and stable than the larger form.
Bilayer Resist Method for Room-Temperature Nanoimprint Lithography (2004)

A compact nanoimprint lithography (NIL) apparatus using the driving power of a servomotor has been newly developed. A bilayer resist method using hydrogen silsequioxane (HSQ) as a top layer and AZ photoresist as a bottom layer has been proposed to achieve high-aspect resist patterns on a nonflat surface for room-temperature nanoimprint lithography (RT-NIL). The etching rate ratio of HSQ to AZ photoresist was higher than 100 for O 2 reactive ion etching (RIE), indicating that the HSQ top layer has sufficient etching tolerance. We have achieved the high-aspect nanostructure patterns of 100-nm-linewidth and 1-µm-height using the NIL apparatus developed here.
Three-dimensional structure of beta 2-microglobulin. (1985)

The three-dimensional structure of beta 2-microglobulin, the light chain of the major histocompatibility complex class I antigens, has been determined by x-ray crystallography. An electron density map of the bovine protein was calculated at a nominal resolution of 2.9 A by using the methods of multiple isomorphous replacement and electron density modification refinement. The molecule is approximately 45 X 25 X 20 A in size. Almost half of the amino acid residues participate in two large beta structures, one of four strands and the other of three, linked by a central disulfide bond. The molecule thus strongly resembles Ig constant domains in polypeptide chain folding and overall tertiary structure. Amino acid residues that are the same in the sequences of beta 2-microglobulin and Ig constant domains are predominantly in the interior of the molecule, whereas residues conserved among beta 2-microglobulins from different species are both in the interior and on the molecular surface. In the crystals studied, the molecule is clearly monomeric, consistent with the observation that beta 2-microglobulin, unlike Ig constant domains, apparently does not form dimers in vivo but associates with the heavy chains of major histocompatibility complex antigens. Our results demonstrate that, at the level of detailed three-dimensional structure, the light chain of the major histocompatibility class I antigens belongs to a superfamily of structures related to the Ig constant domains.
Biologic importance of neuraminidase stalk length in influenza A virus (1993)

To investigate the biologic importance of the neuraminidase (NA) stalk of influenza A virus, we generated mutant viruses of A/WSN/33 (H1N1) with stalks of various lengths (0 to 52 amino acids), by using the recently developed reverse genetics system. These mutant viruses, including one that lacked the entire stalk, replicated in tissue culture to the level of the parent virus, whose NA stalk contains 24 amino acid residues. In eggs, however, the length of the stalk was correlated with the efficiency of virus replication: the longer the stalk, the better the replication. This finding indicates that the length of the NA stalk affects the host range of influenza A viruses. The NA stalkless mutant was highly attenuated in mice; none of the animals died even after intranasal inoculation of 10(6) PFU of the virus (the dose of the parent virus required to kill 50% of mice was 10(2.5) PFU). Moreover, the stalkless mutant replicated only in the respiratory organs, whereas the parent virus caused systemic infection in mice. Thus, attenuation of the virus with the deletion of the entire NA stalk raises the possibility of its use as live vaccines.
697 Tumor-targeted CD28 costimulatory bispecific antibodies enhance T cell activation in solid tumors (2020)

<h3>Background</h3> T cells in the tumor micro-environment require TCR/MHC engagement and co-stimulatory receptor engagement to achieve complete activation. Solid tumors often lack expression of CD28 ligands, so we hypothesized that activation of CD28 signaling could be beneficial in solid tumors. We designed tumor-associated-antigen (TAA) x CD28 bispecific antibodies that conditionally costimulate CD28 only in the presence of TAA and TCR engagement. Clinical application of this class of antibodies has potential to enhance activity of either anti-PD(L)1 antibodies or TAA x CD3 T cell engagers. <h3>Methods</h3> We designed a stability and affinity optimized anti-CD28 antibody that can be paired with TAA of choice to engage CD28 monovalently using Xencor’s XmAb 2+1 and 1+1 platforms. In vitro T cell activation with these bispecifics was measured by T cell proliferation, cytokine production, and cytotoxicity, in co-cultures of human cancer cell lines mixed with primary human CD3-stimulated T cells. In vitro activity was validated in a CMV recall assay measuring CMV+ T cell proliferation of CMV+ PBMC co-cultured with cancer cell lines ectopically treated with pp65-derived NLV-peptide. In vivo anti-tumor and T cell proliferative activity of B7H3 x CD28 bispecific antibodies were determined in tumor-bearing huPBMC-NSG mice treated simultaneously with TAA x CD3 bispecific antibody. In vivo activity of PDL1 x CD28 antibodies was determined with hCD28 KI mice inoculated with MC38 tumors expressing hPDL1-antigen. Finally, safety and tolerability of B7H3 x CD28 and PDL1 x CD28 was determined in cynomolgus monkeys. <h3>Results</h3> B7H3 x CD28 and PDL1 x CD28 antibodies enhanced T cell degranulation, cytokine secretion, and cancer cell cytotoxicity in concert with CD3 stimulation only in the presence of target antigen. B7H3 x CD28, alone or in combination with anti-PD1 antibody, enhanced proliferation of CMV+ T cells recognizing cancer cells loaded with pp65-derived NLV peptide. PDL1 x CD28 also enhanced CMV+ cell expansion but did not synergize with anti-PD1 antibody treatment. B7H3 x CD28 significantly enhanced in vivo anti-tumor activity of TAA x CD3 antibodies while also promoting greater T cell expansion. In hCD28 mice inoculated with MC38 tumors expressing hPDL1, PDL1 x CD28 antibody inhibited tumor growth greater than an anti-PDL1 antibody alone. B7H3 x CD28 and PDL1 x CD28 were well tolerated in cynomolgus monkeys. <h3>Conclusions</h3> B7H3 x CD28 and PDL1 x CD28 bispecific antibodies show promising anti-tumor activity and warrant further development.
High Throughput Tip-Less Electrospinning via a Circular Cylindrical Electrode (2010)

High throughput production of nanofibers by means of "Tip-less Electrospinning" (TLES) has been demonstrated using a circular cylinder as the emitting electrode. Electrohydrodynamics instabilities on a thin liquid film under high electrical field can generate artificial liquid jets for the TLES process. Experimental results have shown that the yield of poly(ethylene oxide) nanofibers can be more than 260 times in weight as compared with a single-jet electrospinning process. Parameters affecting the TLES process including applied voltage, polymer solution concentration, electrode-to-substrate distance and the thickness of liquid films have been characterized. As such, TLES has potential for high-throughput, massive production of electrospun nanofibers.
Proteinase Inhibitors in Nicotiana alata Stigmas Are Derived from a Precursor Protein Which Is Processed into Five Homologous Inhibitors (1993)

Angela H. Atkinson, Robyn L. Heath, Richard J. Simpson, Adrienne E. Clarke, Marilyn A. Anderson, Proteinase Inhibitors in Nicotiana alata Stigmas Are Derived from a Precursor Protein Which Is Processed into Five Homologous Inhibitors, The Plant Cell, Vol. 5, No. 2 (Feb., 1993), pp. 203-213
DIPYRIDAMOLE AS A MODULATOR OF MULTIDRUG-RESISTANCE IN TUMOR-CELLS IN-VITRO (1995)

The aim of the present study was to investigate in vitro the effect on LoVo cells (LoVo-S, doxorubicin-sensitive, and LoVo-R, doxorubicin-resistant) on the association of dipyridamole and certain antiblastic drugs (doxorubicin, idarubicin, mitoxantrone, teniposide) with different mechanisms of action. The cells were treated for 48 hours with the drugs, or were left for 24 hours without treatment (recovery period). The results demonstrate that dipyridamole possesses an inhibitory effect on cell growth, and that it potentiates the cytotoxic effect of the tested antiblastic drugs, particularly on LoVo-R cells. In the recovery period the inhibitory effect of dipyridamole on LoVo-S and LoVo-R cells was reversible, while the effect of the antitumour drugs, either alone or in association with dipyridamole, persisted. We suggest that dipyridamole has a synergistic effect on LoVo cell growth when associated with antiblastics; the increased effect produced on LoVo-R cells is indicative for a reversion of multidrug resistance, probably via a mechanism related to transmembrane transport system.
Thermo-mechanics of 3D-wafer level and 3D stacked IC packaging technologies (2008)

The miniaturisation 3D integration/stacking systems has a significant impact on both thermal resistance and thermo-mechanical reliability. The trends regarding these issues are summarised for the different 3D integration approaches: 3D-SIP, 3D-WLP and 3D-SIC.