gebhart/patrepeval huggingface dataset:
Stimulation of Lignocellulosic Biomass Hydrolysis by Proteins of Glycoside Hydrolase Family 61: Structure and Function of a Large, Enigmatic Family (2010)

Currently, the relatively high cost of enzymes such as glycoside hydrolases that catalyze cellulose hydrolysis represents a barrier to commercialization of a biorefinery capable of producing renewable transportable fuels such as ethanol from abundant lignocellulosic biomass. Among the many families of glycoside hydrolases that catalyze cellulose and hemicellulose hydrolysis, few are more enigmatic than family 61 (GH61), originally classified based on measurement of very weak endo-1,4-beta-d-glucanase activity in one family member. Here we show that certain GH61 proteins lack measurable hydrolytic activity by themselves but in the presence of various divalent metal ions can significantly reduce the total protein loading required to hydrolyze lignocellulosic biomass. We also solved the structure of one highly active GH61 protein and find that it is devoid of conserved, closely juxtaposed acidic side chains that could serve as general proton donor and nucleophile/base in a canonical hydrolytic reaction, and we conclude that the GH61 proteins are unlikely to be glycoside hydrolases. Structure-based mutagenesis shows the importance of several conserved residues for GH61 function. By incorporating the gene for one GH61 protein into a commercial Trichoderma reesei strain producing high levels of cellulolytic enzymes, we are able to reduce by 2-fold the total protein loading (and hence the cost) required to hydrolyze lignocellulosic biomass.
Direct volume rendering with shading via three-dimensional textures (1996)

A new and easy-to-implement method for direct volume rendering that uses 3D texture maps for acceleration, and incorporates directional lighting, is described. The implementation, called Voltx, produces high-quality images at nearly interactive speeds on workstations with hardware support for three-dimensional texture maps. Previously reported methods did not incorporate a light model, and did not address issues of multiple texture maps for large volumes. Our research shows that these extensions impact performance by about a factor of ten. Voltx supports orthographic, perspective, and stereo views. This paper describes the theory and implementation of this technique, and compares it to the shear-warp factorization approach. A rectilinear data set is converted into a three-dimensional texture map containing color and opacity information. Quantized normal vectors and a lookup table provide efficiency. A new tesselation of the sphere is described, which serves as the basis for normal-vector quantization. A new gradient-based shading criterion is described, in which the gradient magnitude is interpreted in the context of the field-data value and the material classification parameters, and not in isolation. In the rendering phase, the texture map is applied to a stack of parallel planes, which effectively cut the texture into many slabs. The slabs are composited to form an image.
Construction, function and immunogenicity of recombinant monoclonal antibodies. (1990)

Much of the interest in chimaeric antibodies stems from their presumed lack of immunogenicity in humans. We have tested this assumption using mouse models and have concluded that whilst chimaerisation can certainly lead to a reduction in the total anti-antibody response, a substantial anti-variable region response can nevertheless remain. As it therefore seems likely that determinants within the variable region lead to this anti-antibody response, we have initiated experiments to test whether it might be possible to use transgenic mice that carry human immunoglobulin gene segments in their germline configuration as a means of making a repertoire of entirely human antibodies.
Graft-versus-leukemia effect of donor lymphocyte transfusions in marrow grafted patients. European Group for Blood and Marrow Transplantation Working Party Chronic Leukemia [see comments] (1995)

The immune reactivity of allogeneic lymphocytes plays a major role in the control of leukemia after bone marrow transplantation. In patients with recurrent leukemia after marrow transplantation, chimerism and tolerance provide ideal conditions for adoptive immunotherapy with donor lymphocytes. We studied the effect of donor lymphocyte transfusions on acute and chronic leukemia in relapse after bone marrow transplantation. One hundred thirty-five patients with chronic myeloid leukemia (CML) (N = 84), acute myeloid leukemia (AML) (N = 23), acute lymphoblastic leukemia (ALL) (N = 22), myelodysplastic syndrome (MDS) (N = 5), and polycythemia vera with osteomyelofibrosis (PCV) (N = 1) were treated with transfusions of donor lymphocytes. Patients were monitored for response of leukemia, including in CML, the use of the polymerase chain reaction for bcr/abl mRNA transcripts and for the occurrence of graft-versus-host disease (GVHD) and myelosuppression. Complete remissions were induced by donor lymphocyte transfusions in 54 patients with CML (73%) and in the patient with PCV; complete remissions were also induced in five patients (29%) with AML and a patient with MDS. In contrast, ALL did not respond to adoptive immunotherapy with donor lymphocyte transfusions. Remissions were durable in patients treated for CML in chronic phase (probability of remission: 87% at 3 years). Lymphocyte transfusions were also given to 18 patients with ALL, AML, MDS, and transformed phase CML who were in remission after chemotherapy. These remissions were not durable. Fifty-two patients (41%) developed GVHD of grade 2 or more, and 41 patients (34%) showed signs of myelosuppression. Seventeen patients died without leukemia, 14 patients with GVHD and/or myelosuppression. Donor lymphocyte transfusions exert strong effects against myeloid forms of leukemia and induce durable remissions in CML.
Ultrastructural characterization of synaptic terminals formed on newly generated neurons in a song control nucleus of the adult canary forebrain (1985)

The fine structure of synaptic terminals contacting neurons generated in the forebrain of adult male canaries was investigated by autoradiography and electron microscopy. The procedure for labeling the new neurons included pretreating adult canaries with 3H-thymidine and sacrificing them 23-45 days later. Neurons were identified as newly generated by the presence of 3H-thymidine in the cell nucleus. The new neurons in the nucleus hyperstriatum ventralis, pars caudalis (HVc) were identified by autoradiography and light microscopy and examined with electron microscopy. Several types of synaptic terminals contacted the cell body and proximal dendrites of the newly formed neurons. Synaptic junctions were formed by terminals that contained spherical, agranular vesicles, large dense-core vesicles and spherical, agranular vesicles, and pleomorphic or flattened synaptic vesicles. Terminals that contained spherical vesicles were most often associated with asymmetric synaptic densities, and terminals that contained pleomorphic or flattened vesicles formed symmetric junctions. New neurons were also contacted by small terminals that contained few vesicles and had little pre- or postsynaptic density associated with the junction; these terminals may be a special type or may be in the process of developing their synaptic contact with the new neuron. In addition, rare terminals that appeared to be degenerating or to contain debris from other degenerating neural elements contacted new neurons. In summary, these data indicate that the new neurons, which are known to be inserted into existing neural networks, receive synaptic input from at least three different sources.
Toll‐like receptor 6‐independent signaling by diacylated lipopeptides (2004)

Bacterial lipopeptides are strong immune modulators that activate early host responses after infection as well as initiating adjuvant effects on the adaptive immune system. These lipopeptides induce signaling in cells of the immune system through Toll-like receptor 2 (TLR2)-TLR1 or TLR2-TLR6 heteromers. So far it has been thought that triacylated lipopeptides, such as the synthetic N-palmitoyl-S-[2,3-bis(palmitoyloxy)-(2RS)-propyl]-(R)-cysteine (Pam3)-CSK4, signal through TLR2-TLR1 heteromers, whereas diacylated lipopeptides, like the macrophage-activating lipopeptide from Mycoplasma fermentans (MALP2) or S-[2,3-bis(palmitoyloxy)-(2RS)-propyl]-(R)-cysteine (Pam2)-CGNNDESNISFKEK, induce signaling through TLR2-TLR6 heteromers. Using new synthetic lipopeptide derivatives we addressed the contribution of the lipid and, in particular, the peptide moieties with respect to TLR2 heteromer usage. In contrast to the current model of receptor usage, not only triacylated lipopeptides, but also diacylated lipopeptides like Pam2CSK4 and the elongated MALP2 analog Pam2CGNNDESNISFKEK-SK4 (MALP2-SK4) induced B lymphocyte proliferation and TNF-alpha secretion in macrophages in a TLR6-independent manner as determined with cells from TLR6-deficient mice. Our results indicate that both the lipid and the N-terminal peptides of lipoproteins contribute to the specificity of recognition by TLR2 heteromers and are responsible for the ligand-receptor interaction on host cells.
Immunogenic B-cell epitopes of Babesia bovis rhoptry-associated protein 1 are distinct from sequences conserved between species (1993)

Babesia bovis merozoite apical membrane polypeptide Bv60 was found to be rhoptry associated by immuno-electron microscopy and was redesignated rhoptry-associated protein 1 (RAP-1). The N-terminal 300 amino acids of RAP-1 have a high level of sequence similarity to the same N-terminal region of p58, its homolog from Babesia bigemina. However, the interspecies conserved sequences did not include RAP-1 surface-exposed B-cell epitopes as defined by monoclonal antibodies. Furthermore, neither heterologous B. bigemina immune nor monospecific anti-p58 bovine serum binds to whole RAP-1, indicating that the major B-cell epitopes recognized by these sera are also not encoded by the conserved sequences. Truncated RAP-1, expressed by a subclone encoding the N-terminal 235 amino acids, is weakly bound by antibodies in heterologous sera. A peptide representing the longest conserved amino acid sequence (amino acids 121 to 134) in this region is also weakly bound by antibodies in immune bovine sera, and rabbit antibodies induced by and strongly reactive with the peptide alone fail to bind native or denatured RAP-1. Thus, although the conserved region may contain one or more poorly immunogenic B-cell epitopes, these epitopes are inaccessible to antibody in whole RAP-1. The results indicate that the major immunogenic B-cell epitopes of RAP-1, including surface-accessible epitopes bound by monoclonal antibodies, are distinct from the conserved sequences representing putative functional domains.
The evolution of the immune response. VIII. Structural studies of the lamprey immuoglobulin. (1970)

Highly purified preparations of radiolabeled lamprey immunoglobulin have been employed to study the structure of the immunoglobulin of this primitive vertebrate. The identity of the labeled material with that of the native immunoglobulin has been established. The lamprey immunoglobulin appears to be unique among vertebrate immunoglobulins since it has a unique molecular weight, electrophoretic mobility, and sedimentation velocity. It is also extremely labile and dissociates in solvents in a complex manner. The observations presented show that this molecule lacks counterparts of heavy and light chains and does not possess interchain disulfide linkages between its major subunits. A structural model based on its dissociation behavior is presented and the implications of such a structure in terms of molecular function and phylogenetic development are discussed.
Innentitelbild: Synchronized Synthesis of Peptide‐Based Macrocycles by Digital Microfluidics (Angew. Chem. 46/2010) (2010)

Eine Mikrofluidiktechnik für die synchronisierte chemische Synthese wurde für die Bildung Peptid-basierter Makrocyclen und Analoga mit während einer Ringöffnung angebrachten Seitenketten entwickelt und angewendet. In dieser von A. R. Wheeler et al. in der Zuschrift auf S. 8807 ff. beschriebenen digitalen Mikrofluidiktechnik werden diskrete Tröpfchen von Proben und Reagentien durch elektrische Potentiale gesteuert, die an eine Elektrodenanordnung mit einer hydrophoben Isolatorbedeckung angelegt werden (Graphik: M. Jebrail/S. Youhanna).
Chinese language teaching and teacher training in Australia (2013)

摘要： 自国家汉办2006年启动海外汉语教师志愿者项目以来，志愿者的素质问题逐渐成为志愿者选派、培训及国际汉语教育专业人才培养关注的焦点。本文旨在探讨赴澳大利亚志愿者的必备素质与培养策略。文章以澳大利亚的中文教育状况为背景，通过对比澳洲本土教师从业资格与志愿者的选拔条件、培训内容，提出满足澳大利亚教学需求的志愿者应具备良好的英语沟通能力、扎实的专业素养、踏实的敬业精神，娴熟的多媒体课件制作技巧、和适合学生特点的组织管理课堂教学活动的技能。本文并就如何培养志愿者的上述素质提出了相应的培养策略，以期丰富国际汉语教师志愿者的选拔、培训及相关研究，探索高质量国际汉语人才培养的新途径。
Phosphorescent Iridium Complexes Based on 2-Phenylimidazo[1,2-a]pyridine Ligands:  Tuning of Emission Color toward the Blue Region and Application to Polymer Light-Emitting Devices (2007)

A series of new blue-phosphorescent iridium(III) complexes 1-14 with ligands of 2-phenylimidazo[1,2-a]pyridine (pip) derivatives were successfully prepared, and their electrochemical, photophysical, and electroluminescent (EL) properties were systematically investigated. It was found that the emission maxima are significantly dependent on the substituents on the phenyl ring in the range of 489-550 nm. For instance, electron-withdrawing groups such as F and CF3 shift the emission maxima to shorter wavelengths by lowering the HOMO levels (complexes 4-8), whereas the extended pi-conjugation leads to bathochromic shifts (2, 3). To obtain further information about the frontier orbital, substitution effects on the imidazole part were also investigated here, and it was found that electron-withdrawing or -donating substituents on the imidazole ring affected the emission maxima (9, 557 nm; 10, 525 nm). These results including their oxidation potentials suggest that the HOMO of the pip-based complex is a mixture of Ir-d, phenyl-pi, and imidazole-pi orbitals. From this viewpoint, combination of electron-withdrawing substituents on the phenyl ring with the use of another ancillary ligand enabled further blue shifts (13, 468, 499 nm; 14, 464, 494 nm). This new system based on pip is one of the rare examples of iridium complexes whose emissions can be tuned to the blue region. Preliminary polymer light-emitting devices (PLEDs) employing the Ir complexes were fabricated, and the devices showed moderate EL efficiencies.
Epigenetic Dedifferentiation of Somatic Cells into Pluripotency: Cellular Alchemy in the Age of Regenerative Medicine? (2007)

Ever since the derivation of the first human embryonic stem cell line, hopes have persisted for the treatment of a wide range of cellular degenerative diseases. However, significant immuno-incompatibility between donor cells and recipient patients remains an unsolved challenge. Currently, three main strategies are investigated in humans to create autologous pluripotent stem cells: somatic cell nuclear transfer, cell fusion and cell extract incubation. All methods exploit the fact that a somatic genome is amenable to epigenetic dedifferentiation into a more plastic state, presumably through direct exposure to and manipulation by heterologous transcriptional factors. Epigenetic reprogramming includes profound modifications of chromatin structure, but the responsible mechanisms that work in toti- and pluripotent cells remain largely unknown. This review presents a brief introduction to stem cell terminology and epigenetics, followed by a critical examination of the predominant methodologies involved. Finally, the search for specific reprogramming factors is discussed, and obstacles for the clinical implementation of reprogrammed cells are addressed.
Antibodies to pneumococcal polysaccharides in human milk: lack of relationship to colonization and acute otitis media (1996)

There was no reduction in nasopharyngeal carriage of S. pneumoniae among children fed milk with anti-capsular or anti-PC antibody activity, but carriage was increased in those children who received milk with anti-CWPS antibody activity. A protective role of antipolysaccharide or anti-CWPS antibodies in milk was not detected under the study conditions.
Human 3'-phosphoadenosine 5'-phosphosulfate synthetase: radiochemical enzymatic assay, biochemical properties, and hepatic variation. (2001)

Sulfation is a major pathway in the biotransformation of many drugs and other xenobiotic compounds. The sulfotransferase (SULT) enzymes that catalyze these reactions use 3'-phosphoadenosine 5'-phosphosulfate (PAPS) as a sulfate donor cosubstrate. The synthesis of PAPS from inorganic sulfate and ATP is catalyzed by PAPS synthetase (PAPSS). We previously cloned the genes for human PAPSS1 and PAPSS2 as a step toward pharmacogenetic studies of these enzymes. We have now developed a sensitive PAPSS radiochemical enzymatic assay for use in genotype-phenotype correlation analyses. This coupled assay uses the sulfation of 17beta-[(3)H]estradiol catalyzed by recombinant human SULT1E1 to measure PAPS, which has been generated by PAPSS during the initial step of the assay. SULT1E1 proved to be ideal for this application both because of its relative resistance to inhibition by ATP, a substrate for the PAPSS-catalyzed step, and because of its low K(m) values for both PAPS (58 nM) and estradiol (29 nM). After optimal PAPSS assay conditions had been established, substrate kinetic studies were performed with cytosol preparations from human liver and cerebral cortex, two tissues with very different expression patterns for PAPSS1 and PAPSS2 mRNA. Brain and liver cytosol PAPSS activities had apparent K(m) values for ATP of 0.26 and 0.62 mM, respectively, and for SO(4)(2-) of 0.08 and 0.31 mM, respectively. PAPSS activity was then measured in 83 human liver biopsy samples to determine the nature and extent of individual variation in this enzyme activity. An 18-fold variation was observed. This sensitive new radiochemical assay can now be used in pharmacogenetic studies of PAPSS in humans.
A tour of the stacks -- hypercard for libraries (1989)

HyperCard, qu'est-ce exactement? A cette question souvent posee des reponses tres diverses sont donnees. Cet article a pour objet de definir de facon claire et breve ce qu'est HyperCard, de preciser ses applications dans les bibliotheques et de donner une liste de ses possibilites afin de mieux comprendre et utiliser ce produit qui est plus un «environnement» pour creer des applications qu'un logiciel au sens habituel du terme, puisqu'il permet de combiner textes, graphiques, son video en un seul programme. (INTD)
The Clinical Examination of the Nervous System (1964)

12th ed. New York and London: Hoeber Medical Division, Harper and Row, Publishers, 1964, 460 pp. $8.75.
HCN2 Ion Channels Play a Central Role in Inflammatory and Neuropathic Pain (2011)

The rate of action potential firing in nociceptors is a major determinant of the intensity of pain. Possible modulators of action potential firing include the HCN ion channels, which generate an inward current, I(h), after hyperpolarization of the membrane. We found that genetic deletion of HCN2 removed the cyclic adenosine monophosphate (cAMP)-sensitive component of I(h) and abolished action potential firing caused by an elevation of cAMP in nociceptors. Mice in which HCN2 was specifically deleted in nociceptors expressing Na(V)1.8 had normal pain thresholds, but inflammation did not cause hyperalgesia to heat stimuli. After a nerve lesion, these mice showed no neuropathic pain in response to thermal or mechanical stimuli. Neuropathic pain is therefore initiated by HCN2-driven action potential firing in Na(V)1.8-expressing nociceptors.
In SYNC: The Ins and Outs of Circadian Oscillations in Calcium (2007)

Many stimuli induce short-term increases in the cytosolic concentration of free calcium ions ([Ca(2+)](i)) that encode signaling information about diverse physiological and developmental events. Slow cytosolic Ca(2+) oscillations that span an entire day have also been discovered in both plants and animals; it is thought that these daily Ca(2+) oscillations may encode circadian clock signaling information. A recent study focusing on the characterization of the extracellular Ca(2+)-sensing receptor (CAS) has provided insight into the molecular mechanisms by which the daily Ca(2+) oscillation in plants is generated. We summarize the major findings regarding daily oscillations of cytosolic Ca(2+) concentrations in plants and animals, and discuss hypothetical biological roles for the circadian clock-regulated physiology in plants.
Functional expression of a probable Arabidopsis thaliana potassium channel in Saccharomyces cerevisiae. (1992)

We report the isolation of a cDNA (KAT1) from Arabidopsis thaliana that encodes a probable K+ channel. KAT1 was cloned by its ability to suppress a K+ transport-defective phenotype in mutant Saccharomyces cerevisiae cells. This suppression is sensitive to known K+ channel blockers, including tetraethylammonium and Ba2+ ions. The KAT1 cDNA contains an open reading frame capable of encoding a 78-kDa protein that shares structural features found in the Shaker superfamily of K+ channels. These include a cluster of six putative membrane-spanning helices (S1-S6) at the amino terminus of the protein, a presumed voltage-sensing region containing Arg/Lys-Xaa-Xaa-Arg/Lys repeats within S4, and the highly conserved pore-forming region (known as H5 or SS1-SS2). Our results suggest that the structural motif for K+ channels has been conserved between plants and animals.
Feedback generated holograms (1994)

Holograms are created in a binary, phase-only, spatial light modulator by feedback from a single detector via a computer performing iterative optimisation. The holograms reveal minor phase imperfections in the optical system and produce focused spots in the output plane with near diffraction limited performance.
Intradermal immunization of mice with radiation-attenuated sporozoites of Plasmodium yoelii induces effective protective immunity (2010)

The use of a sub-microlitre syringe for intradermal injections yielded excellent protective immunity. ID-immunization with large numbers of radiation-attenuated P. yoelii sporozoites led to levels of protective immunity comparable to those achieved by IV-immunization. It remains to be determined whether an adjuvant treatment can be found to substantially reduce the numbers of attenuated sporozoites required to achieve a strong protective immunity with as few doses as possible for possible extension to immunization of humans.