gebhart/patrepeval huggingface dataset:
Interaction of human monocyte Fc gamma receptors with rat IgG2b. A new indicator for the Fc gamma RIIa (R-H131) polymorphism. (1995)

Rat mAbs receive considerable interest for immunologic intervention in man. The rat IgG2b isotype has previously been found to be optimally active both in vivo and in vitro. We found that both a rat IgG2b CD3 mAb and a monovalent hybrid rat IgG2b-mouse IgG1 bispecific Ab triggered T cell activation in PBMC. Inhibition analyses with mAb blocking different human IgG Fc receptors (Fc gamma R) showed a dimorphic pattern. In donors expressing an Fc gamma RIIa-R/R131 allotype (previously defined on the basis of interaction with mouse (m) IgG1 as "high responder") anti-Fc gamma RI mAb 197 inhibited rat IgG2b induced T cell mitogenesis almost completely. In Fc gamma RIIa-H/H131 ("low responder" allotype) donors, however, both anti-Fc gamma RI mAb 197 and anti-Fc gamma RII mAb IV.3 were essential for optimal inhibition of mitogenesis. T cell proliferation experiments performed with the use of Fc gamma R-transfected fibroblasts as accessory cells showed the high affinity Fc gamma RIa (CD64) to interact with both rat IgG2b and rat IgG2b-mlgG1 hybrid CD3 mAb. The use of the two types of Fc gamma RIIa (CD32)-transfectants instead showed rat IgG2b CD3 mAb to interact solely with the IIa-H/H131 allotype. Interestingly, rat IgG2b-mlgG1 hybrid mAb did not interact effectively with this low affinity Fc gamma R. This suggests a requirement for only one rat IgG2b H chain for Fc gamma RIa-mediated binding, whereas two identical H chains seem to be necessary for proper interaction with Fc gamma RIIa. Ab-sensitized RBC-rosette experiments performed with the use of a rat IgG2b anti-NIP mAb confirmed the interaction pattern observed with rat CD3 mAb, supporting the phenomena to be isotype-, and not mAb-, dependent. These analyses point to a unique reactivity pattern for rat IgG2b Abs, interacting both with the high affinity Fc gamma RIa in all donors and Fc gamma RIIa of individuals expressing the IIa-H131 allotype.
Natriuretic peptide system in fetal heart and circulation (2002)

Atrial natriuretic peptide, brain natriuretic peptide and C-type natriuretic peptide belong to a family of hormones that have diuretic, natriuretic and vasodepressor activity and play a part in pressure and volume homeostasis in adults. As little is known about the natriuretic peptides during cardiac maturation, this review summarizes current knowledge about the early expression of components of the natriuretic peptide system in the heart during embryonic and fetal development. The data indicate a functional importance of the fetal natriuretic peptide system, especially under pathophysiological conditions. Thus, in the fetus, the system fulfils important beneficial compensatory roles in cardiovascular disease, rather than in day-to-day pressure and volume homeostasis. In comparison with data on the relevance of natriuretic peptides in adults, those summarized here indicate a functional maturation of the natriuretic peptide system during ontogeny in mammals.
Sequences of the cell-attachment sites of reovirus type 3 and its anti-idiotypic/antireceptor antibody: modeling of their three-dimensional structures. (1988)

Previous studies have identified an area of amino acid sequence similarity shared by the reovirus type 3 cell-attachment protein sigma 1 and an anti-idiotypic/antireceptor monoclonal antibody (mAb) 87.92.6 that mimics reovirus type 3 by attaching to the same cell-surface receptor. We found that synthetic peptides corresponding to this area of primary sequence similarity bind a neutralizing mAb 9BG5 against which the mAb 87.92.6 is directed. The synthetic peptides compete with mAb 87.92.6 and reovirus type 3 for binding by mAb 9BG5 and displace mAb 87.92.6 and reovirus type 3 from binding to the cell-surface reovirus type 3 receptor. Such observations show that the shared primary structure between reovirus type 3 sigma 1 polypeptide and antireceptor mAb 87.92.6 defines the oligopeptide neutralizing/cell-attachment epitope of reovirus type 3. Computer modeling of this epitope, by use of sequence similarities of known immunoglobulin hypervariable loop conformations, permits an examination of the rudimentary three-dimensional structure of this epitope.
Novel prodrugs which are activated to cytotoxic alkylating agents by carboxypeptidase G2 (1990)

The synthesis of three novel prodrugs, 4-[bis[2-(mesyloxy)ethyl]amino]benzoyl-L-glutamic acid (7), 4-[(2-chloroethyl)[2-(mesyloxy)ethyl]amino]benzoyl-L-glutamic acid (8), and 4-[bis(2-chloroethyl)amino]benzoyl-L-glutamic acid (9), for use as anticancer agents, is described here. Each is a bifunctional alkylating agent in which the activating effect of the ionized carboxyl function is masked through an amide bond to the glutamic acid residue. These relatively inactive prodrugs are designed to be activated to their corresponding nitrogen alkylating agents (10, 11, and 12, respectively) at a tumor site by prior administration of a monoclonal antibody conjugated to the bacterial enzyme carboxypeptidase G2 (CPG2). The viability of two different tumor cell lines was monitored with each prodrug in the presence of CPG2. All three compounds showed substantial prodrug activity--with conversion to the corresponding active drug leading to greatly increased cytotoxicity.
High sequence specificity of micrococcal nuclease (1981)

The substrate specificity of micrococcal nuclease (EC 3.1.4.7.) has been studied. The enzyme recognises features of nucleotide composition, nucleotide sequence and tertiary structure of DNA. Kinetic analysis indicates that the rate of cleavage is 30 times greater at the 5' side of A or T than at G or C. Digestion of end-labelled linear DNA molecules of known sequence revealed that only a limited number of sites are cut, generating a highly specific pattern of fragments. The frequency of cleavage at each site has been determined and it may reflect the poor base overlap in the 5' T-A 3' stack as well as the length of contiguous A and T residues. The same sequence preferences are found when DNA is assembled into nucleosomes. Deoxyribonuclease 1 (EC 3.1.4.5.) recognises many of the same sequence features. Micrococcal nuclease also mimics nuclease S1 selectively cleaving an inverted repeat in supercoiled pBR322. The value of micrococcal nuclease as a "non-specific" enzymatic probe for studying nucleosome phasing is questioned.
Effects of Omega-3 Fatty Acids in Hypertriglyceridemic States (1988)

In the experimental studies reported in this review, dietary omega-3 fatty acids from fish and fish oil had profound hypolipidemic effects in normal subjects and in hypertriglyceridemic patients with combined hyperlipidemia (type IIb) and type V hyperlipidemia. In these studies, 68 adults participated in carefully controlled metabolic experiments. In all subjects and patients, there were marked reductions in plasma cholesterol and triglyceride concentrations, with triglyceride lowering being especially great. There were also reductions in VLDL, chylomicrons, remnants, LDL, apo B, and apo E. The HDL changes were inconstant and varied from subject to subject. Whereas the mechanism of the hypolipidemic action of the omega-6-rich vegetable oils containing linoleic acid, such as corn or safflower oil, still remains obscure, the mechanism of action of the omega-3 fatty acids in fish oil has been well documented within a few years of their use as hypolipidemic agents. The synthesis of triglyceride and VLDL in the liver is greatly reduced by omega-3 fatty acids. At the same time, the turnover of VLDL in plasma is greatly shortened. LDL production is decreased. Combined with other dietary manipulations, such as a reduction in saturated fat and dietary cholesterol, the use of omega-3 fatty acids to treat hyperlipidemic and especially hypertriglyceridemic patients would appear to have a well-supported rationale. Further studies are required to delineate exact doses and precise indications for different types of hyperlipidemia and to differentiate the effects of, if any, the two major omega-3 fatty acids in fish oil, EPA and DHA. Coupled with the known antithrombotic actions of omega-3 fatty acids from fish oil because of changes in prostaglandin secretion and platelet function, these hypolipidemic effects would appear to have an important potential role in the control of coronary heart disease and other atherosclerotic disorders.
Diffusion of Aroma Compounds into Packaging Films under High Pressure (1996)

Diffusion of the aroma compounds p-cymene and acetophenone into three different packaging films was studied at 500 MPa for kinetic measurement, and in the range of 0.1–450 MPa for measurement of the diffusion rate as a function of pressure.  Absorption of aroma compounds was lower in pressurized than in nonpressurized polymeric films. PET/A1/LDPE was impermeable to either substance; absorption was limited to the LDPE lining inside. Distribution of aroma compounds to solution and films depended on their polarity; acetophenone virtually did not diffuse into the films.  Measurements of the diffusion rate as a function of pressure has shown a diffusion barrier in the range of 100–200 MPa for the films investigated. The assumption that this is due to transition into the glassy state has been supported by studies of diffusion as a function of temperature.
Conformational Changes Mediate Interleukin-10 Receptor 2 (IL-10R2) Binding to IL-10 and Assembly of the Signaling Complex (2006)

Interleukin-10 receptor 2 (IL-10R2) is a critical component of the IL-10.IL-10R1.IL-10R2 complex which regulates IL-10-mediated immunomodulatory responses. The ternary IL-10 signaling complex is assembled in a sequential order with the IL-10.IL-10R1 interaction occurring first followed by engagement of the IL-10R2 chain. In this study we map the IL-10R2 binding site on IL-10 using surface plasmon resonance and cell-based assays. Critical IL-10R2 binding residues are located in helix A adjacent to the previously identified IL-10R1 recognition surface. Interestingly, IL-10R2 binding residues located in the N-terminal end of helix A exhibit large structural differences between unbound cIL-10 and cIL-10.IL-10R1 crystal structures. This suggests IL-10R1-induced conformational changes regulate IL-10R2 binding and assembly of the ternary IL-10.IL-10R1.IL-10R2 complex. The basic mechanistic features of the assembly process are likely shared by six additional class-2 cytokines (viral IL-10s, IL-22, IL-26, IL-28A, IL28B, and IL-29) to promote IL-10R2 binding to six additional receptor complexes. These studies highlight the importance of structure in regulating low affinity protein-protein interactions and IL-10 signal transduction.
Novel Anode for High Power Zinc-Air Batteries (2008)

This paper introduces newly developed solid zinc anodes using fibrous material for high power applications in zinc-air battery systems. The improved performance of the anodes in two different sizes of battery is demonstrated. The possibilities for control of electrode porosity and for anode/battery design using fibrous materials are discussed in light of experimental data. Because of its mechanical integrity and connectivity, the fibrous solid anode has good electrical conductivity, mechanical stability, and design flexibility for controlling mass distribution, porosity and effective surface area. Experimental data indicated excellent material utilization at various discharge rates. The zinc-air battery powered an electric bicycle and demonstrated good results.
Human mesenchymal stem cells in contact with their environment: surface characteristics and the integrin system (2007)

The identification of mesenchymal stem cells (MSCs) in adult human tissues and the disclosure of their self-renew-al and multi-lineage differentiation capabilities have provided exciting prospects for cell-based regeneration and tis-sue engineering. Although a considerable amount of data is available describing MSCs, there is still lack of information regarding the molecular mechanisms that govern their adhesion and migration. In this work, we will review the current state of knowledge on integrins and other adhesion molecules found to be expressed on MSCs. The discussed topics include the characteristics of MSCs and their clinical applications, integrins and their central role in cell-matrix attachment and migration, and comments on mobilization, differentiation and contribution to tumour development. Finally, by understanding the complex and fundamental pathways by which MSCs attach and migrate, it might be possible to fine-tune the strategies for effective and safe use of MSCs in regenerative therapies.
Dinuclear Nickel Complexes as Catalysts for Electrochemical Reduction of Carbon Dioxide (2004)

Dinuclear Ni(0) complexes [Ni2(μ-dppa)2(μ-CNR)(CNR)2] (R = Me (1), n-Bu (2), and 2,6-Me2C6H3 (3); dppa = bis(diphenylphosphine)amine) were synthesized in good yields by reacting Ni(COD)2 with dppa and the corresponding isocyanide. The X-ray structure of complex 1 is reported. The electrochemistry and spectroelectrochemistry of each complex are also reported. Complex 2 exhibits an irreversible 1 e- reduction at −0.99 V vs ferrocene in its cyclic voltammogram. When the cyclic voltametry was performed in the presence of CO2, a substantial current enhancement was observed for the reduction wave. Spectroelectrochemical as well as isotope labeling studies show that 2 is singly reduced to a radical anion species that is reactive toward CO2, yielding the disproportionation products CO and CO32-. In the presence of H+ donors (residual water), reduction of CO2 to formate is a competing process.
Kinetic analysis of oligodeoxyribonucleotide-directed triple-helix formation on DNA (1990)

Pyrimidine oligonucleotides recognize extended purine sequences in the major groove of double-helical DNA by triple-helix formation. The resulting local triple helices are relatively stable and can block DNA recognition by sequence-specific DNA binding proteins such as restriction endonucleases. Association and dissociation kinetics for the oligodeoxyribonucleotide 5'-CTCTTTCCTCTCTTTTTCCCC (bold C's indicate 5-methylcytosine residues) are now measured with a restriction endonuclease protection assay. When oligonucleotides are present in greater than 10-fold excess over the DNA target site, the binding reaction kinetics are pseudo first order in oligonucleotide concentration. Under our standard conditions (37 degrees C, 25 mM Tris-acetate, pH 6.8, 70 mM sodium chloride, 20 mM magnesium chloride, 0.4 mM spermine tetrahydrochloride, 10 mM beta-mercaptoethanol, 0.1 mg/mL bovine serum albumin) the value of the observed pseudo-first-order association rate constant, k_(2obs), is 1.8 x 10^3 +± 1.9 x 10^2 L.(mol of oligomer^-1·s^-1. Measurement of the dissociation rate constant yields an equilibrium dissociation constant of approximately 10 nM. Increasing sodium ion concentration slightly decreased the association rate, substantially increased the dissociation rate, and thereby reduced the equilibrium binding constant. This effect was reversible by increasing multivalent cation concentration, confirming the significant role of multivalent cations in oligonucleotide-directed triple-helix formation under these conditions. Finally, a small reduction in association rate, a large increase in dissociation rate, and a resulting reduction in the equilibrium binding constant were observed upon increasing the pH between 6.8 and 7.2.
Major Histocompatibility Complex (MHC) Class I and MHC Class II Proteins: Conformational Plasticity in Antigen Presentation (2017)

Antigen presentation by major histocompatibility complex (MHC) proteins is essential for adaptive immunity. Prior to presentation, peptides need to be generated from proteins that are either produced by the cell's own translational machinery or that are funneled into the endo-lysosomal vesicular system. The prolonged interaction between a T cell receptor and specific pMHC complexes, after an extensive search process in secondary lymphatic organs, eventually triggers T cells to proliferate and to mount a specific cellular immune response. Once processed, the peptide repertoire presented by MHC proteins largely depends on structural features of the binding groove of each particular MHC allelic variant. Additionally, two peptide editors-tapasin for class I and HLA-DM for class II-contribute to the shaping of the presented peptidome by favoring the binding of high-affinity antigens. Although there is a vast amount of biochemical and structural information, the mechanism of the catalyzed peptide exchange for MHC class I and class II proteins still remains controversial, and it is not well understood why certain MHC allelic variants are more susceptible to peptide editing than others. Recent studies predict a high impact of protein intermediate states on MHC allele-specific peptide presentation, which implies a profound influence of MHC dynamics on the phenomenon of immunodominance and the development of autoimmune diseases. Here, we review the recent literature that describe MHC class I and II dynamics from a theoretical and experimental point of view and we highlight the similarities between MHC class I and class II dynamics despite the distinct functions they fulfill in adaptive immunity.
IBC's 21stAnnual Antibody Engineering and 8thAnnual Antibody Therapeutics International Conferences and 2010 Annual Meeting of The Antibody Society (2011)

The 21st Annual Antibody Engineering and 8th Annual Antibody Therapeutics international conferences, and the 2010 Annual Meeting of The Antibody Society, organized by IBC Life Sciences with contributions from The Antibody Society and two Scientific Advisory Boards, were held December 5-9, 2010 in San Diego, CA. The conferences were organized with a focus on antibody engineering only on the first day and a joint engineering/therapeutics session on the last day. Delegates could select from presentations that occurred in two simultaneous sessions on days 2 and 3. Day 1 included presentations on neutralizing antibodies and the identification of vaccine targets, as well as a historical overview of 20 years of phage display utilization. Topics presented in the Antibody Engineering sessions on day 2 and 3 included antibody biosynthesis, structure and stability; antibodies in a complex environment; antibody half-life; and targeted nanoparticle therapeutics. In the Antibody Therapeutics sessions on days 2 and 3, preclinical and early stage development and clinical updates of antibody therapeutics, including TRX518, SYM004, MM111, PRO140, CVX-241, ASG-5ME, U3-1287 (AMG888), R1507 and trastuzumab emtansine, were discussed, and perspectives were provided on the development of biosimilar and biobetter antibodies, including coverage of regulatory and intellectual property issues. The joint engineering/therapeutics session on the last day focused on bispecific and next-generation antibodies.
Calcium Looping Process for Enhanced Catalytic Hydrogen Production with Integrated Carbon Dioxide and Sulfur Capture (2010)

Enhancement in the production of high purity hydrogen (H2) from fuel gas, obtained from coal gasification, is limited by thermodynamics of the water gas shift reaction. However, this constraint can be overcome by the concurrent water gas shift and CaO carbonation reaction to enhance H2 production by incessantly driving the equilibrium-limited water gas shift reaction forward and in situ removing the carbon dioxide (CO2) product from the gas mixture. The in situ removal of CO2 is achieved by using a calcium oxide (CaO) sorbent which also reacts with and removes sulfur and halide contaminants present in the syngas stream. The water gas shift reaction is achieved by the high temperature shift (HTS) iron oxide catalyst while the CO2 capture is achieved using CaO sorbent. The spent sorbent from the system is regenerated by calcining it to produce a pure stream of CO2 and CaO which can be reused. The steam addition for the water gas shift reaction is reduced to a large extent in this process which aids in reducing the parasitic energy consumption. In addition, the extent of sulfur removal by the CaO sorbent is also enhanced by operating at lower steam partial pressures. Experiments conducted in a bench scale facility have revealed that high purity H2 of 99.7% purity can be produced by this calcium looping process.
Cognitive dysfunction in chronic schizophrenia followed prospectively over 10 years and its longitudinal relationship to the emergence of tardive dyskinesia (1996)

Basic cognitive function was assessed at initial and at 5- and 10-year follow-up assessments among 41 primarily middle-aged in-patients manifesting the severest form of schizophrenia; additionally, the presence and severity of tardive dyskinesia was evaluated on each occasion. Overall, there was a modest but significant deterioration in cognitive function over the decade, particularly among older men. Longitudinally, patients with persistent tardive (orofacial) dyskinesia continued to show poorer cognitive function than those consistently without such movement disorder, though within neither group did cognitive function change over the decade. Those patients demonstrating prospectively the emergence of orofacial dyskinesia showed a marked deterioration in their cognitive function over the same time-frame within which their movement disorder emerged, but this decline did not progress further thereafter. There appears to exist some modes, progressive deterioration in cognitive function even late in the chronic phase of severe schizophrenic illness which appears to derive primarily from patients showing de novo emergence of tardive orofacial dyskinesia.
Production of quail (Coturnix japonica) germline chimeras derived from in vitro‐cultured gonadal primordial germ cells (2007)

A previous report from our laboratory documented successful production of quail (Coturnix japonica) germline chimeras by transfer of gonadal primordial germ cells (gPGCs). Subsequently, this study was designed to evaluate whether gPGCs can be maintained in vitro for extended period, and furthermore, these cultured PGCs can induce germline transmission after transfer into recipient embryos. In experiment 1, gonadal cells from the two strains (wild-type plumage (WP) and black (D) quail) were cultured in vitro for 10 days. Using antibody QCR1, we detected a continuous, significant (P = 0.0002) increase in the number of WP, but not D, PGCs. QCR1-positive WP colonies began to form after 7 days in culture. On Day 10 of culture, 803 WP PGCs were present as a result of a continuous increase, whereas no D PGC colonies could be detected and the D gonadal stroma cells were rolled up. Differences in the PGCs or the gonadal stroma cells of the two different strains might account for these differences. In experiment 2, WP PGC colonies were maintained in vitro up to Day 20 of culture, and 10- or 20-day-cultured PGCs were microinjected into dorsal aortas of 181 recipient D embryos. Thirty-five (19.3%) of the transplanted embryos hatched after incubation, and 25 (71.4%) of the hatchlings reached sexual maturity. Testcrossing of the sexually mature hatchlings resulted in three (10 days, 33.3%) and eight (20 days, 50.0%) germline chimeras respectively. This report is the first to describe successful production of germline chimera by transfer of in vitro-cultured gPGCs in quail.
Clozapine and Haloperidol in Moderately Refractory Schizophrenia (2001)

Compared with a first-generation antipsychotic given in a moderate dose, clozapine offers substantial clinical benefits to treatment-refractory subjects who can be treated in the community. Advantages are seen in a broad range of symptoms but do not extend to negative symptoms.