gebhart/patrepeval huggingface dataset:
Characterization of a Dazl‐GFP germ cell‐specific reporter (2009)

In this study, we characterized the promoter activity of a 1.7 kb sequence in the 5' flanking region of the mouse Deleted in Azoospermia-Like (Dazl) gene. We found the 1.7 kb sequence sufficient to drive robust germ cell-specific expression of green fluorescent protein (GFP) in adult mouse testis and lower levels of expression in adult ovary and in fetal and newborn gonads of both sexes. This expression pattern was confirmed in two independently-derived transgenic mouse lines. In adult testis, Dazl-GFP exhibited a developmentally-regulated, stage-specific expression pattern during spermatogenesis. GFP was highly expressed in spermatocyte stages, with strongest expression in pachytene spermatocytes. Weaker expression was observed in round and elongating spermatids, as well as spermatogonial cells. In the fetal gonad, GFP transcript was detected by e12.5 in both sexes; however, GFP fluorescence was only detected during later embryonic stages. In addition, we produced mouse embryonic stem cell (ESC) lines harboring the Dazl-GFP reporter and used this reporter to isolate putative germ cell populations derived from mouse ESCs following embryoid body differentiation and fluorescence activated cell sorting.
Dissecting the Function of Hippocampal Oscillations in a Human Anxiety Model (2017)

Neural oscillations in hippocampus and medial prefrontal cortex (mPFC) are a hallmark of rodent anxiety models that build on conflict between approach and avoidance. Yet, the function of these oscillations, and their expression in humans, remain elusive. Here, we used magnetoencephalography (MEG) to investigate neural oscillations in a task that simulated approach-avoidance conflict, wherein 23 male and female human participants collected monetary tokens under a threat of virtual predation. Probability of threat was signaled by color and learned beforehand by direct experience. Magnitude of threat corresponded to a possible monetary loss, signaled as a quantity. We focused our analyses on an a priori defined region-of-interest, the bilateral hippocampus. Oscillatory power under conflict was linearly predicted by threat probability in a location consistent with right mid-hippocampus. This pattern was specific to the hippocampus, most pronounced in the gamma band, and not explained by spatial movement or anxiety-like behavior. Gamma power was modulated by slower theta rhythms, and this theta modulation increased with threat probability. Furthermore, theta oscillations in the same location showed greater synchrony with mPFC theta with increased threat probability. Strikingly, these findings were not seen in relation to an increase in threat magnitude, which was explicitly signaled as a quantity and induced similar behavioral responses as learned threat probability. Thus, our findings suggest that the expression of hippocampal and mPFC oscillatory activity in the context of anxiety is specifically linked to threat memory. These findings resonate with neurocomputational accounts of the role played by hippocampal oscillations in memory.<b>SIGNIFICANCE STATEMENT</b> We use a biologically relevant approach-avoidance conflict test in humans while recording neural oscillations with magnetoencephalography to investigate the expression and function of hippocampal oscillations in human anxiety. Extending nonhuman studies, we can assign a possible function to hippocampal oscillations in this task, namely threat memory communication. This blends into recent attempts to elucidate the role of brain synchronization in defensive responses to threat.
Defining melancholia: the primacy of psychomotor disturbance (2007)

Melancholia is positioned as a categorical entity capable of being circumscribed by its cardinal feature of PMD.
A mouse mutant p53 product recognized by CD4+ and CD8+ T cells. (1994)

The T-cell response to mutated and normal p53 products of BALB/c-derived Meth A sarcoma was analyzed. Meth A p53 is known to have three missense point mutations in codons 132, 168, and 234, and 24 peptides containing wild-type or mutated sequences at the three mutation sites were constructed. Spleen cells from BALB/c or (BALB/c x C57BL/6)F1 mice immunized with p53 peptides were sensitized in vitro with the corresponding peptides. Because Meth A is resistant to cytotoxic T cells, the sensitive P1-HTR cell line, which expresses a low level of p53 lacking the Meth A p53 mutations, was chosen as a target, either pulse-labeled with p53 peptides or transfected with plasmids containing coding sequences from Meth A p53. One peptide, a nonamer containing the codon 234 mutation (234CM), induced CD8+ cytotoxic T cells that lysed 234CM-pulsed P1-HTR cells in an H-2Kd-restricted fashion. P1-HTR cells pulsed with the corresponding wild-type peptide were only weakly lysed by 234CM-reactive cytotoxic T cells. P1-HTR cells pulsed with other wild-type or mutated p53 peptides were not lysed by 234CM-reactive cytotoxic T cells, nor could these peptides, including 234CW (the wild-type counterpart to 234CM), elicit cytotoxic cells. P1-HTR cells transfected with plasmids coding for the 234CM sequence and expressing high p53 levels were weakly lysed by 234CM-reactive cytotoxic T cells. However, lysis of one of the transfectants was significantly increased by pretreatment with interferon gamma. A proliferative response of CD4+ T cells was elicited by immunization with 234CM and 234CW, but not with other p53-related peptides. The specificity of 234CM-induced CD4+ T cells for 234-region peptides was broader than the reactivity of 234CM-reactive cytotoxic T cells. Mice immunized with 234CM in incomplete Freund's adjuvant showed heightened resistance to Meth A challenge.
Mutational identification of an essential tryptophan in tryptophanyl-tRNA synthetase of Bacillus subtilis. (1992)

The strongly conserved single tryptophan residue, Trp92, in Bacillus subtilis tryptophanyl-tRNA synthetase has been mutagenized via site direction singly into Gln, Ala, and Phe. All three mutant enzymes were inactive toward the catalysis of tRNA tryptophanylation. The Trp92----Phe mutant has been subcloned into the high expression plasmid pKK223-3 to yield the recombinant plasmid pKSW-F92. Growth of bacteria carrying the latter plasmid made possible the purification of the mutant TrpRS-F92 enzyme to homogeneity. This mutant enzyme was deficient in ultraviolet absorbance and fluorescence relative to the wild type enzyme and inactive in the partial reaction of Trp-activation as well as the overall reaction of tRNA tryptophanylation. Furthermore, unlike the wild type B. subtilis trpS gene, the mutant trpS-F92 gene upon transformation into Escherichia coli trpS 10343 failed to complement the temperature sensitive trpS mutation of the host cells. Trp92 therefore represents an essential residue both in vitro and in vivo for the function of the tryptophanyl-tRNA synthetase.
2-D DIGE Analysis of Liver and Red Blood Cells Provides Further Evidence for Oxidative Stress in Schizophrenia (2006)

The molecular disease mechanisms associated with schizophrenia remain largely unknown. Although primarily considered a disorder of the brain, there is evidence of a peripheral component to schizophrenia. In this study, we investigated liver tissue and red blood cells (RBC) from schizophrenia patients and controls using 2-D DIGE proteomic analysis. Fourteen proteins were significantly altered in liver samples from schizophrenia patients (n = 15) compared to healthy controls (n = 15). Analysis of the schizophrenia RBC proteome revealed 8 proteins significantly altered in samples from schizophrenia patients (13 antipsychotic-treated and 7 drug-naïve) compared to controls (n = 20). Six of the altered proteins in the liver and four of the altered RBC proteins are related to oxidative stress. These results corroborate our earlier findings obtained from post-mortem brain studies and substantiate our hypothesis that metabolic alterations leading to oxidative stress are linked to the schizophrenia disease process. Our results also suggest that at least some of the pathological processes associated with the schizophrenia disease process can be traced in peripheral tissue. If peripheral cells can be used as a disease surrogate, promising new investigative avenues could be explored.
Inhibition of IgE-mediated mast cell activation by the paired Ig-like receptor PIR-B (2001)

The potential of the paired Ig-like receptors of activating (PIR-A) and inhibitory (PIR-B) types for modifying an IgE antibody-mediated allergic response was evaluated in mouse bone marrow-derived mast cells. Although mast cells produced both PIR-A and PIR-B, PIR-B was found to be preferentially expressed on the cell surface, where it was constitutively tyrosine phosphorylated and associated with intracellular SHP-1 protein tyrosine phosphatase. PIR-B coligation with the IgE receptor (FcepsilonRI) inhibited IgE-mediated mast cell activation and release of serotonin. Surprisingly, the inhibitory activity of PIR-B was unimpaired in SHP-1-deficient mast cells. A third functional tyrosine-based inhibitory motif, one that fails to bind the SHP-1, SHP-2, and SHIP phosphatases, was identified in parallel studies of FcepsilonRI-bearing rat basophilic leukemia (RBL) cells transfected with constructs having mutations in the PIR-B cytoplasmic region. These results define the preferential expression of the PIR-B molecules on mast cells and an inhibitory potential that can be mediated via a SHP-1-independent pathway.
Programmed Death Ligand 1 Is Expressed by Non–Hodgkin Lymphomas and Inhibits the Activity of Tumor-Associated T Cells (2011)

PD-L1 may thwart effective antitumor immune responses and represents an attractive target for lymphoma immunotherapy.
Planck, Photon Statistics, and Bose-Einstein Condensation (2007)

The interplay between optical and statistical physics is a rich and exciting field of study. Black body radiation was the first application of photon statistics, although it was initially treated as a problem of the cavity oscillators in equilibrium with the photon field. However Planck surprisingly resisted the idea that anything physical would be quantized for a long time after he had solved the problem. We trace this development. Then, after the invention of the laser itself, it proved difficult to develop a theory of laser action that could account for photon statistics, i.e. fluctuations near threshold. This was accomplished in 1965. After Bose-Einstein condensation was successfully achieved, the same problem arose in this case. The fluctuation problem had not been treated adequately even for the ideal Bose gas. However this problem has now been solved using the same techniques as in the theory of laser action.
Statistics for Research (2004)

Praise for the Second Edition "Statistics for Research has other fine qualities besides superior organization. The examples and the statistical methods are laid out with unusual clarity by the simple device of using special formats for each. The book was written with great care and is extremely user-friendly."-The UMAP Journal Although the goals and procedures of statistical research have changed little since the Second Edition of Statistics for Research was published, the almost universal availability of personal computers and statistical computing application packages have made it possible f
Multiple PEX genes are required for proper subcellular distribution and stability of Pex5p, the PTS1 receptor: evidence that PTS1 protein import is mediated by a cycling receptor. (1996)

PEX5 encodes the type-1 peroxisomal targeting signal (PTS1) receptor, one of at least 15 peroxins required for peroxisome biogenesis. Pex5p has a bimodal distribution within the cell, mostly cytosolic with a small amount bound to peroxisomes. This distribution indicates that Pex5p may function as a cycling receptor, a mode of action likely to require interaction with additional peroxins. Loss of peroxins required for protein translocation into the peroxisome (PEX2 or PEX12) resulted in accumulation of Pex5p at docking sites on the peroxisome surface. Pex5p also accumulated on peroxisomes in normal cells under conditions which inhibit protein translocation into peroxisomes (low temperature or ATP depletion), returned to the cytoplasm when translocation was restored, and reaccumulated on peroxisomes when translocation was again inhibited. Translocation inhibiting conditions did not result in Pex5p redistribution in cells that lack detectable peroxisomes. Thus, it appears that Pex5p can cycle repeatedly between the cytoplasm and peroxisome. Altered activity of the peroxin defective in CG7 cells leads to accumulation of Pex5p within the peroxisome, indicating that Pex5p may actually enter the peroxisome lumen at one point in its cycle. In addition, we found that the PTS1 receptor was extremely unstable in the peroxin-deficient CG1, CG4, and CG8 cells. Altered distribution or stability of the PTS1 receptor in all cells with a defect in PTS1 protein import implies that the genes mutated in these cell lines encode proteins with a direct role in peroxisomal protein import.
Emerging frameworks for tangible user interfaces (2000)

We present steps toward a conceptual framework for tangible user interfaces. We introduce the MCRpd interaction model for tangible interfaces, which relates the role of physical and digital representations, physical control, and underlying digital models. This model serves as a foundation for identifying and discussing several key characteristics of tangible user interfaces. We identify a number of systems exhibiting these characteristics, and situate these within 12 application domains. Finally, we discuss tangible interfaces in the context of related research themes, both within and outside of the human-computer interaction domain.
Molecular genetics of a receptor protein for D-xylose, encoded by the gene xylF, in Escherichia coli. (1995)

Mutants of Escherichia coli K12 have been isolated containing either the 'XylF' or the 'XylE' transport systems for D-xylose. This enabled the XylF system containing a D-xylose receptor-binding protein to be associated with high-affinity transport, apparent Km 0.2-4 microM, while the XylE sugar-H+ symporter system exhibited relatively low affinity, apparent Km 63-169 microM. Their apparent Vmax values were similar. Isolation of a xylose transport-negative mutation in a downstream gene, xylG, and a series of transduction experiments enabled the gene order xylB xylA p/o xyl(FG) mtlA to be proposed near 80 min on the E. coli chromosome. The xylose receptor protein (XylF) was highly purified from the periplasm and the sequence of its N-terminal 44 amino acids determined. From this a mixed oligonucleotide (14 mer) was synthesised of corresponding DNA sequence, hybridisation of which to restriction fragments from the ColE I hybrid plasmid, pLC32-9, which conferred xylose transport activity on a xylE- xylF- double mutant, enabled precise location of the xylF gene next to the xylose isomerase gene, xylA (3984 kbp on the Kohara physical map). The DNA sequence of the 2.5 kb Bgl II fragment containing the xylF gene was then determined, which confirmed the above gene order and revealed two divergent operons, probably regulated in a co-ordinate manner, one containing enzymes for catabolism of D-xylose, and the other proteins comprising the XylFG receptor-transport system. Analysis of the 330 amino acid sequence of the XylF receptor protein located the scission point of its leader peptide between Ala23 and Lys24, and revealed significant homologies with the other sugar receptor proteins for ribose (RbsB), galactose (MglB) and arabinose (AraF).
Vascular Endothelial Growth Factor Enhances Cardiac Allograft Arteriosclerosis (2002)

Our findings suggest a positive regulatory role between VEGF and coronary arteriosclerotic lesion formation in the allograft cytokine microenvironment.
Quantitation of DNA and RNA (2007)

INTRODUCTIONThere are several ways to quantitate solutions of nucleic acids. If the solution is pure, one can use a spectrophotometer to measure the amount of ultraviolet radiation absorbed by the bases. DNA can also be quantified by measuring the UV-induced emission of fluorescence from intercalated ethidium bromide. This method is useful if there is not enough DNA to quantify with a spectrophotometer, or if the DNA solution is contaminated. Strategies for accurately quantifying nucleic acids using these approaches are discussed here.
Defeating UCI: Building Stealthy and Malicious Hardware (2011)

In previous work Hicks et al. proposed a method called Unused Circuit Identification (UCI) for detecting malicious backdoors hidden in circuits at design time. The UCI algorithm essentially looks for portions of the circuit that go unused during design-time testing and flags them as potentially malicious. In this paper we construct circuits that have malicious behavior, but that would evade detection by the UCI algorithm and still pass design-time test cases. To enable our search for such circuits, we define one class of malicious circuits and perform a bounded exhaustive enumeration of all circuits in that class. Our approach is simple and straight forward, yet it proves to be effective at finding circuits that can thwart UCI. We use the results of our search to construct a practical attack on an open-source processor. Our malicious backdoor allows any user-level program running on the processor to enter supervisor mode through the use of a secret â knock. We close with a discussion on what we see as a major challenge facing any future design-time malicious hardware detection scheme: identifying a sufficient class of malicious circuits to defend against.
Entrapment of a bacterial plasmid in phospholipid vesicles: potential for gene transfer. (1979)

Entrapment of pBR322 DNA within liposomes was demonstrated by (i) its comigration with liposomes on Sepharose 4B columns, (ii) resistance of its biological activity to DNase digestion, and (iii) identification of plasmid DNA on agarose gels after lipid extraction. The biological activity of the liposome-entrapped plasmid was determined by transformation assays. The incubation of intact liposomes, containing entrapped pBR322, with competent Escherichia coli cells in the standard transformation mixture resulted in the appearance of tetracycline-resistant colonies at a frequency of 1% of the control frequency. Importantly, this frequency was unaffected by the addition of DNase to the incubation mixture, whereas transformation by free pBR322 DNA was totally eliminated after treatment with DNase.
Topographical variation in glycosaminoglycan content in human articular cartilage (2006)

The weight-bearing status of articular cartilage has been shown to affect its biochemical composition. We have investigated the topographical variation of sulphated glycosaminoglycan (GAG) relative to the DNA content of the chondrocyte in human distal femoral articular cartilage. Paired specimens of distal femoral articular cartilage, from weight-bearing and non-weight-bearing regions, were obtained from 13 patients undergoing above-knee amputation. After papain enzyme digestion, spectrophotometric GAG and fluorometric DNA assays assessed the biochemical composition of the samples. The results were analysed using a paired t-test. Although there were no significant differences in cell density between the regions, the weight-bearing areas showed a significantly higher concentration of GAG relative to DNA when compared with non-weight-bearing areas (p = 0.02). We conclude that chondrocytes are sensitive to their mechanical environment, and that local loading conditions influence the metabolism of the cells and hence the biochemical structure of the tissue.
Auxiliary series resonant converter: a new converter for high-voltage, high-power applications (2002)

The power converter presented in this paper has been designed to meet high-quality power requirements in high-voltage, high-power applications such as X-ray imaging, traveling wave tube RF generation, etc. The new power converter is based on a series resonant power converter (SRC) which is modified by adding low power auxiliary circuitry. The so obtained auxiliary SRC (ASRC) maintains zero-voltage switching (ZVS) for both main and auxiliary devices over the entire operating range. The ASRC can operate and regulate voltage even at no load conditions. The additional reactive energy used to maintain soft switching and voltage regulation at light loads is controllable independently of power converter load. This contributes to higher efficiency, especially at heavy loads. The ASRC control is identical to that of a standard SRC, so fast and robust transient response can be obtained with relatively simple controller structure. The paper also presents power converter analysis and design, and experimental results from a 100 kW, 150 kV prototype.
Laudatio auf Dirk von Petersdorff Anlässlich der Verleihung des Kleist-Preises am 13. Juni 1998 (2000)

Sehr verehrte Frau Senatorin, meine Damen und Herren, wir sind heute hierher gekommen, um einen jungen deutschen Schriftsteller und vor allem einen Poeten mit dem diesjährigen Kleist-Preis auszuzeichnen, nämlich Dirk von Petersdorff. Ich habe ihn nach sorgfältiger und respektvoller Lektüre aller von der Jury für dieses Jahr vorgeschlagenen Kandidaten ausgewählt. Doch soll nicht vergessen werden, daß gute und interessante Autorinnen und Autoren sich auch unter den anderen vorgeschlagenen jungen Schriftstellern befanden.
8‐(3‐Chlorostyryl)caffeine (CSC) is a selective A2‐adenosine antagonist in vitro and in vivo (1993)

An adenosine antagonist, 8-(3-chlorostyryl)caffeine (CSC), was shown previously to be 520-fold selective for A2a-adenosine receptors in radioligand binding assays in the rat brain. In reversing agonist effects on adenylate cyclase, CSC was 22-fold selective for A2a receptors in rat phenochromocytoma cells (Kb 60 nM) vs. A1 receptors in rat adipocytes (Kb 1.3 microM). Administered i.p. in NIH mice at a dose of 1 mg/kg, CSC shifted the curve for locomotor depression elicited by the A2a-selective agonist APEC to the right (ED50 value for APEC shifted from 20 micrograms/kg i.p. to 190 micrograms/kg). CSC had no effect on locomotor depression elicited by an ED50 dose of the A1-selective agonist CHA. CSC alone at a dose of 5 mg/kg stimulated locomotor activity by 22% over control values. Coadministration of CSC and the A1-selective antagonist CPX, both at non-stimulatory doses, increased activity by 37% (P < 0.001) over CSC alone, suggesting a behavioral synergism of A1- and A2-antagonist effects in the CNS.
Magnesium and its alloys as degradable biomaterials: corrosion studies using potentiodynamic and EIS electrochemical techniques (2007)

Magnesium is potentially useful for orthopaedic and cardiovascular applications. However, the corrosion rate of this metal is so high that its degradation occurs before the end of the healing process. In industrial media the behaviour of several magnesium alloys have been probed to be better than magnesium performance. However, the information related to their corrosion behaviour in biological media is insufficient. The aim of this work is to study the influence of the components of organic fluids on the corrosion behaviour of Mg and AZ31 and LAE442 alloys using potentiodynamic, potentiostatic and EIS techniques. Results showed localized attack in chloride containing media. The breakdown potential decreased when chloride concentration increased. The potential range of the passivation region was extended in the presence of albumin. EIS measurements showed that the corrosion behaviour of the AZ31 was very different from that of LAE442 alloy in chloride solutions.
Parasitology (2002)

This series of highly visual reference cards provides a quick guide to the common parasites seen in dogs and cats. The unique presentation includes ninety two 5 x5 laminated colored cards makes it easy to diagnose commonly seen parasites. Each organism has one card that is dedicated to providing the information needed to successfully diagnose and