gebhart/patrepeval huggingface dataset:
Fibroblast Growth Factor (FGF) Receptor 1-IIIb Is a Naturally Occurring Functional Receptor for FGFs That Is Preferentially Expressed in the Skin and the Brain (2000)

Fibroblast growth factors (FGFs) transmit their signals through four transmembrane receptors that are designated FGFR1-4. Alternative splicing in the extracellular region of FGFR1-3 generates receptor variants with different ligand binding affinities. Thus two types of transmembrane receptors (IIIb and IIIc isoforms) have been identified for FGFR2 and FGFR3, and the existence of analogous variants has been postulated for FGFR1 based on its genomic structure. However, only a single full-length transmembrane FGFR1 variant (FGFR1-IIIc) has been identified so far. Here we describe the cloning of a full-length cDNA encoding FGFR1-IIIb from a mouse skin wound cDNA library. This receptor isoform was expressed at the highest levels in a subset of sebaceous glands of the skin and in neurons of the hippocampus and the cerebellum. FGFR1-IIIb was expressed in L6 rat skeletal muscle myoblasts and used in cross-linking and receptor binding studies. FGF-1 was found to bind the receptor with high affinity, whereas FGF-2, -10, and -7 bound with significantly lower affinities. Despite their apparently similar but low affinities, FGF-10 but not FGF-7 induced the activation of p44/42 mitogen-activated protein kinase in FGFR1-IIIb-expressing L6 myoblasts and stimulated mitogenesis in these cells, demonstrating that this new receptor variant is a functional transmembrane receptor for FGF-10.
Rescue of defective mitogenic signaling by D-type cyclins. (1995)

Three gene products, including Myc and the D- and E-type G1 cyclins, are rate limiting for G1 progression in mammalian fibroblasts. Quiescent mouse NIH 3T3 fibroblasts engineered to express a mutant colony-stimulating factor (CSF-1) receptor (CSF-1R 809F) fail to synthesize c-myc and cyclin D1 mRNAs upon CSF-1 stimulation and remain arrested in early G1 phase. Ectopic expression of c-myc or either of three D-type cyclin genes, but not cyclin E, resensitized these cells to the mitogenic effects of CSF-1, enabling them to proliferate continuously in liquid culture and to form colonies in agar in response to the growth factor. Rescue by cyclin D1 was enhanced by c-myc but not by cyclin E and was reversed by infecting cyclin D1-reconstituted cells with a retroviral vector encoding catalytically inactive cyclin-dependent kinase 4. Induction of cyclin D1 mRNA by CSF-1 was restored in cells forced to express c-myc, and vice versa, suggesting that expression of the two genes is interdependent. Cells reconstituted with c-myc were prevented from entering S phase when microinjected with a monoclonal antibody to cyclin D1, and conversely, those rescued by cyclin D1 were inhibited from forming CSF-1-dependent colonies when challenged with a dominant-negative c-myc mutant. Cyclin D mutants defective in binding to the retinoblastoma protein were impaired in rescuing mitogenic signaling. Therefore, Myc and D-type cyclins collaborate during the mitogenic response to CSF-1, whereas cyclin E functions in a separate pathway.
Functional plasticity of CH domains (2001)

With the refinement of algorithms for the identification of distinct motifs from sequence databases, especially those using secondary structure predictions, new protein modules have been determined in recent years. Calponin homology (CH) domains were identified in a variety of proteins ranging from actin cross-linking to signaling and have been proposed to function either as autonomous actin binding motifs or serve a regulatory function. Despite the overall structural conservation of the unique CH domain fold, the individual modules display a quite striking functional variability. Analysis of the actopaxin/parvin protein family suggests the existence of novel (type 4 and type 5) CH domain families which require special attention, as they appear to be a good example for how CH domains may function as scaffolds for other functional motifs of different properties.
HLA-E Protects Glioma Cells from NKG2D-Mediated Immune Responses In Vitro: Implications for Immune Escape In Vivo (2005)

The nonclassical MHC class I molecule HLA-E is the only known ligand for CD94/NKG2A and CD94/NKG2C expressed on NK and CD8+ alphabeta and gammadelta T cells. HLA-E may transmit either activating signals via CD94/NKG2C or inhibitory signals mediated by CD94/NKG2A. Here we show that HLA-E is expressed at mRNA and protein level in human long-term glioma cell lines, primary ex vivo polyclonal glioblastoma cell cultures and surgical glioblastoma specimens. Furthermore, immunohistochemistry revealed an enhanced in vivo expression of HLA-E in gliomas of lower grades and a massive overexpression in grade IV glioblastomas compared with normal CNS tissue. An immune-inhibitory effect of HLA-E on tumor-specific CTL has already been described. We show that siRNA-mediated silencing of HLA-E or blocking of CD94/NKG2A enables NKG2D-mediated lysis of 51Cr-labeled tumor cells by NK cells. Thus, our study provides the first evidence that expression and interaction of HLA-E on cancer cells with CD94/NKG2A expressed on lymphocytes compromises innate anti-tumor immune responses.
Memory disorders in probable Alzheimer's disease: the role of hippocampal atrophy as shown with MRI. (1995)

Magnetic resonance based volumetric measures of hippocampal formation, amygdala (A), caudate nucleus (CN), normalised for total intracranial volume (TIV), were analysed in relation to measures of cognitive deterioration and specific features of memory functions in 18 patients with probable Alzheimer's disease. Neuropsychological examination included the mini mental state examination (MMSE), the Mattis dementia rating scale (DRS), tests of executive functions, assessment of language abilities and praxis, the Wechsler memory scale (WMS), the California verbal learning test (CVLT) and the Grober and Buschke test. The volume of the hippocampal formation (HF/TIV) was correlated with specific memory variables: memory quotient and paired associates of the WMS; intrusions and discriminability at recognition for the Grober and Buschke test. By contrast, except for intrusions, no correlations were found between memory variables and the volume of amygdala (A/TIV). No correlations were found between the volume of caudate nuclei (CN/TIV) and any neuropsychological score. The volume of the hippocampal formation was therefore selectively related to quantitative and qualitative aspects of memory performance in patients with probable Alzheimer's disease.
Use of the fast Hartley transform for efficient 3D convolution in calculation of radiation dose (2002)

In radionuclide therapy, absorbed dose is calculated by convolution of a three-dimensional activity matrix with a three-dimensional dose point kernel. A technique employing the fast Hartley Transform (FHT) has been developed to perform this calculation. An important part of that development was the indexing scheme for 3D data. The results of this new FHT convolution technique were compared to direct convolution. A cube was convolved with itself by these two techniques. The results differed by less than 2 percent. In an effort to show the practical applicability of 3D convolution, a three-dimensional activity matrix from a I-131-labeled 16.88 monoclonal antibody patient was convolved with beta and photon dose point kernels using direct convolution. Isodose contours were then generated from the calculated absorbed dose matrix and overlaid on a CT image of the patient.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Characterization of a notochord-specific enhancer from the Brachyury promoter region of the ascidian, Ciona intestinalis (1997)

We present evidence that the embryo of the ascidian, Ciona intestinalis, is an easily manipulated system for investigating the establishment of basic chordate tissues and organs. Ciona has a small genome, and simple, well-defined embyronic lineages. Here, we examine the regulatory mechanisms underlying the differentiation of the notochord. Particular efforts center on the regulation of a notochord-specific Ciona Brachyury gene (Ci-Bra). An electroporation method was devised for the efficient incorporation of transgenic DNA into Ciona embryos. This method permitted the identification of a minimal, 434 bp enhancer from the Ci-Bra promoter region that mediates the notochord-restricted expression of both GFP and lacZ reporter genes. This enhancer contains a negative control region that excludes Ci-Bra expression from inappropriate embryonic lineages, including the trunk mesenchyme and tail muscles. Evidence is presented that the enhancer is activated by a regulatory element which is closely related to the recognition sequence of the Suppressor of Hairless transcription factor, thereby raising the possibility that the Notch signaling pathway plays a role in notochord differentiation. We discuss the implications of this analysis with regard to the evolutionary conservation of integrative enhancers, and the subdivision of the axial and paraxial mesoderm in vertebrates.
Superconducting Tl-Ca-Ba-Cu-O thin film microstrip resonator and its power handling performance at 77 K (2002)

Measurements of the temperature- and power-dependent surface resistance, R/sub s/ of thin films of Tl-Ca-Ba-Cu-O at 9.55 GHz are reported. At 77 K these films are at least 20 times better than bulk OFHC (oxygen-free, high-frequency) Cu at the same temperature and frequency in microwave magnetic fields up to 10 G. Measurements of the power-handling performance at 77 K of a high-Q, thin-film microstrip resonator made with these films are reported. Loaded Qs up to 7300 at 2.6 GHz, more than 20 times higher than on identical silver resonators, are reported. At effective power levels in the resonator up to approximately 100 W, the Q was still at least three times higher than the silver resonator at all measured frequencies (2.6, 5.2, and 7.3 GHz).< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Purine and pyrimidine metabolism in human T lymphocytes. Regulation of deoxyribonucleotide metabolism. (1983)

Purine and pyrimidine deoxyribonucleoside metabolism was studied in G1 and S phase human thymocytes and compared with that of the more mature T lymphocytes from peripheral blood. Both thymocyte populations have much higher intracellular deoxyribonucleoside triphosphate (dNTP) pools than peripheral blood T lymphocytes. The smallest dNTP pool in S phase thymocytes is dCTP (5.7 pmol/10(6) cells) and the largest is dTTP (48 pmol/10(6) cells), whereas in G1 thymocytes, dATP and dGTP comprise the smallest pools. While both G1 and S phase thymocytes have active deoxyribonucleoside salvage pathways, only S phase thymocytes have significant ribonucleotide reduction activity. We have studied ribonucleotide reduction and deoxyribonucleoside salvage in S phase thymocytes in the presence of extracellular deoxyribonucleosides. Based on these studies, we propose a model for the interaction of deoxyribonucleoside salvage and ribonucleotide reduction in S phase thymocytes. According to this model, extracellular deoxycytidine at micromolar concentrations is efficiently salvaged by deoxycytidine kinase. However, due to feedback inhibition of deoxycytidine kinase by dCTP, the maximal level of dCTP which can be achieved is limited. The salvage of both deoxyadenosine and deoxyguanosine (up to 10(-4) M) is completely inhibited in the presence of micromolar concentrations of deoxycytidine, whereas the salvage of thymidine is unregulated resulting in large increases in dTTP levels. Moreover, significant amounts of the salvaged deoxycytidine is used for dTTP synthesis resulting in further increase of dTTP pools. The accumulated dTTP inhibits the reduction of UDP and CDP while stimulating GDP reduction and subsequently also ADP reduction. The end result of the proposed model is that S phase thymocytes in the presence of a wide range of extracellular deoxyribonucleoside concentrations synthesize their pyrimidine dNTP by the salvage pathway, whereas purine dNTPs are synthesized primarily by ribonucleotide reduction. Using the proposed model, it is possible to predict the relative intracellular dNTP pools found in fresh S phase thymocytes.
Long‐Term Safety and Efficacy of Epratuzumab in the Treatment of Moderate‐to‐ Severe Systemic Lupus Erythematosus: Results From an Open‐Label Extension Study (2015)

Open-label epratuzumab treatment was well tolerated for up to 3.2 years, and associated with sustained improvements in disease activity and HRQOL, while steroids were reduced.
Use of Nanobarcodes<SUP>®</SUP> Particles in Bioassays (2005)

We have developed striped metal nanoparticles, Nanobarcodes particles, which can act as encoded substrates in multiplexed assays. These particles are metallic, encodeable, machine-readable, durable, submicron-sized tags. The power of this technology is that the particles are intrinsically encoded by virtue of the difference in reflectivity of adjacent metal stripes. This chapter describes protocols for the attachment of biological molecules, and the subsequent use of the Nanobarcodes particles in bioassays.
Plasma pinch EUV source with particle injection (2005)

Pinch discharge EUV sources tend to produce 13.5nm radiation from an elongated plasma, decreasing the possible collection efficiency for the lowest etendue collector designs. As a means to concentrate EUV emission we have investigated particle injection to locate the radiating species in a small volume at the center of the pinch. We have considered theoretically the rate of ionization and expansion of a small tin droplet in a buffer gas pinch plasma of argon or helium. The particle becomes negatively charged, with consequences for the electron and ion heat fluxes onto its surface. Photo-emission can reduce this negative potential and enhance the electron heat flux. We estimate that the 30 &mu;m diameter tin particle that contains the minimum, or 'mass limited' number of atoms for a 5J EUV-emitting plasma, will fully ionize in less than 100nsec in a typical Star Pinch [1] plasma at the relevant electron density of 2x10<sup>19</sup> cm<sup>-3</sup> and temperature of 30eV. We report on the generation of high velocity, on-demand, accurately positioned tin droplets suitable for the injection pinch, and on limitations to the system reliability.
SERUM CYTOKINES (IL-6, TNF-α, IL-1β AND IFN-γ) IN ANKYLOSING SPONDYLITIS: A CLOSE CORRELATION BETWEEN SERUM IL-6 AND DISEASE ACTIVITY AND SEVERITY (1994)

The aim of our study was to analyse the serum interleukin-6 (IL-6), tumour necrosis factor-alpha (TNF-alpha), interleukin-1 beta (IL-1 beta) and interferon-gamma (IFN-gamma) levels in patients with AS and their relationship with disease activity. An ELISA test was used to analyse serum cytokine (IL-6, TNF-alpha, IL-1 beta and IFN-gamma) levels in 69 patients with AS. Results were compared with those from 43 patients with RA and 36 patients with non-inflammatory back pain. The relationship between serum concentrations of the different cytokines and parameters of disease activity and severity in AS patients was also evaluated. IL-6 and TNF-alpha serum levels, but not IL-1 beta and IFN-gamma, were significantly higher in AS than in NIBP. However, patients with RA showed higher serum levels of IL-6, TNF-alpha and IFN-gamma than both AS and NIBP patients. In AS, IL-6 correlated with clinical parameters of disease activity with significant correlation being observed with laboratory parameters of inflammation such as ESR, CRP, platelet count and clinical parameters of severity such as vertebral mobility. TNF-alpha did not correlate with laboratory or clinical parameters of activity. Macrophagic cytokines (TNF-alpha and IL-6), are increased in AS patients and IL-6 closely correlated with the activity of the disease.
Temperature coefficient of resistance of piezoresistors (2003)

A simple method to accurately model the temperature coefficient of resistance (TCR) of ion-implanted piezoresistors in silicon is presented. The model takes into account effects of piezoresistor compensation up to an impurity concentration of 10/sup 20/ atoms/cm/sup 2/.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Synergistic effect of triptolide combined with 5-fluorouracil on colon carcinoma (2007)

The combined effects of TPL and 5-FU on the growth of colon carcinoma in vitro and in vivo were superior to the effects when the agents were used individually. TPL combined with 5-FU had synergistic effects at lower concentrations and promoted apoptosis, but did not increase the side effects of chemotherapy.
Real-Time Video Surveillance and Monitoring for Automotive Applications (2000)

&lt;div class="htmlview paragraph"&gt;In this paper we discuss ongoing research on video sensing at Siemens Corporate Research and Siemens Automotive's Advanced Development group and their impact on automotive industry in the areas of driver assistance, and occupant detection.&lt;/div&gt; &lt;div class="htmlview paragraph"&gt;Two innovative concepts are presented: the first one dedicated to video surveillance of the vehicle surrounding based on an omni-directional sensor, and the second one dedicated to occupant presence detection, classification, and positioning using active stereoscopic vision techniques for air-bag control.&lt;/div&gt;
Redirecting Specificity of T cells Using the Sleeping Beauty System to Express Chimeric Antigen Receptors by Mix-and-Matching of VL and VH Domains Targeting CD123+ Tumors (2016)

Adoptive immunotherapy infusing T cells with engineered specificity for CD19 expressed on B- cell malignancies is generating enthusiasm to extend this approach to other hematological malignancies, such as acute myelogenous leukemia (AML). CD123, or interleukin 3 receptor alpha, is overexpressed on most AML and some lymphoid malignancies, such as acute lymphocytic leukemia (ALL), and has been an effective target for T cells expressing chimeric antigen receptors (CARs). The prototypical CAR encodes a VH and VL from one monoclonal antibody (mAb), coupled to a transmembrane domain and one or more cytoplasmic signaling domains. Previous studies showed that treatment of an experimental AML model with CD123-specific CAR T cells was therapeutic, but at the cost of impaired myelopoiesis, highlighting the need for systems to define the antigen threshold for CAR recognition. Here, we show that CARs can be engineered using VH and VL chains derived from different CD123-specific mAbs to generate a panel of CAR+ T cells. While all CARs exhibited specificity to CD123, one VH and VL combination had reduced lysis of normal hematopoietic stem cells. This CAR's in vivo anti-tumor activity was similar whether signaling occurred via chimeric CD28 or CD137, prolonging survival in both AML and ALL models. Co-expression of inducible caspase 9 eliminated CAR+ T cells. These data help support the use of CD123-specific CARs for treatment of CD123+ hematologic malignancies.
Small molecule nAS‐E targeting cAMP response element binding protein (CREB) and CREB‐binding protein interaction inhibits breast cancer bone metastasis (2018)

Abstract Bone is the most common metastatic site for breast cancer. The excessive osteoclast activity in the metastatic bone lesions often produces osteolysis. The cyclic‐AMP (cAMP)‐response element binding protein (CREB) serves a variety of biological functions including the transformation and immortalization of breast cancer cells. In addition, evidence has shown that CREB plays a key role in osteoclastgenesis and bone resorption. Small organic molecules with good pharmacokinetic properties and specificity, targeting CREB‐CBP (CREB‐binding protein) interaction to inhibit CREB‐mediated gene transcription have attracted more considerations as cancer therapeutics. We recently identified naphthol AS‐E (nAS‐E) as a cell‐permeable inhibitor of CREB‐mediated gene transcription through inhibiting CREB‐CBP interaction. In this study, we tested the effect of nAS‐E on breast cancer cell proliferation, survival, migration as well as osteoclast formation and bone resorption in vitro for the first time. Our results demonstrated that nAS‐E inhibited breast cancer cell proliferation, migration, survival and suppressed osteoclast differentiation as well as bone resorption through inhibiting CREB‐CBP interaction. In addition, the in vivo effect of nAS‐E in protecting against breast cancer‐induced osteolysis was evaluated. Our results indicated that nAS‐E could reverse bone loss induced by MDA‐MB‐231 tumour. These results suggest that small molecules targeting CREB‐CBP interaction to inhibit CREB‐mediated gene transcription might be a potential approach for the treatment of breast cancer bone metastasis.
Comparative Efficacy of Inactivated and Live Attenuated Influenza Vaccines (2009)

In the 2007-2008 season, the inactivated vaccine was efficacious in preventing laboratory-confirmed symptomatic influenza A (predominately H3N2) in healthy adults. The live attenuated vaccine also prevented influenza illnesses but was less efficacious. (ClinicalTrials.gov number, NCT00538512.)
Dibromotrithiocarbonate Iniferter for Concurrent ATRP and RAFT Polymerization. Effect of Monomer, Catalyst, and Chain Transfer Agent Structure on the Polymerization Mechanism (2008)

An iniferter comprising a trithiocarbonate (TTC) moiety and two bromine chain ends was prepared and used to successfully conduct, independently or concurrently, atom transfer radical polymerization (ATRP) and reversible addition−fragmentation chain transfer (RAFT) polymerization. RAFT polymerization was carried out by self-initiation (styrene, (St)) or in the presence of a thermal initiator (acrylates) and yielded polymers with narrow molecular weight distribution (Mw/Mn ≤ 1.16 (St) and Mw/Mn ≤ 1.15 (acrylates)). Methyl methacrylate (MMA) polymerization under these conditions was poorly controlled. However, ATRP of MMA with the dibromotrithiocarbonate (DiBrTTC) iniferter was successful in the presence of copper catalysts formed with various nitrogen-based ligands. Polymers with narrow molecular weight distribution (Mw/Mn < 1.27) were obtained in every case. Depending on the ligand, polymerization proceeded only through the bromine chain ends or through both the bromine chain ends and the TTC moiety, providing the first example of an ATRP with a trithiocarbonate. ATRP and RAFT polymerization of St and n-butyl acrylate (nBA) were conducted concurrently using CuBr/PMDETA as catalytic system. Polymers with broad molecular weight distribution (Mw/Mn ≈ 1.6) and polymodal size exclusion chromatography traces were obtained due to chain reshuffling through the TTC moiety. SEC analysis of the polymers after aminolysis or methanolysis showed that ATRP and RAFT occurred simultaneously, with good control, for each nBA and St (Mw/Mn < 1.3). Triblock, pentablock, or multiblock copolymers were prepared in two steps by appropriate selection of monomers and catalytic systems.
The evolution of the Mucobacterium tuberculosis PE and PPE multigene families. (2005)

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