gebhart/patrepeval huggingface dataset:
Identification of a new HLA-A*0201-restricted CD8+ T cell epitope from hepatocellular carcinoma-associated antigen HCA587 (2005)

For the development of peptide-based cancer immunotherapies, we aimed to identify specific HLA-A*0201-restricted CTL epitopes in hepatocellular carcinoma (HCC) associated antigen HCA587, which has been identified as a member of the cancer/testis (CT) antigens highly expressed in HCC. We first combined the use of an HLA-A*0201/peptide binding algorithm and T2 binding assays with the induction of specific CD8(+) T cell lines from normal donors by in vitro priming with high-affinity peptides, then IFN-gamma release and cytotoxicity assays were employed to identify the specific HLA-A*0201 CD8(+) T cell epitope using peptide-loaded T2 cells or the HCA587 protein(+) HCC cell line HepG2. In the six candidate synthesized peptides, two peptides showed higher binding ability in T2 binding assays. No. 2 peptide, encompassing amino acid residues FLAKLNNTV (HCA587(317-325)), was able to activate a HCA587-specific CD8(+) T-cell response in human lymphocyte cultures from two normal donors and two HCC patients, and these HCA587-specific CD8(+) T cells recognized peptide-pulsed T2 cells as well as the HCA587 protein(+) HCC cell line HepG2 in IFN-gamma release and cytotoxicity assays. The results indicate that no. 2 peptide is a new HLA-A*0201-restricted CTL epitope capable of inducing HCA587-specific CTLs. Our data suggest that identification of this new HCA587/HLA-A*0201 peptide FLAKLNNTV may facilitate the design of peptide-based immunotherapies for the treatment of HCA587-bearing HCC patients.
The When and Where of Floor Plate Induction (1998)

Floor plate induction is a well-studied early step in the development of the nervous system. Here Dodd, Jessell, and Placzek review recent work on the mechanism of that induction, including some controversial suggestions that part of the floor plate is derived from notochord.
Targeting Vascular Endothelial Growth Factor Blockade: Ascites and Pleural Effusion Formation (2000)

We conclude that malignant ascites and PE contain high levels of biologically active VEGF. This study strongly supports the hypothesis that blockade of VEGF, such as that afforded by SU5416, may benefit cancer patients with recurrent ascites or PE formation.
EX VIVO CHARACTERIZATION OF HUMAN ANTI-PORCINE HYPERACUTE CARDIAC REJECTION (1993)

Hyperacute rejection (HAR) currently precludes the use of discordant organs for human transplantation. In order to comprehensively evaluate HAR in a clinically applicable species combination, we have developed an ex vivo perfusion model utilizing a neonatal extracorporeal membrane oxygenator circuit; this model allows for functional and sequential biopsy studies of working piglet hearts sustained by human, single donor AB+ type blood. A detailed description of the methods employed is included. Hearts perfused by allogeneic pig blood sustained normal function throughout the study period, while those perfused with human blood lost organized ventricular contraction in 25-34 min with markedly attenuated function. Compared with biopsies from piglet hearts perfused with allogeneic blood and biopsies taken prior to human blood perfusion (t = 0), biopsies of hearts perfused with human blood at t = 15 and 30 min demonstrated significant inflammatory changes involving vessels (endothelial and myointimal swelling and reaction) as well as myocardium (injury and necrosis). By immunohistology, significant vascular deposition of IgM, IgG, fibrinogen, C3, and C1q was seen, along with infiltrates of human leukocytes consisting predominantly of neutrophils, macrophages, and T cells, with occasional B cells and NK cells. Sequential studies of circulating blood demonstrated the progressive consumption of human leukocytes and human anti-porcine antibodies, but no decrease in complement activity as measured by CH50. These findings indicate that the rapid loss of function seen in human anti-porcine cardiac HAR is associated with deposition of IgM and IgG xenoreactive antibody and early complement components and that extensive infiltration by inflammatory cells occurs within 15-30 min. This model provides a useful system for the study of human anti-porcine HAR.
Promise and Peril: Assessment and Urban Universities (1999)

Following a brief historical review of statelevel assessment research and practice, this article discusses the current objectives and outcomes of state-level assessment policies throughout the United States, possible explanations for the gap between assessment policy objectives and outcomes, and the implications for urban institutions of higher education.
Superior Thermal Conductivity of Single-Layer Graphene (2008)

We report the measurement of the thermal conductivity of a suspended single-layer graphene. The room temperature values of the thermal conductivity in the range approximately (4.84+/-0.44)x10(3) to (5.30+/-0.48)x10(3) W/mK were extracted for a single-layer graphene from the dependence of the Raman G peak frequency on the excitation laser power and independently measured G peak temperature coefficient. The extremely high value of the thermal conductivity suggests that graphene can outperform carbon nanotubes in heat conduction. The superb thermal conduction property of graphene is beneficial for the proposed electronic applications and establishes graphene as an excellent material for thermal management.
Immunotherapy for Esophageal Cancer (1995)

We investigated the effect of multimodal therapy in 187 patients with esophageal cancer. All patients were followed up over a period of 5 years. Among the 187 patients, 174 (93.1%) eligible patients with biopsy-proved esophageal squamous cell carcinoma underwent esophagectomy and were randomly assigned to receive radiotherapy (RT) with or without protein-bound polysaccharide (PSK), or RT plus chemotherapy (CT) with or without PSK. The 5-year survival rates of patients with RT, RT+PSK, RT+CT and RT+CT+PSK were 40.0%, 42.3%, 29.1% and 37.2%, respectively. There was a tendency for longer survival on PSK, but statistical significance was not reached (RT+CT group versus RT+CT+PSK group: log-rank and generalized Wilcoxon tests, P = .1930, P = .1034). However, Cox multivariate regression analysis indicated that postoperative therapy with or without PSK was the most significant prognostic factor for patients receiving RT+CT and for the eligible patients. These results indicate that PSK may have a beneficial effect on esophageal carcinoma when given in combination with CT+RT.
Generalizations of the Karatsuba Algorithm for Efficient Implementations. (2006)

In this work we generalize the classical Karatsuba Algorithm (KA) for polynomial multiplication to (i) polynomials of arbitrary degree and (ii) recursive use. We determine exact complexity expressions for the KA and focus on how to use it with the least number of operations. We develop a rule for the optimum order of steps if the KA is used recursively. We show how the usage of dummy coe#cients may improve performance. Finally we provide detailed information on how to use the KA with least cost, and also provide tables that describe the best possible usage of the KA for polynomials up to a degree of 127. Our results are especially useful for e#cient implementations of cryptographic and coding schemes over fixed-size fields like GF (p ).
Renal function and 25-hydroxyvitamin D concentrations predict parathyroid hormone levels in renal transplant patients (2006)

We conclude that 25OHD deficiency and insufficiency are common in renal transplant patients and may exacerbate secondary hyperparathyroidism. However, 25OHD, eGFR and phosphate only account for 19% of the variability in PTH levels. In addition, even a large increase in serum 25OHD levels is likely to result in only a small reduction in PTH. Therefore, alternative approaches to managing hyperparathyroidism in renal transplant recipients rather than supplementation with ergocalciferol are warranted.
Progress in drug development of immunostimulatory CpG oligodeoxynucleotide ligands for TLR9 (2005)

Oligodeoxynucleotides (ODNs) with unmethylated deoxycytosine-deoxyguanosine (CpG) motifs are recognised by Toll-like receptor (TLR)9 expressed in specialised cell subsets of the human immune system, B cells and plasmacytoid dendritic cells. TLR9-mediated stimulation of the immune system leads to a plethora of directed effects linking innate to adaptive immune responses. This allows the use of TLR9 agonists as highly effective targeted immunomodulatory drugs with broad potential applications as vaccine adjuvants, stand-alone therapy or in combination with other therapies in cancer, infectious diseases or asthma and allergy. TLR9 agonists represent a new class of small (8-30 bases long), easily synthesised, non-antisense ODN pharmaceuticals.
Soluble CD40L and Cardiovascular Risk in Asymptomatic Low-Grade Carotid Stenosis (2005)

High levels of sCD40L may predict the risk of CV events in ALCS.
A Passive Mixer-First Receiver With Digitally Controlled and Widely Tunable RF Interface (2010)

A software-defined radio (SDR) receiver with baseband programmable RF bandpass filter (BPF) and complex impedance match is presented. The passive mixer-first architecture used here allows the impedance characteristics of the receiver's baseband circuits to be translated to the RF port of the receiver. Tuning the resistance at the baseband port allows for a real impedance match to the antenna. The addition of "complex feedback" between I and Q paths allows for matching to the imaginary component of the antenna impedance. By implementing both real and imaginary components with resistors in feedback around low noise baseband amplifiers, noise figure is also kept low. Tunable sampling capacitors on the baseband side of the passive mixer translate to tunable-Q filters on the RF port which allow for very good out-of-band linearity. Furthermore, the concept of in-band and out-of-band must be redefined as the impedance match and BPF center frequency move with the LO frequency, such that matching and filtering track the receive frequency. Additionally, 8-phase mixing is shown to provide significant benefits such as impedance matching range, rejection of blockers at LO harmonics, and lower noise figure (NF). Measurements from the receiver implemented in 65 nm CMOS show 70 dB of gain, NF as low as 3 dB, and 25 dBm out-of-band IIP3. Furthermore, tunable impedance matching shows that S11 <;- 30 dB can be achieved at any receive frequency from 0.1-1.3 GHz.
Engineering extended membrane scaffold proteins for self-assembly of soluble nanoscale lipid bilayers (2010)

High-density lipoproteins (HDLs) play an important role in human health through the metabolism and trafficking of cholesterol as well as providing the feedstocks for steroid hormone biosynthesis. These particles contain proteins, primarily Apo-AI and phospholipid and progress through various structural forms including 'lipid-poor', 'discoidal' and 'spherical' entities as cholesterol esters and lipid are incorporated. The discoidal form of HDL is stabilized in solution by two encircling belts of Apo-AI. Previous protein engineering of the Apo-AI sequence has led to a series of amphipathic helical proteins, termed membrane scaffold proteins (MSPs), which have shown great value in assembling nanoscale soluble membrane bilayers, termed Nanodiscs, of homogeneous size and composition and in the assembly of numerous integral membrane proteins for biophysical and biochemical investigations. In this communication we document a protein engineering approach to generate and optimize an extended polypeptide MSP, which will self-assemble phospholipids into larger Nanodiscs with diameters of 16-17 nm. We extensively characterize these structures by size exclusion chromatography and solution X-ray scattering.
Cytomegalovirus infects human lymphocytes and monocytes: virus expression is restricted to immediate-early gene products. (1984)

In this investigation, we studied the ability of human cytomegalovirus to infect peripheral blood mononuclear cells. With monoclonal antibody technology, we demonstrated that cytomegalovirus could infect human lymphocytes of T- and B-cell lineage, natural killer cells, and monocytes. Furthermore, virus expression was limited to the synthesis of immediate-early cytomegalovirus polypeptides. These peripheral blood mononuclear cells did not produce infectious virus, nor were mature virions visualized by electron microscopy. This abortive infection of mononuclear cells was most convincingly shown with stocks of cytomegalovirus that had been recently isolated from infected patients and passaged minimally in fibroblasts. This argues for an increased lymphotropic effect of some isolates of cytomegalovirus, compared to strains of virus that are extensively adapted to growth in fibroblasts. Furthermore, immunocompetent cells that were shown to be abortively infected with cytomegalovirus lost selected differentiated functions.
Premiers travaux sur le site acheuléen de Nadaouiyeh I (El Kowm, Syrie) (1983)

The oasis of El Kowm, with the sixty Palaeolithic sites located in the basin, gives an exceptional opportunity of following in details the evolution of the late Acheulian and the transition towards the Middle Palaeolithic. A sounding in the spring mound of Nadaouiyeh I suggests the possibility of a typological gradual change from the late Acheulian to a final one. Four superposed living floors, apparently well preserved, exist in the surroundings of the spring, offering a good typological sequence, and at the same time an occasion for ethnoarchaeological remarks. Such a favourable situation should be adequatly exploited.
An algorithm for generation in Unification Categorial Grammar (1989)

We present an algorithm for the generation of sentences from the semantic representations of Unification Categorial Grammar. We discuss a variant of Shieber's semantic monotonicity requirement and its utility in our algorithm. We indicate how the algorithm may be extended to other grammars obeying the same requirement. Appendices contain a full listing of the program and a trace of execution of the algorithm.
Detection of Mycoplasma pneumoniae by polymerase chain reaction and nonradioactive hybridization in microtiter plates (1993)

In order to improve the diagnosis of a Mycoplasma pneumoniae infection, we developed a polymerase chain reaction (PCR)-based assay. The gene encoding elongation factor Tu (tuf) was selected as the target sequence. Oligonucleotides derived from variable stretches of the tuf gene were able to prime the amplification of a 950-bp fragment exclusively when M. pneumoniae DNA was used as the template. The sensitivity of the assay was increased 10-fold when the amplification products were hybridized with an internal M. pneumoniae-specific oligonucleotide. The use of three to four genome copies for PCR was sufficient for obtaining a hybridization signal. In addition, we substituted radioactive filter hybridization with a microtiter plate assay. Via a biotin moiety of one PCR primer, the amplification products were immobilized on streptavidin-coated microtiter plates. Subsequent hybridization with a digoxigenin-labeled oligonucleotide resulted in the same sensitivity and specificity as those obtained by filter hybridization. Clinical application of the assay was performed on 102 throat swab specimens from patients with respiratory tract infections. Of 21 culture-positive samples, 19 were confirmed to be positive in the PCR-based assay (sensitivity, 90%). Furthermore, 14 of 19 seropositive but culture-negative samples gave a positive hybridization signal. Of 62 culture-negative and seronegative specimens, 60 gave a negative result in our assay (specificity, 97%). Of the 33 samples that were positive in our PCR-based assay, 5 samples initially gave false-negative results because of the presence of inhibitory substances in those specimens. Inhibition of Taq polymerase in these five cases was prevented by an additional step of phenol extraction and subsequent ethanol precipitation.
Non-invasive continuous core temperature measurement by zero heat flux (2011)

Reliable continuous core temperature measurement is of major importance for monitoring patients. The zero heat flux method (ZHF) can potentially fulfil the requirements of non-invasiveness, reliability and short delay time that current measurement methods lack. The purpose of this study was to determine the performance of a new ZHF device on the forehead regarding these issues. Seven healthy subjects performed a protocol of 10 min rest, 30 min submaximal exercise (average temperature increase about 1.5 °C) and 10 min passive recovery in ambient conditions of 35 °C and 50% relative humidity. ZHF temperature (T(zhf)) was compared to oesophageal (T(es)) and rectal (T(re)) temperature. ΔT(zhf)-T(es) had an average bias ± standard deviation of 0.17 ± 0.19 °C in rest, -0.05 ± 0.18 °C during exercise and -0.01 ± 0.20 °C during recovery, the latter two being not significant. The 95% limits of agreement ranged from -0.40 to 0.40 °C and T(zhf) had hardly any delay compared to T(es). T(re) showed a substantial delay and deviation from T(es) when core temperature changed rapidly. Results indicate that the studied ZHF sensor tracks T(es) very well in hot and stable ambient conditions and may be a promising alternative for reliable non-invasive continuous core temperature measurement in hospital.
Tietz Fundamentals of Clinical Chemistry (1996)

Tietz fundamentals of clinical chemistry , Tietz fundamentals of clinical chemistry , کتابخانه مرکزی دانشگاه علوم پزشکی تهران
CD8+T-cell Responses in Flavivirus-Naive Individuals Following Immunization with a Live-Attenuated Tetravalent Dengue Vaccine Candidate (2015)

We are developing a live-attenuated tetravalent dengue vaccine (TDV) candidate based on an attenuated dengue 2 virus (TDV-2) and 3 chimeric viruses containing the premembrane and envelope genes of dengue viruses (DENVs) -1, -3, and -4 expressed in the context of the attenuated TDV-2 genome (TDV-1, TDV-3, and TDV-4, respectively). In this study, we analyzed and characterized the CD8(+) T-cell response in flavivirus-naive human volunteers vaccinated with 2 doses of TDV 90 days apart via the subcutaneous or intradermal routes. Using peptide arrays and intracellular cytokine staining, we demonstrated that TDV elicits CD8(+) T cells targeting the nonstructural NS1, NS3, and NS5 proteins of TDV-2. The cells were characterized by the production of interferon-γ, tumor necrosis factor-α, and to a lesser extent interleukin-2. Responses were highest on day 90 after the first dose and were still detectable on 180 days after the second dose. In addition, CD8(+) T cells were multifunctional, producing ≥2 cytokines simultaneously, and cross-reactive to NS proteins of the other 3 DENV serotypes. Overall, these findings describe the capacity of our candidate dengue vaccine to elicit cellular immune responses and support the further evaluation of T-cell responses in samples from future TDV clinical trials.
Anti-CD137 enhances anti-CD20 therapy of systemic B-cell lymphoma with altered immune homeostasis but negligible toxicity (2016)

Studies of sequential anti-CD137/anti-CD20 therapy have previously shown that the efficacy of anti-CD20 was heavily reliant upon anti-CD137; however, the exact mechanism of the anti-B-cell lymphoma efficacy, and whether this correlates with enhanced adverse effects or toxicity, had not been elucidated. Here, we observed that sequential anti-CD137 administration with anti-CD20 resulted in a synergistic therapy, largely dependent upon Fc receptors (FcR), to prolong survival in an experimental B-cell lymphoma therapy model. Tumor suppression was accompanied by B cell depletion, which was not dependent on one activating FcR. Surprisingly, the B-cell activating factor (BAFF) was elevated in the plasma of mice receiving anti-CD137 alone or in combination with anti-CD20, while a selective increase in some plasma cytokines was also noted and triggered by anti-CD137. These effects were independent of activating FcR. Sustained treatment of advanced lymphoma revealed increased lymphocyte infiltrates into the liver and a significant decrease in the metabolic capability of the liver in mice receiving anti-CD137. Importantly, these effects were not exacerbated in mice receiving the anti-CD20/CD137 combination, and elevations in classical liver damage markers such as alanine aminotransferase (ALT) were less than that caused by the lymphoma itself. Thus, combined anti-CD20/anti-CD137 treatment increases the therapeutic index of anti-CD20 or anti-CD137 alone. These mouse data were corroborated by ongoing clinical development studies to assess safety, tolerability and pharmacodynamic activity of human patients treated by this approach. Together, these data support the use of this sequential antibody therapeutic strategy to improve the efficacy of rituximab in B-cell lymphoma patients.
Therapeutic modulation of endogenous gene function by agents with designed DNA-sequence specificities (2003)

Designer molecules that can specifically target pre-determined DNA sequences provide a means to modulate endogenous gene function. Different classes of sequence-specific DNA-binding agents have been developed, including triplex-forming molecules, synthetic polyamides and designer zinc finger proteins. These different types of designer molecules with their different principles of engineered sequence specificity are reviewed in this paper. Furthermore, we explore and discuss the potential of these molecules as therapeutic modulators of endogenous gene function, focusing on modulation by stable gene modification and by regulation of gene transcription.
Panel and Speech Balloon Extraction from Comic Books (2012)

Comic books represent an important cultural heritage in many countries. However, few researches have been done in order to analyse the content of comics such as panels, speech balloons or characters. At first glance, the structure of a comic page may appear easy to determine. In practice, the configuration of the page, the size and the shape of the panels can be different from one page to the next. Moreover, authors often draw extended contents (speech balloon or comic art) that overlap two panels or more. In some situations, the panel extraction can become a real challenge. Speech balloons are other important elements of comics. Full text indexing is only possible if the text can be extracted. However the text is usually embedded among graphic elements. Moreover, unlike newspapers, the text layout in speech balloons can be irregular. Classic text extraction method can fail. We propose, in this paper, a method based on region growing and mathematical morphology to extract automatically the panels of a comic page and a method to detect speech balloons. Our approach is compared with other methods find in the literature. Results are presented and discussed.