gebhart/patrepeval huggingface dataset:
Human Anti-CCR4 Minibody Gene Transfer for the Treatment of Cutaneous T-Cell Lymphoma (2012)

Overall, our data demonstrate that the in vivo anti-tumor activity of h1567 minibody is mediated, at least in part, through CD16A+ immune effector cell ADCC mechanisms. These data further demonstrate the utility of the AAV-minibody gene transfer system in the rapid evaluation of candidate anti-tumor mAbs and the potency of h1567 as a potential novel therapy for CTCL.
Overnight Closed-Loop Insulin Delivery in Young People With Type 1 Diabetes: A Free-Living, Randomized Clinical Trial (2014)

Unsupervised home use of overnight closed loop in adolescents with type 1 diabetes is safe and feasible. Glucose control was improved during the day and night with fewer episodes of nocturnal hypoglycemia.
Lead identification for the K-Ras protein: virtual screening and combinatorial fragment-based approaches (2016)

Thus, through the current study, we propose targeting only "off" state conformations as a promising strategy for the design of reversible inhibitors to pharmacologically inhibit distinct conformations of K-Ras protein.
Hamilton Depression Scores Can Be Extracted from the K-SADS-P in Adolescents (1992)

ABSTRACT Paralleling the work of Endicott and colleagues who provided an algorithm for extracting a Hamilton Depression Rating Scale (HDRS) score from the SADS and SADS-C interviews for adults, this report provides an algorithm for extracting a HDRS score from the Schedule for Affective Disorders and Schizophrenia for School Age Children, Present Episode (KSADS-P). The HDRS and the K-SADS-P were administered to 21 adolescent outpatients with major depressive disorder. Using symptoms from the K-SADS-P, an estimate of the HDRS total score was extracted and correlated with the actual HDRS total score. The interclass correlation coefficient was extremely high (0.987), demonstrating that the HDRS total score can be accurately estimated from the K-SADS-P. This method can help relate findings from clinical evaluations and research studies of children using the K-SADS-P to prior assessments of children as well as adults with major depression that employed the HDRS. Clinicians and researchers in psychopharmacology do not need to administer both the HDRS and the K-SADS-P.
A Subretinal Matrigel Rat Choroidal Neovascularization (CNV) Model and Inhibition of CNV and Associated Inflammation and Fibrosis by VEGF Trap (2010)

The subretinal Matrigel CNV model provides a convenient tool for the study of the diverse components of complex CNV lesions. The data not only confirm the critical roles of VEGF in the development and maintenance of CNV, but further demonstrate that VEGF and other VEGF receptor 1 ligands promote CNV-associated inflammation and fibrosis.
Striking Similarities between the Regulatory Mechanisms Governing Yeast Mating-Type Genes and Mammalian Major Histocompatibility Complex Genes (1991)

Expression of a mammalian major histocompatibility complex (MHC) class I gene is in part regulated by a silencer DNA sequence element which binds a complex of silencer factors. This negative regulatory system is shown to be strikingly similar to the yeast alpha 2 mating-type repression system. A moderate DNA sequence homology exists between the MHC class I silencer DNA element and the yeast alpha 2 operator. Mammalian silencer factors specifically bind to the yeast alpha 2 operator DNA and also specifically interact with a yeast alpha 2-binding protein. Furthermore, the alpha 2 operator functions as a silencer element in mammalian cells when placed upstream of a MHC class I promoter.
Jihadand ethnicity in post‐communist Eurasia. on the trail of transnational islamic holy warriors in Kashmir, Afghanistan, Central Asia, Chechnya and Kosovo (2003)

(2003). Jihad and ethnicity in post‐communist Eurasia. on the trail of transnational islamic holy warriors in Kashmir, Afghanistan, Central Asia, Chechnya and Kosovo. Global Review of Ethnopolitics: Vol. 2, No. 3-4, pp. 3-24.
Circadian Regulation of Pineal Melatonin and Reproduction in the Djungarian Hamster (1986)

Gonadal state, pineal melatonin rhythms, and locomotor activity rhythms were examined in juvenile male Djungarian hamsters exposed to non-24-hr light cycles ("T-cycles") or to full photoperiods. At the end of 1 month, hamsters exposed to a 1-hr pulse of light every 24.33 hr (T 24.33) exhibited small testes, whereas those receiving the same amount of light every 24.78 hr (T 24.78) displayed stimulated gonads, ten-fold larger in size. Accompanying the nonstimulatory effect of the T 24.33 cycle were nocturnal peaks in both pineal melatonin content and serum melatonin concentration which were longer by approximately 4 hr than those observed on the photostimulatory T 24.78 cycle. Exposure to an intermediate-length T-cycle (T 24.53) resulted in a mixed gonadal response and in pineal and serum melatonin peaks of intermediate duration. Wheel-running activity was entrained to the T-cycles such that light was present only near the beginning of the subjective night, its phase (relative to activity onset) differing only slightly among T-cycle groups. Hence the durational differences observed in the melatonin peaks were apparently not due to the acute suppressive or phase-advancing effects of morning light on melatonin biosynthesis, but were rather the result of differences in the endogenous control of pineal activity by the circadian pacemaker system. While no strong correlation was detected between gonadal state and the phase of locomotor activity onset relative to the light pulse, a significant correlation was observed between gonadal state and the duration of daily locomotor activity (alpha). These data were compared to similar measures obtained from hamsters exposed to long-versus short-day full photoperiods (LD 16:8 vs. LD 10:14). In summary, the results of this study indicate involvement of the circadian pacemaker system of Djungarian hamsters in the control of pineal melatonin synthesis and secretion, and in photoperiodic time measurement. Furthermore, these data strengthen the hypothesis that it is the duration of nocturnal pineal melatonin secretion that is the critical feature of this neuroendocrine gland's photoperiodic signal.
Cell Uptake and in Vitro Toxicity of Magnetic Nanoparticles Suitable for Drug Delivery (2009)

Magnetic targeting is useful for intravascular or intracavitary drug delivery, including tumor chemotherapy or intraocular antiangiogenic therapy. For all such in vivo applications, the magnetic drug carrier must be biocompatible and nontoxic. In this work, we investigated the toxic properties of magnetic nanoparticles coated with polyethylenoxide (PEO) triblock copolymers. Such coatings prevent the aggregation of magnetic nanoparticles and guarantee consistent magnetic and nonmagnetic flow properties. It was found that the PEO tail block length inversely correlates with toxicity. The nanoparticles with the shortest 0.75 kDa PEO tails were the most toxic, while particles coated with the 15 kDa PEO tail block copolymers were the least toxic. Toxicity responses of the tested prostate cancer cell lines (PC3 and C4-2), human umbilical vein endothelial cells (HUVECs), and human retinal pigment epithelial cells (HRPEs) were similar. Furthermore, all cell types took up the coated magnetic nanoparticles. It is concluded that magnetite nanoparticles coated with triblock copolymers containing PEO tail lengths of above 2 kDa are biocompatible and appropriate for in vivo application.
Helical antennas for multi-mode mobile phones (1996)

The use of helical antennas in handsets for multi-frequency operation has been studied. It is shown that it is possible to obtain very wideband operation or two separate frequency bands of operation by using two helical antennas attached on the top edges of the conducting case of a handset. The presence of the second antenna has relatively small effect on the operation. If one of the single helical antennas is replaced with two helical antennas one within the other three separate frequency bands of operation can be obtained.
Deep Learning in Protein Structural Modeling and Design (2020)

Deep learning is catalyzing a scientific revolution fueled by big data, accessible toolkits, and powerful computational resources, impacting many fields including protein structural modeling. Protein structural modeling, such as predicting structure from amino acid sequence and evolutionary information, designing proteins toward desirable functionality, or predicting properties or behavior of a protein, is critical to understand and engineer biological systems at the molecular level. In this review, we summarize the recent advances in applying deep learning techniques to tackle problems in protein structural modeling and design. We dissect the emerging approaches using deep learning techniques for protein structural modeling, and discuss advances and challenges that must be addressed. We argue for the central importance of structure, following the "sequence -&gt; structure -&gt; function" paradigm. This review is directed to help both computational biologists to gain familiarity with the deep learning methods applied in protein modeling, and computer scientists to gain perspective on the biologically meaningful problems that may benefit from deep learning techniques.
Comparison of Pond Production Efficiency, Fatty Acid Profiles, and Contaminants in Litopenaeus vannamei Fed Organic Plant‐based and Fish‐meal‐based Diets (2006)

Abstract Reduction or elimination of fish meal and fish oil from aquaculture diets can help to reduce the potential for contamination and dependence of the industry on pelagic fisheries while improving economic competitiveness. However, fish oil provides important omega‐3 (n‐3) fatty acids (FAs) essential to shrimp health and beneficial to humans. This study evaluated an organic, plant‐based diet formulated to replace fish meal and fish oil with plant proteins and docosahexaenoic acid (DHA) produced by algal fermentation. Shrimp cultured in replicate outdoor ponds at 25/m 2 were fed either a diet composed of organically produced plant ingredients or a conventional commercial fish‐meal‐based feed. No significant differences were found in production parameters between the conventional fish‐meal‐based diet and the plant‐based diet (production: 4594 and 4592 kg/ha; harvest size: 18.7 and 19.2 g; survival: 93 and 88%; and feed conversion ratio: 1.4 and 1.3, respectively). At harvest, shrimp were analyzed for 147 chemical contaminants and 71 FAs. Contaminant levels were negligible for shrimp raised on both diets. The fish meal and fish oil diet provided significantly higher quantities of eicosapentaenoic acid and DHA than the plant‐based diet, and the shrimp fed the conventional diet reflected this with higher levels of these beneficial FAs in edible tissues. Differences between feeds and shrimp tissues suggest that essential n‐3 FAs may accumulate in shrimp tissues over time or that natural pond productivity may play a role in providing supplemental nutrition. Shrimp raised on the two diets and wild‐caught shrimp are clearly distinguishable by their FA profiles. Compared to alternative protein sources like beef, pork, or chicken, differences in lipid profiles of shrimp raised on either diet may be insignificant because both offer increased human health benefits.
Inside Word: Produce or Be Damned (2010)

Producers drive the filmmaking process. Sam Dallas takes a closer look at Bergent Research and AFTRS' comprehensive producer survey to find out what today's producer needs to do to be successful.
Specific antibody reactivity against a 110-kilodalton Actinobacillus actinomycetemcomitans protein in subjects with periodontitis (1996)

The purpose of the present study was to determine the serum immunoglobulin A (IgA), IgM, and IgG reactivities against proteins of Actinobacillus actinomycetemcomitans in patients with periodontitis. Serum samples from 20 patients with early-onset periodontitis, 20 patients with adult periodontitis, and 20 age- and sex-matched healthy controls were assessed by immunoblot analysis. IgG antibody reactivity against a sarcosyl-insoluble 110-kDa protein of A. actinomycetemcomitans was detected in 65 and 45% of patients with early-onset periodontitis and adult peritonitis, respectively, and IgA antibodies against this protein were found in 70 and 55% of these patients, respectively. However, control subjects showed no IgG reactivity, and IgA antibodies against the sarcosyl-insoluble 110-kDa protein were detected in only 5% of the patients (P < 0.05). There was no IgM antibody reactivity against this protein in any of the diseased or healthy subjects. The sensitivity and specificity of serum IgA antibody reactivity against the 110-kDa protein in detecting subgingival A. actinomycetemcomitans infection, as determined by PCR, were 77 and 66%, respectively. The results of the study indicated that the sarcosyl-insoluble 110-kDa protein is a potential candidate for use in the serodiagnosis of periodontal disease.
Vaccination with recombinant vaccinia viruses expressing ICP27 induces protective immunity against herpes simplex virus through CD4+ Th1+ T cells (1995)

This study was designed to evaluate the efficacy and mechanisms of protection mediated by recombinant vaccinia viruses encoding immediate-early (IE) proteins of herpes simplex virus type 2 (HSV-2). Three mouse strains were immunized against the IE proteins ICP27, ICP0, and ICP4, and mice were challenged intracutaneously in the zosteriform model with HSV-2 strain MS. Protection was observed only following immunization with the ICP27 construct and then only in the BALB/c mouse strain. Protection in BALB/c mice was ablated by CD4+ T-cell suppression but remained intact in animals depleted of CD8+ T cells. Moreover, protection could be afforded to SCID nude recipients with CD4+ but not CD8+ T cells from ICP27-immunized mice. Only BALB/c mice developed a delayed-type hypersensitivity reaction to HSV-2, and in vitro measurements of humoral and cell-mediated immunity revealed response patterns to ICP27 and HSV that differed between protected BALB/c and unprotected mouse strains. Accordingly, BALB/c responses showed antigen-induced cytokine profiles dominated by type 1 cytokines, whereas C57BL/6 and C3H/HeN mice generated cytokine responses mainly of the type 2 variety. Our results may indicate that protection against zosterification is mainly mediated by CD4+ T cells that express a type 1 cytokine profile and that protective vaccines against HSV which effectively induce such T-cell responses should be chosen.
Safety and efficacy of ruxolitinib in splanchnic vein thrombosis associated with myeloproliferative neoplasms (2016)

Splanchnic vein thrombosis (SVT) is one of the vascular complications of myeloproliferative neoplasms (MPN). We designed a phase 2 clinical trial to evaluate safety and efficacy of ruxolitinib in reducing splenomegaly and improving disease-related symptoms in patients with MPN-associated SVT. Patients diagnosed with myelofibrosis (12 cases), polycythemia vera (5 cases) and essential thrombocythemia (4 cases) received ruxolitinib for 24 weeks in the core study period. Spleen volume was assessed by magnetic resonance imaging (MRI) and splanchnic vein circulation by echo-Doppler analysis. Nineteen patients carried JAK2V617F, one had MPLW515L, and one CALRL367fs*46 mutation. Eighteen patients had spleno-portal-mesenteric thrombosis, two had Budd-Chiari syndrome, and one had both sites involved; 16 patients had esophageal varices. Ruxolitinib was well tolerated with hematological toxicities consistent with those of patients without SVT and no hemorrhagic adverse events were recorded. After 24 weeks of treatment, spleen volume reduction ≥35% by MRI was achieved by 6/21 (29%) patients, and a ≥50% spleen length reduction by palpation at any time up to week 24 was obtained by 13/21 (62%) patients. At week 72, 8 of the 13 (62%) patients maintained the spleen response by palpation. No significant effect of treatment on esophageal varices or in splanchnic circulation was observed. MPN-related symptoms, evaluated by MPN-symptom assessment form (SAF) TSS questionnaire, improved significantly during the first 4 weeks and remained stable up to week 24. In conclusion, this trial shows that ruxolitinib is safe in patients with MPN-associated SVT, and effective in reducing spleen size and disease-related symptoms.
Brain Natriuretic Peptide and Neutral Endopeptidase Inhibition in Left Ventricular Impairment1 (1999)

Brain natriuretic peptide (BNP) is increased in left ventricular impairment and neutral endopeptidase (NEP) is involved in its metabolism. In random order, eight patients with left ventricular impairment received placebo, a 4-h infusion of human BNP (3.0 pmol/kg min), a single oral dose of NEP inhibitor (SCH 42495, 300 mg), and combined BNP and SCH 42495. Plasma BNP, cGMP, and cortisol were significantly increased by all three treatments (P < 0.05-P < 0.001). Combined treatment had a synergistic effect on plasma cGMP. The metabolic clearance rate of exogenous BNP was reduced (25%) by NEP inhibition. Endogenous plasma ANP was augmented more than BNP by NEP inhibition. Plasma aldosterone, unchanged during infusions, rose markedly after BNP and after the combined treatment (P < 0.05 for both). Urine sodium excretion, increased by NEP inhibition (P < 0.05) and by BNP (P = 0.05), was unchanged during combined treatment. Urine cGMP excretion was increased, whereas blood pressure was reduced by all active treatments (P < 0.05-0.01 for all). Heart rate increased only with combined treatment (P = 0.007). Plasma renin activity, norepinephrine, and cardiac output were unaffected. BNP infusion and NEP inhibition both induced significant hemodynamic and renal responses. The augmented hypotensive effect of combined treatments, and consequent fall in renal perfusion pressure, may underly the observed blunting of the natriuretic response that occurred despite greater than additive increments in plasma BNP, ANP, and cGMP.
Immediate intraocular pressure rise after intravitreal injection of ranibizumab and two doses of triamcinolone acetonide. (2011)

IOP may remarkably increase immediately after the intravitreal injection of 2 or 4mg triamcinolone acetonide, and 0.5mg ranibizumab. Absence of vitreous reflux is the most important predicting factor for immediate IOP rise after the injection.
G-Quadruplex DNA Structures Variations on a Theme (2001)

To be functional, nucleic acids need to adopt particular threedimensional structures. For a long time DNA was regarded as a rigid and passive molecule with the sole purpose to store genetic information, but experimental data has now accumulated that indicates the full dynamic repertoire of this macromolecule. During the last decade, fourstranded DNA structures known as Gquadruplexes, or DNA tetraplexes, have emerged as a threedimensional structure of special interest. Motifs for the formation of Gquadruplex DNA structures are widely dispersed in eukaryotic genomes, and are abundant in regions of biological significance, for example, at telomeres, in the promoters of many important genes, and at recombination hotspots, to name but a few in man. Here I explore the plethora of Gquadruplex DNA structures, and discuss their possible biological functions as well as the proteins that interact with them.
Poultry as a Host for the Zoonotic Pathogen Campylobacter jejuni (2011)

Campylobacteriosis is the most reported foodborne gastroenteritic disease and poses a serious health burden in industrialized countries. Disease in humans is mainly caused by the zoonotic pathogen Campylobacter jejuni. Due to its wide-spread occurrence in the environment, the epidemiology of Campylobacter remains poorly understood. It is generally accepted, however, that chickens are a natural host for Campylobacter jejuni, and for Campylobacter spp. in general, and that colonized broiler chicks are the primary vector for transmitting this pathogen to humans. Several potential sources and vectors for transmitting C. jejuni to broiler flocks have been identified. Initially, one or a few broilers can become colonized at an age of >2 weeks until the end of rearing, after which the infection will rapidly spread throughout the entire flock. Such a flock is generally colonized until slaughter and infected birds carry a very high C. jejuni load in their gastrointestinal tract, especially the ceca. This eventually results in contaminated carcasses during processing, which can transmit this pathogen to humans. Recent genetic typing studies showed that chicken isolates can frequently be linked to human clinical cases of Campylobacter enteritis. However, despite the increasing evidence that the chicken reservoir is the number one risk factor for disease in humans, no effective strategy exists to reduce Campylobachter prevalence in poultry flocks, which can in part be explained by the incomplete understanding of the epidemiology of C. jejuni in broiler flocks. As a result, the number of human campylobacteriosis cases associated with the chicken vector remains strikingly high.
Pulse slicing with Pockels cell shutters (1982)

An electro-optical shutter, consisting of one Pockels cell between a pair of crossed polarisers is described which slices out two pulses of independently variable pulse widths and variable delay between them from an incident laser beam. The authors also report on a Pockels cell shutter arrangement to slice out single subnanosecond pulses.
Silicon-to-silicon direct bonding method (1986)

It was found that strong bonding takes place when a pair of clean, mirror-polished silicon surfaces are contacted at room temperature after hydrophilic surface formation. Bonding strength reaches the fracture strength of silicon bulk after heating above 1000 °C. Electric resistivity at the interface is less than 10−6 Ω/cm2. Bonding p-type silicon to n-type silicon forms a diode. The reaction between silanol groups formed on the surface may cause the bonding force. Heating above 1000 °C was thought to diffuse oxygen to inside the silicon bulk, forming an epitaxial-like lattice continuity at the interface.
Neuroprotective Effects of a Novel Nitrone, NXY-059, after Transient Focal Cerebral Ischemia in the Rat (1999)

Recent results have demonstrated that the spin trapping agent alpha-phenyl-N-tert-butyl nitrone (PBN) reduces infarct volume in rats subjected to 2 hours of middle cerebral artery occlusion, even when given 1 to 3 hours after the start of recirculation. In the current study, the authors assessed the effect of NXY-059, a novel nitrone that is more soluble than PBN. Loading doses were given of 0.30, 3.0, or 30 mg x kg(-1) followed by 0.30, 3.0, or 30 mg x kg(-1) x h(-1) for 24 or 48 hours. Dose-response studies showed that when treatment was begun 1 hour after recirculation, 0.30 mg x kg(-1) had a small and 30 mg x kg(-1) a marked effect on infarct volume. At equimolar doses (3.0 mg x kg(-1) for NXY-059 and 1.4 mg x kg(-1) for PBN), NXY-059 was more efficacious than PBN. Similar results were obtained when a recovery period of 7 days was allowed. The window of therapeutic opportunity for NXY-059 was 3 to 6 hours after the start of recirculation. Studies of the transfer constant of [14C]NXY-059 showed that, in contrast to PBN, this more soluble nitrone penetrates the blood-brain barrier less extensively. This fact, and the pronounced antiischemic effect of NXY-059, suggest that the delayed events leading to infarction may be influenced by reactions occurring at the blood-endothelial interface.