gebhart/patrepeval huggingface dataset:
Human BCGF-12kD functions as an autocrine growth factor in transformed B cells. (1991)

In case of lymphoid malignancies of B cell origin and Epstein-Barr Virus (EBV) transformed B cells, it is invariably found that these cells proliferate in the apparent absence of signals from T cells. Many of transformed B cells tested appear to be refractory to the proliferative effects of a number of defined cytokines including IL-1, IL-2, IL-4, IL-5, IL-6, IL-7, TNF alpha, lymphotoxin and IFN gamma. We have recently reported on the molecular cloning of a T cell derived human B cell growth factor, BCGF-12kD. In this study, we show that recombinant BCGF-12kD induces proliferation in EBV negative undifferentiated lymphoma B cell line, MC116 and Burkitt's lymphoma B cell line, P3HR1. A mouse monoclonal antibody produced against a BCGF-12kD synthetic peptide neutralizes the BCGF activity present in the MC116 conditioned media as well as inhibits the in vitro growth of MC116. The PCR analysis of the BCGF-12kD gene transcription provides further evidence that MC116 cells express the BCGF-12kD gene, whereas this gene is silent in resting and anti-IgM activated normal human B cells. These data clearly suggest an immunoregulatory role of BCGF-12kD in transformed human B cells.
Clinical evaluation of a vaccinia-vectored Hantaan virus vaccine (2000)

We evaluated a vaccinia-vectored vaccine for hemorrhagic fever with renal syndrome in clinical trials. A Phase I dose-escalation study in 16 volunteers divided into four groups demonstrated that subcutaneous inoculation of approximately 10(7) plaque-forming units of the recombinant virus was safe and immunogenic. Vaccination of a fifth group of 12 volunteers indicated that neutralizing antibody titers to both vaccinia virus and Hantaan virus were enhanced after a second inoculation. Comparing two routes of vaccination showed that scarification effectively induced neutralizing antibodies in vaccinia virus-naive volunteers but that subcutaneous inoculation was superior to scarification in vaccinia virus-immune individuals. A Phase II, double-blinded, placebo-controlled clinical trial was conducted among 142 volunteers. Two subcutaneous vaccinations were administered at 4-week intervals. Neutralizing antibodies to Hantaan virus or to vaccinia virus were detected in 72% or 98% of vaccinia virus-naive volunteers, respectively. In contrast, only 26% of the vaccinia virus-immune volunteers developed neutralizing antibody responses to Hantaan virus. J. Med. Virol. 60:77-85, 2000. Published 2000 Wiley-Liss, Inc.
Ruthenium-Catalyzed Cycloaddition of Alkynes and Organic Azides (2005)

Cp*RuCl(PPh3)2 is an effective catalyst for the regioselective "fusion" of organic azides and terminal alkynes, producing 1,5-disubstituted 1,2,3-triazoles. Internal alkynes also participate in this catalysis, resulting in fully substituted 1,2,3-triazoles.
Functional single-cell hybridoma screening using droplet-based microfluidics (2012)

Monoclonal antibodies can specifically bind or even inhibit drug targets and have hence become the fastest growing class of human therapeutics. Although they can be screened for binding affinities at very high throughput using systems such as phage display, screening for functional properties (e.g., the inhibition of a drug target) is much more challenging. Typically these screens require the generation of immortalized hybridoma cells, as well as clonal expansion in microtiter plates over several weeks, and the number of clones that can be assayed is typically no more than a few thousand. We present here a microfluidic platform allowing the functional screening of up to 300,000 individual hybridoma cell clones within less than a day. This approach should also be applicable to nonimmortalized primary B-cells, as no cell proliferation is required: Individual cells are encapsulated into aqueous microdroplets and assayed directly for the release of antibodies inhibiting a drug target based on fluorescence. We used this system to perform a model screen for antibodies that inhibit angiotensin converting enzyme 1, a target for hypertension and congestive heart failure drugs. When cells expressing these antibodies were spiked into an unrelated hybridoma cell population in a ratio of 1:10,000 we observed a 9,400-fold enrichment after fluorescence activated droplet sorting. A wide variance in antibody expression levels at the single-cell level within a single hybridoma line was observed and high expressors could be successfully sorted and recultivated.
Tolerance and M2 (alternative) macrophage polarization are related processes orchestrated by p50 nuclear factor κB (2009)

Cells of the monocyte-macrophage lineage play a central role in the orchestration and resolution of inflammation. Plasticity is a hallmark of mononuclear phagocytes, and in response to environmental signals these cells undergo different forms of polarized activation, the extremes of which are called classic or M1 and alternative or M2. NF-kappaB is a key regulator of inflammation and resolution, and its activation is subject to multiple levels of regulation, including inhibitory, which finely tune macrophage functions. Here we identify the p50 subunit of NF-kappaB as a key regulator of M2-driven inflammatory reactions in vitro and in vivo. p50 NF-kappaB inhibits NF-kappaB-driven, M1-polarizing, IFN-beta production. Accordingly, p50-deficient mice show exacerbated M1-driven inflammation and defective capacity to mount allergy and helminth-driven M2-polarized inflammatory reactions. Thus, NF-kappaB p50 is a key component in the orchestration of M2-driven inflammatory reactions.
High-speed performance of Si/Si/sub 1-x/Ge/sub x/ heterojunction bipolar transistors (1989)

A theoretical investigation of Si/Si/sub 1-x/Ge/sub x/ heterojunction bipolar transistors (HBTs) undertaken in an attempt to determine their speed potential is discussed. The analysis is based on a compact transistor model, and devices with self-aligned geometry, including both extrinsic and intrinsic parameters, are considered. For an emitter area of 1*5 mu m/sup 2/, an f/sub t/ of over 75 GHz and f/sub max/ of over 35 GHz were computed at a collector current density of 1*10/sup 5/ A/cm/sup 2/ and V/sub CB/ of 5 V.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
How I treat refractory acute GVHD (2007)

Graft-versus-host disease (GVHD) after allogeneic hematopoietic cell transplantation (HCT) is associated with considerable morbidity and mortality, particularly in patients who do not respond to primary therapy, which usually consists of glucocorticoids (steroids). Approaches to therapy of acute GVHD refractory to "standard" doses of steroids have ranged from increasing the dose of steroids to the addition of polyclonal or monoclonal antibodies, the use of immunotoxins, additional immunosuppressive/chemotherapeutic interventions, phototherapy, and other means. While many pilot studies have yielded encouraging response rates, in most of these studies long-term survival was not improved in comparison with that seen with the use of steroids alone. A major reason for failure has been the high rate of infections, including invasive fungal, bacterial, and viral infections. It is difficult to conduct controlled prospective trials in the setting of steroid-refractory GVHD, and a custom-tailored therapy dependent upon the time after HCT, specific organ manifestations of GVHD, and severity is appropriate. All patients being treated for GVHD should also receive intensive prophylaxis against infectious complications.
Comparison of the responses of the chorda tympani and glossopharyngeal nerves to taste stimuli in C57BL/6J mice (2003)

These data provide a comprehensive survey and comparison of the taste sensitivity of the normal C57BL/6J mouse against which the effects of manipulations of its gustatory system can be better assessed.
Conservation and evolution of gene coexpression networks in human and chimpanzee brains (2006)

Comparisons of gene expression between human and non-human primate brains have identified hundreds of differentially expressed genes, yet translating these lists into key functional distinctions between species has proved difficult. Here we provide a more integrated view of human brain evolution by examining the large-scale organization of gene coexpression networks in human and chimpanzee brains. We identify modules of coexpressed genes that correspond to discrete brain regions and quantify their conservation between the species. Module conservation in cerebral cortex is significantly weaker than module conservation in subcortical brain regions, revealing a striking gradient that parallels known evolutionary hierarchies. We introduce a method for identifying species-specific network connections and demonstrate how differential network connectivity can be used to identify key drivers of evolutionary change. By integrating our results with comparative genomic sequence data and estimates of protein sequence divergence rates, we confirm a number of network predictions and validate these findings. Our results provide insights into the molecular bases of primate brain organization and demonstrate the general utility of weighted gene coexpression network analysis.
Unique region of the minor capsid protein of human parvovirus B19 is exposed on the virion surface. (1992)

Capsids of the B19 parvovirus are composed of major (VP2; 58 kD) and minor (VP1; 83 kD) structural proteins. These proteins are identical except for a unique 226 amino acid region at the amino terminus of VP1. Previous immunization studies with recombinant empty capsids have demonstrated that the presence of VP1 was required to elicit virus-neutralizing antibody activity. However, to date, neutralizing epitopes have been identified only on VP2. Crystallographic studies of a related parvovirus (canine parvovirus) suggested the unique amino-terminal portion of VP1 assumed an internal position within the viral capsid. To determine the position of VP1 in both empty capsids and virions, we expressed a fusion protein containing the unique region of VP1. Antisera raised to this protein recognized recombinant empty capsids containing VP1 and VP2, but not those containing VP2 alone, in an enzyme-linked immunosorbent assay. The antisera immunoprecipitated both recombinant empty capsids and human plasma-derived virions, and agglutinated the latter as shown by immune electron microscopy. The sera contained potent neutralizing activity for virus infectivity in vitro. These data indicate that a portion of the amino terminus of VP1 is located on the virion surface, and that this region contains intrinsic neutralizing determinants. The external location of the VP1-specific tail may provide a site for engineered heterologous epitope presentation in novel recombinant vaccines.
Chemotherapy with Preoperative Radiotherapy in Rectal Cancer (2006)

In patients with rectal cancer who receive preoperative radiotherapy, adding fluorouracil-based chemotherapy preoperatively or postoperatively has no significant effect on survival. Chemotherapy, regardless of whether it is administered before or after surgery, confers a significant benefit with respect to local control. (ClinicalTrials.gov number, NCT00002523 [ClinicalTrials.gov].).
An efficient hybrid join algorithm: a DB2 prototype (2002)

A new join method, called hybrid join, is proposed which uses the join-index filtering and the skip sequential prefetch mechanism for efficient data access. With this method, the outer table is sorted on the join column. Then, the outer is joined with the index on the join column of the inner. The inner tuple is represented by its surrogate, equivalent of its physical disk address, which is carried in the index. The partial join result is sorted on the surrogate and then the inner table is accessed sequentially to complete the join result. Local predicate filtering can also be applied before the access of the inner relation through the index AND/ORing. Efficient methods for skip sequential access and prefetching of logically discontiguous leaf pages of B/sup +/-tree indexes are also presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Genetic Pathways to Glioblastoma (2004)

We conducted a population-based study on glioblastomas in the Canton of Zurich, Switzerland (population, 1.16 million) to determine the frequency of major genetic alterations and their effect on patient survival. Between 1980 and 1994, 715 glioblastomas were diagnosed. The incidence rate per 100,000 population/year, adjusted to the World Standard Population, was 3.32 in males and 2.24 in females. Observed survival rates were 42.4% at 6 months, 17.7% at 1 year, and 3.3% at 2 years. For all of the age groups, younger patients survived significantly longer, ranging from a median of 8.8 months (<50 years) to 1.6 months (>80 years). Loss of heterozygosity (LOH) 10q was the most frequent genetic alteration (69%), followed by EGFR amplification (34%), TP53 mutations (31%), p16(INK4a) deletion (31%), and PTEN mutations (24%). LOH 10q occurred in association with any of the other genetic alterations and was predictive of shorter survival. Primary (de novo) glioblastomas prevailed (95%), whereas secondary glioblastomas that progressed from low-grade or anaplastic gliomas were rare (5%). Secondary glioblastomas were characterized by frequent LOH 10q (63%) and TP53 mutations (65%). Of the TP53 mutations in secondary glioblastomas, 57% were in hotspot codons 248 and 273, whereas in primary glioblastomas, mutations were more equally distributed. G:C-->A:T mutations at CpG sites were more frequent in secondary than primary glioblastomas (56% versus 30%; P = 0.0208). This suggests that the acquisition of TP53 mutations in these glioblastoma subtypes occurs through different mechanisms.
Evaluation of immune responses to porcine reproductive and respiratory syndrome virus in pigs during early stage of infection under farm conditions (2012)

Replicating PRRSV in both infected and contact pigs was found to be responsible for rapid modulation in NK cell-meditated cytotoxicity and alteration in the production of important immune cytokines. PRRSV-induced immunological changes observed simultaneously at both cellular and cytokine levels early post-infection appear to be responsible for the delay in generation of adaptive immunity. As the study was performed in pigs maintained under commercial environmental conditions, this study has practical implications in design of protective vaccines.
Theorem proving: not an esoteric diversion, but the unifying framework for industrial verification (2002)

The effectiveness of hardware verification techniques has increased markedly in the past decade. As hardware verification techniques become increasingly powerful the idea of transitioning verification technology to industry can be taken seriously. Nevertheless, powerful decision procedures that can completely automate the verification of certain types of hardware, whether they are BDD based model-checkers or automatic microprocessor verification tools, cannot be adequate on their own for industrial hardware verification. However, a high-level, general-purpose theorem prover with specific capabilities can provide an overall framework in which these tools can be embedded and in which they can then be effectively used for industrial hardware verification.
Confirmation of a Positive Association between Prostate Cancer Risk and a Locus at Chromosome 8q24 (2007)

These data suggest that the locus on chromosome 8q24 harbors a genetic variant associated with prostate cancer and that the microsatellite marker is a stronger risk factor for aggressive prostate cancers defined by poorly differentiated tumor morphology.
Molecular Cloning and Characterization of 9 cDNAs for Genes That Are Responsive to Desiccation in Arabidopsis thaliana: SequenceAnalysis of One cDNA Clone That Encodes a Putative Transmembrane Channel Protein (1992)

Journal Article Molecular Cloning and Characterization of 9 cDNAs for Genes That Are Responsive to Desiccation in Arabidopsis thaliana: SequenceAnalysis of One cDNA Clone That Encodes a Putative Transmembrane Channel Protein Get access Kazuko Yamaguchi-Shinozaki, Kazuko Yamaguchi-Shinozaki 1Plant Molecular Biology Laboratory, Institute of Physical and Chemical Research (RIKEN)3-1-1 Koyadai, Tsukuba, Ibaraki, 305 Japan Search for other works by this author on: Oxford Academic Google Scholar Masahiro Koizumi, Masahiro Koizumi 1Plant Molecular Biology Laboratory, Institute of Physical and Chemical Research (RIKEN)3-1-1 Koyadai, Tsukuba, Ibaraki, 305 Japan2Department of Botany, Faculty of Science, Kyoto UniversityKitashirakawa, Sakyo-ku, Kyoto, 606 Japan Search for other works by this author on: Oxford Academic Google Scholar Satomi Urao, Satomi Urao 1Plant Molecular Biology Laboratory, Institute of Physical and Chemical Research (RIKEN)3-1-1 Koyadai, Tsukuba, Ibaraki, 305 Japan Search for other works by this author on: Oxford Academic Google Scholar Kazuo Shinozaki Kazuo Shinozaki 3 3To whom correspondence should be addressed. Search for other works by this author on: Oxford Academic Google Scholar Plant and Cell Physiology, Volume 33, Issue 3, April 1992, Pages 217–224, https://doi.org/10.1093/oxfordjournals.pcp.a078243 Published: 01 April 1992 Article history Received: 31 October 1991 Accepted: 13 January 1992 Published: 01 April 1992
Drosophila fasciclin I is a novel homophilic adhesion molecule that along with fasciclin III can mediate cell sorting. (1990)

Fasciclin I is a membrane-associated glycoprotein that is regionally expressed on a subset of fasciculating axons during neuronal development in insects; it is expressed on apposing cell surfaces, suggesting a role in specific cell adhesion. In this paper we show that Drosophila fasciclin I is a novel homophilic cell adhesion molecule. When the nonadhesive Drosophila S2 cells are transfected with the fasciclin I cDNA, they form aggregates that are blocked by antisera against fasciclin I. When cells expressing fasciclin I are mixed with cells expressing fasciclin III, another Drosophila homophilic adhesion molecule, the mixture sorts into aggregates homogeneous for either fasciclin I- or fasciclin III-expressing cells. The ability of these two novel adhesion molecules to mediate cell sorting in vitro suggests that they might play a similar role during neuronal development.
Magnetic Torsion Spring Mechanism for a Wireless Biopsy Capsule (2013)

The authors present a novel magnetomechanical elastic element that can be loaded remotely by varying the magnetic field surrounding it and that is able to store and release mechanical energy upon external triggering. The magnetic torsion spring (MTS) is used as the core component of a self-contained miniature biopsy capsule (9 mm in diameter and 24 mm long) for random tissue sampling in the small bowel. Thanks to the MTS concept, the biopsy mechanism can be loaded wirelessly by a magnetic field applied from outside the body of the patient. At the same time, magnetic coupling guarantees stabilization against the small bowel tissue during sampling. Extreme miniaturization is possible with the proposed approach since no electronics and no power supply are required onboard.
Analysis of lipopolysaccharide antigens ofTreponema hyodysenteriae (1989)

Lipopolysaccharide (LPS) extracts obtained from Treponema hyodysenteriae of serogroups A, B, D and E, and from T. innocens were examined by SDS-polyacrylamide gel electrophoresis (SDS-PAGE), silver-staining, and immunoblotting with hyperimmune rabbit sera. All organisms possessed multiple LPS bands, but their position and number differed. Immunoblotting of LPS with grouping sera identified three or four major antigenic LPS components in the 10-42 kDa range in all organisms: these components were largely specific to each type-organism of a serogroup, and presumably represented group antigens. Although some minor cross-reactivity occurred between LPS from organisms in the different groups, this was insufficient to merit changes to the current LPS serogrouping system for T. hyodysenteriae. Besides this LPS 'complex', other higher-molecular-weight material which appeared to be a common component of the treponemes examined was present in low concentrations. Organisms with different serotypes within a serogroup apparently possessed common LPS bands, but also had unique LPS bands which may account for their serotype specificity. One 'untypable' organism lacked group-specific LPS and was thought to be a mutant of a group B organism. The loss of serogroup LPS by the isolate suggested that this material is an external component of the cell wall. The availability of an atypical organism lacking LPS components may facilitate further studies on the pathogenesis of swine dysentery.
Novel biomarker combination improves the diagnosis of serious bacterial infections in Malawian children (2012)

We have demonstrated a unique combination of diagnostic biomarkers of SBI using transcriptomics, and demonstrated translational concordance with the corresponding protein. The addition of NGAL and resistin protein measurement to procalcitonin significantly improved the diagnosis of SBI.
LncRNA H19 regulates the expression of its target gene HOXA10 in endometrial carcinoma through competing with miR-612. (2018)

The high expression of lncRNA H19 in endometrial carcinoma may regulate the expression level of its target gene HOXA10 by targeting miR-612, thus promoting cell proliferation to play a role in the development of endometrial carcinoma.
Quantitative analysis of gastrin mRNA and peptide in normal and cancerous human pancreas. (1998)

Gastrin has been shown to stimulate growth of human pancreatic cancer, and does so in an autocrine fashion. In this study, a relationship between gastrin mRNA, peptide, and gastrin receptors were studied in a variety of human pancreatic tissues. Low levels of gastrin mRNA were detected in normal human pancreas by quantitative reverse transcription polymerase chain reaction, but gastrin peptide was not present using radioimmunoassay. Pancreatic adenocarcinoma cells and tissues had 34- to 530-fold higher gastrin mRNA and peptide levels than normal pancreas. Gastrin mRNA and peptide levels were 8,000- and 15,000-fold, respectively, greater in a pancreatic islet cell gastrinoma tumor than in normal pancreas. In comparison to age-matched controls, fasting gastrin plasma levels were 2-fold higher in patients with pancreatic adenocarcinoma and 131-fold greater in subjects with gastrinomas. Receptor binding assays revealed that pancreatic cancer cells had a binding capacity 200-fold greater than gastrinoma tumors, and 10-fold greater than normal pancreas; no differences in K(d) values were recorded between specimens. In contrast to the normal pancreas and gastrinoma tumor, the aggressive behavior of pancreatic adenocarcinoma may be attributed to the autocrine production of gastrin and to the presence of its growth-related receptor.
A novel modification of poly(L-lysine) leading to a soluble cationic polymer with reduced toxicity and with potential as a transfection agent (1998)

Chemical modification of poly(L-lysine) by hydrogen transfer addition of N,N-dimethylacrylamide to the primary amino groups results in new water soluble derivatives with reduced cell toxicity which maintain basic properties. Kinetic studies on the addition reaction were performed using model compounds, and a reliable kinetic model was obtained which proved to be valuable also in the case of poly(L-lysine). A peculiar feature of the addition reaction of poly(L-lysine) on N,N-dimethylacrylamide is that, starting from partially protonated poly(L-lysine), the reaction stops after that all the unprotonated units originally present have reacted. Toxicological studies on modified poly(L-lysine) in comparsion with parent poly(L-lysine) showed that the modifying reaction leads to a reduction in toxicity.