gebhart/patrepeval huggingface dataset:
Genetic mapping of the human homologue (T) of mouse T(Brachyury) and a search for allele association between human T and spina bifida (1996)

We describe a genetic analysis of the human homologue (T) of the mouse T (Brachyury) gene; human T was recently cloned in our laboratory. The protein product of the T gene is a transcription factor crucial in vertebrates for the formation of normal mesoderm. T mutant Brachyury mice die in midgestation with severe defects in posterior mesodermal tissues; heterozygous mice are viable but have posterior axial malformations. In addition to its importance in development, T has intrigued geneticists because of its association with the mouse t-haplotype; this haplotype is a variant form of the t-complex and is characterized by transmission ratio distortion, male sterility and recombination suppression. We have identified a common polymorphism of human T by single strand conformation polymorphism (SSCP) and used this in mapping studies and to re-investigate the idea that human T is involved in susceptibility to the multifactorial, neural tube defect, spina bifida. Our mapping data show that human T maps to 6q27 and lies between two other genes of the t-complex, TCP1 and TCP10. These data add to the evidence that in man the genes of the t-complex are split into two main locations on the short and long arms of chromosome 6. We have used an allele association test which is independent of mode of inheritance and penetrance to analyse data from the spina bifida families. Using this test we find evidence for a significant (p = 0.02) association between transmission of the TIVS7-2 allele of the human T gene and spina bifida.
Human amniotic membrane: a versatile wound dressing. (1978)

Human amniotic membrane proved to be a versatile and useful temporary biologic dressing in studies involving 120 patients. Wounds, both traumatic and nontraumatic in origin, responded to a protocol that allowed coverage of tissues as diverse as exposed bowel, pleura, pericardium, blood vessels, tendon, nerve and bone. Wounds unresponsive to usual therapeutic measures responded to membrane application. Ease of availability, negligible cost and facilitated wound healing make this temporary biologic dressing generally superior to either cadaver skin allograft or pigskin xenograft. Human amniotic membrane dressings are therefore a useful adjunct in the care of the complicated wound.
Basal Transcription Factors TBP and TFIIB and the Viral Coactivator E1A 13S Bind with Distinct Affinities and Kinetics to the Transactivation Domain of NF- B p65 (1997)

Transactivation domains (TADs) are able to contact several components of the basal transcription apparatus and co-activator molecules. In order to study these interactions in biophysical detail, binding of the well-characterized TAD from the human transcription factor NF-kappaB p65 (RelA) to the basal transcription factors TBP and TFIIB and the viral co-activator protein E1A 13S was chosen as a model system to investigate the kinetics and affinities of such protein-protein interactions by surface plasmon resonance analysis. The TAD of NF-kappaB p65 showed remarkably different affinities and kinetics in binding to the various proteins. The real-time kinetic measurements revealed an association rate constant (kass) of 2.3 x 10(6)/M/s for the interaction between the p65 TAD and TBP. The association rate constants of the p65 TAD were much weaker for TFIIB (6.8 x 10(4)/M/s) and for the E1A 13S protein (4.9 x 10(4)/M/s). The dissociation rate constants (kdiss) were determined to be 7.9 x 10(-4)/s for TBP, 1.6 x 10(-3)/s for TFIIB and 1.3 x 10(-3)/s for the E1A protein. Accordingly, the calculated dissociation constants (Kd) differed between 3.4 x 10(-10)M for the strongly binding TBP protein and 2.3 x 10(-8)M and 2.6 x 10(-8)M for the weaker binding TFIIB and E1A 13S proteins respectively. Non-linear analysis of the appropriate part of the sensorgrams revealed monophasic association and dissociation kinetics for binding between the p65 TAD and all three interaction partners. The remarkable differences in protein affinities add another aspect to a more detailed understanding of formation of the transcription preinitiation complex. The co-transfection of TBP and E1A 13S stimulated NF-kappaB p65-dependent gene expression, showing the biological significance of these interactions.
Region Filling and Object Removal by Exemplar-Based Image Inpainting (2004)

A new algorithm is proposed for removing large objects from digital images. The challenge is to fill in the hole that is left behind in a visually plausible way. In the past, this problem has been addressed by two classes of algorithms: 1) "texture synthesis" algorithms for generating large image regions from sample textures and 2) "inpainting" techniques for filling in small image gaps. The former has been demonstrated for "textures"--repeating two-dimensional patterns with some stochasticity; the latter focus on linear "structures" which can be thought of as one-dimensional patterns, such as lines and object contours. This paper presents a novel and efficient algorithm that combines the advantages of these two approaches. We first note that exemplar-based texture synthesis contains the essential process required to replicate both texture and structure; the success of structure propagation, however, is highly dependent on the order in which the filling proceeds. We propose a best-first algorithm in which the confidence in the synthesized pixel values is propagated in a manner similar to the propagation of information in inpainting. The actual color values are computed using exemplar-based synthesis. In this paper, the simultaneous propagation of texture and structure information is achieved by a single, efficient algorithm. Computational efficiency is achieved by a block-based sampling process. A number of examples on real and synthetic images demonstrate the effectiveness of our algorithm in removing large occluding objects, as well as thin scratches. Robustness with respect to the shape of the manually selected target region is also demonstrated. Our results compare favorably to those obtained by existing techniques.
Identification and Mutational Analysis of the Immunodominant IgE Binding Epitopes of the Major Peanut AllergenAra h 2 (1997)

A major peanut allergen, Ara h 2, is recognized by serum IgE from > 90% of patients with peanut hypersensitivity. Biochemical characterization of this allergen indicates that it is a glycoprotein of approximately 17.5 kDa. Using N-terminal amino acid sequence data from purified Ara h 2, oligonucleotide primers were synthesized and used to identify a clone (741 bp) from a peanut cDNA library. This clone was capable of encoding a 17.5-kDa protein with homology to the conglutin family of seed storage proteins. The major linear immunoglobulin E (IgE)-binding epitopes of this allergen were mapped using overlapping peptides synthesized on an activated cellulose membrane and pooled serum IgE from 15 peanut-sensitive patients. Ten IgE-binding epitopes were identified, distributed throughout the length of the Ara h 2 protein. Sixty-three percent of the amino acids represented in the epitopes were either polar uncharged or apolar residues. In an effort to determine which, if any, of the 10 epitopes were recognized by the majority of patients with peanut hypersensitivity, each set of 10 peptides was probed individually with serum IgE from 10 different patients. All of the patient sera tested recognized multiple epitopes. Three epitopes (aa27-36, aa57-66, and aa65-74) were recognized by all patients tested. In addition, these three peptides bound more IgE than all the other epitopes combined, indicating that they are the immunodominant epitopes of the Ara h 2 protein. Mutational analysis of the Ara h 2 epitopes indicate that single amino acid changes result in loss of IgE binding. Two epitopes in region aa57-74 contained the amino acid sequence DPYSP that appears to be necessary for IgE binding. These results may allow for the design of improved diagnostic and therapeutic approaches to peanut hypersensitivity.
The suppressive influences of human tumor necrosis factors on bone marrow hematopoietic progenitor cells from normal donors and patients with leukemia: synergism of tumor necrosis factor and interferon-gamma. (1986)

The influences of human tumor necrosis factor (TNF) (LuKII), recombinant human TNF-alpha, natural human interferon-gamma (HuIFN-gamma), recombinant HuIFN-gamma, and natural HuIFN-alpha were evaluated alone or in combination for their effects in vitro on colony formation by human bone marrow granulocyte-macrophage (CFU-GM), erythroid (BFU-E), and multipotential (CFU-GEMM) progenitor cells incubated at 5% CO2 in lowered (5%) O2 tension. TNF (LuKII) and recombinant TNF-alpha caused a similar dose-dependent inhibition of colony formation from CFU-GM, BFU-E, and CFU-GEMM. Day 7 CFU-GM colonies were more sensitive than both day 14 CFU-GM colonies and day 7 CFU-GM clusters to inhibition by TNF. BFU-E colonies and CFU-GEMM colonies were least sensitive to inhibition with TNF. The suppressive effects of TNF (LuKII) and recombinant TNF-alpha were inactivated respectively with hetero-anti-human TNF (LuKII) and monoclonal anti-recombinant human TNF-alpha. The hetero-anti-TNF (LuKII) did not inactivate the suppressive effects of TNF-alpha and the monoclonal anti-recombinant TNF-alpha did not inactivate TNF (LuKII). The suppressive effects of TNF did not appear to be mediated via endogenous T lymphocytes and/or monocytes in the bone marrow preparation, and a pulse exposure of marrow cells with TNF for 60 min resulted in maximal or near maximal inhibition when compared with cells left with TNF for the full culture incubation period. A degree of species specificity was noted in that human TNF were more active against human marrow CFU-GM colonies than against mouse marrow CFU-GM colonies. Samples of bone marrow from patients with non-remission myeloid leukemia were set up in the CFU-GM assay and formed the characteristic abnormal growth pattern of large numbers of small sized clusters. These cluster-forming cells were more sensitive to inhibition by TNF than were the CFU-GM colonies and clusters grown from the bone marrow of normal donors. The sensitivity to TNF of colony formation by CFU-GM of patients with acute myelogenous leukemia in partial or complete remission was comparable with that of normal donors. When combinations of TNF and HuIFN were evaluated together, it was noted that TNF (LuKII) or recombinant TNF synergized with natural or recombinant HuIFN-gamma, but not with HuIFN-alpha, to suppress colony formation of CFU-GM, BFU-E, and CFU-GEMM from bone marrow of normal donors at concentrations that had no suppressive effects when molecules were used alone.(ABSTRACT TRUNCATED AT 400 WORDS)
Diversification and Relationships of Extant Homosporous Lycopods (2001)

A series of phylogenetic analyses using nucleotide sequence data have resolved many aspects of the relationships in a group of land plants that until recently had received comparatively little attention, the homosporous lycopsids (Lycopodiaceae). The family includes no more than 400–500 living species but the group has evolved as an isolated lineage since the Early Devonian (390 Mya). Despite this ancient history, patterns emerging through the phylogenetic analyses imply that most diversification in this group is comparatively recent. The Lower Jurassic stem section Lycoxylon indicum indicates a minimum age for the split between Lycopodium and Lycopodiella at 208 Mya, and reticulate fossil spores from the Early Jurassic indicate that early cladogenesis in Lycopodium is of equivalent age. In the diverse predominantly epiphytic Huperzia group, biogeographic data indicates that 85–90 % of all living species result from cladogenic events postdating the final rifting of S. America and Africa in Mid to Late Cretaceous. The timing of these events coincides with the radiation of Angiosperms, and the diversification of epiphytic Huperzia was likely mediated by the development of broad leaved Angiosperm rain forests. Results indicate a single origin of epiphytism in Huperzia, but there have been at least two reversals to the terrestrial habit in the neotropics. The diversification of a large secondarily terrestrial clade, including about 80 montane high altitude species, was likely triggered by the Andean orogeny in the Mid Miocene, no more than 15 Mya.
Gaucher's Disease: A Review (1996)

Enzyme replacement therapy is available for the treatment of type 1 Gaucher's disease, resulting in clinical improvement with enhanced quality of life within the first year of treatment, although improvement in bone disease can take longer. Doses of 60 units/kg every 2 weeks are of clinical benefit to patients with moderate to severe disease. A number of lower dosage regimens have been evaluated in small groups of patients, with satisfactory clinical responses occurring in some of these patients.
In Vivo Self-Interaction of Nodavirus RNA Replicase Protein A Revealed by Fluorescence Resonance Energy Transfer (2005)

Flock house virus (FHV) is the best-characterized member of the Nodaviridae, a family of small, positive-strand RNA viruses. Unlike most RNA viruses, FHV encodes only a single polypeptide, protein A, that is required for RNA replication. Protein A contains a C-proximal RNA-dependent RNA polymerase domain and localizes via an N-terminal transmembrane domain to the outer mitochondrial membrane, where FHV RNA replication takes place in association with invaginations referred to as spherules. We demonstrate here that protein A self-interacts in vivo by using flow cytometric analysis of fluorescence resonance energy transfer (FRET), spectrofluorometric analysis of bioluminescence resonance energy transfer, and coimmunoprecipitation. Several nonoverlapping protein A sequences were able to independently direct protein-protein interaction, including an N-terminal region previously shown to be sufficient for localization to the outer mitochondrial membrane (D. J. Miller and P. Ahlquist, J. Virol. 76:9856-9867, 2000). Mutations in protein A that diminished FRET also diminished FHV RNA replication, a finding consistent with an important role for protein A self-interaction in FHV RNA synthesis. Thus, the results imply that FHV protein A functions as a multimer rather than as a monomer at one or more steps in RNA replication.
Genetic variation in FKBP5 associated with the extent of stress hormone dysregulation in major depression (2013)

The FK506 binding protein 51 or FKBP5 has been implicated in the regulation of glucocorticoid receptor (GR) sensitivity, and genetic variants in this gene have been associated with mood and anxiety disorders. GR resistance and associated stress hormone dysregulation are among the most robust biological findings in major depression, the extent of which may be moderated by FKBP5 polymorphisms. FKBP5 mRNA expression in peripheral blood cells (baseline and following in vivo GR stimulation with 1.5 mg dexamethasone p.o.) was analyzed together with plasma cortisol, ACTH, dexamethasone levels and the FKBP5 polymorphism rs1360780 in 68 depressed patients and 87 healthy controls. We observed a significant (P = 0.02) interaction between disease status and FKBP5 risk allele carrier status (minor allele T) on GR-stimulated FKBP5 mRNA expression. Patients carrying the risk T allele, but not the CC genotype, showed a reduced induction of FKBP5 mRNA. This FKBP5 polymorphism by disease status interaction was paralleled by the extent of plasma cortisol and ACTH suppression following dexamethasone administration, with a reduced suppression only observed in depressed patients carrying the T allele. Only depressed patients carrying the FKBP5 rs1360780 risk allele showed significant GR resistance compared with healthy controls, as measured by dexamethasone-induced FKBP5 mRNA induction in peripheral blood cells and suppression of plasma cortisol and ACTH concentrations. This finding suggests that endocrine alterations in depressed patients are determined by genetic variants and may allow identification of specific subgroups.
Technology 1991: solid state (1991)

Developments during 1990 and future trends in solid-state devices are discussed. 1990 saw the commercial introduction of microprocessor chips containing more than 1 million transistors, and 1991 will probably see microprocessor chips with well over 2 million transistors. Processor speeds are keeping pace; 50-60 MHz chips can be expected in the next generation. Digital signal processor chips are adding enormous functionality to desktop computers and workstations, and a low-cost multimedia chip, which can provide video images and high-quality graphics on the screen and, simultaneously, high-quality sound, has been announced. Memory chips are getting bigger and faster, and flash memories are growing in popularity. Gate arrays, programmable-logic devices (PLDs) and so forth are growing steadily in their numbers of cells. Lithographic techniques made major advances, 1990 was also marked by a number of alliances, some of which ended unhappily.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Semantic Image Segmentation and Object Labeling (2007)

In this paper, we present a framework for simultaneous image segmentation and object labeling leading to automatic image annotation. Focusing on semantic analysis of images, it contributes to knowledge-assisted multimedia analysis and bridging the gap between semantics and low level visual features. The proposed framework operates at semantic level using possible semantic labels, formally represented as fuzzy sets, to make decisions on handling image regions instead of visual features used traditionally. In order to stress its independence of a specific image segmentation approach we have modified two well known region growing algorithms, i.e., watershed and recursive shortest spanning tree, and compared them to their traditional counterparts. Additionally, a visual context representation and analysis approach is presented, blending global knowledge in interpreting each object locally. Contextual information is based on a novel semantic processing methodology, employing fuzzy algebra and ontological taxonomic knowledge representation. In this process, utilization of contextual knowledge re-adjusts labeling results of semantic region growing, by means of fine-tuning membership degrees of detected concepts. The performance of the overall methodology is evaluated on a real-life still image dataset from two popular domains
In Vitro Activities of Daptomycin, Vancomycin, Linezolid, and Quinupristin-Dalfopristin against Staphylococci and Enterococci, Including Vancomycin- Intermediate and -Resistant Strains (2000)

The in vitro activity of daptomycin was compared with those of vancomycin, linezolid, and quinupristin-dalfopristin against a variety (n = 203) of gram-positive bacteria, including methicillin-resistant Staphylococcus aureus and S. epidermidis (MRSA and MRSE, respectively), vancomycin-resistant enterococci (VRE), and vancomycin-intermediate S. aureus (VISA). Overall, daptomycin was more active against all organisms tested, except Enterococcus faecium and VISA, against which its activity was similar to that of quinupristin-dalfopristin. In time-kill studies with MRSA, MRSE, VRE, and VISA, daptomycin demonstrated greater bactericidal activity than all other drugs tested, killing > or =3 log CFU/ml by 8 h. Daptomycin may be a potential alternative drug therapy for multidrug-resistant gram-positive organisms and warrants further investigation.
The Intimate Life of L.M. Montgomery/Littoral Documents/To a Watery Grave / la Mer, Lieu De Repos Eternel (2006)

Irene Gammel (ed.), The Intimate Life of L.M. Montgomery (Toronto: University of Toronto Press, 2005), 320 pp. Cloth. $70. £45. ISBN 0-8020-8924-0. Paper. $31.95/£18. ISBN 0-8020-8676-4. Shauna McCabe, Littoral Documents (Charlottetown: Confederation Centre of the Arts, 2004), 56 pp. Paper. $7.95. ISBN 0-9200-8955-0. Andrew T. Hunter, To a Watery Grave / La Mer, Lieu de Repos Eternel (Charlottetown: Confederation Centre of the Arts, 2004), 80 pp. Cloth. £6.98. ISBN 0-9200-8957-7. These three books share their place of genesis: Prince Edward Island. I have chosen to review them together because each book is a wonderful reminder that the small province is teeming with talent and is far from being stuck in the hackneyed role in which the rest of the world often seems to cast it, that of Spud Island: home of 'Anne', 'Emily', cheap touristy entertainment and the potato. Irene Gammel's collection of essays on the Island's most famous daughter includes chapters by Elizabeth Epperly, Gammel and notably Mary Rubio and Elizabeth Waterston, known to Montgomery fans for their exceptional editing work on Montgomery's journals. Each chapter concentrates on different aspects of Montgomery's personal life: her letter writing, her journal entries, photograph albums and the recollections of friends and family. Outstanding among the excellent contributions are Jennifer Litster's chapter 'The Secret Diary of Maud Montgomery, aged 28¼', in which she examines the lively joint-authored journal that Montgomery and her friend Nora Lefurgey kept for entertainment, and Mary McDonald-Rissannen's chapter 'Veils and Gaps: The Private Worlds of Amy Andrew and L.M. Montgomery, 1910-1914'. In this chapter McDonald- Rissannen examines the spare and practical yet endearing journalistic writings of her own grandmother, herself a PEI native, with reference to Montgomery's work. This is an enjoyable book that has the unusual ability to appeal to nonacademics and academics alike. I would recommend it to students of life writing and journal writing, and to students of Montgomery; I would also recommend it to those who are familiar with Montgomery's work and would simply like to know more about her. Charlottetown's Confederation Centre for the Arts holds regular exhibitions and shows that frequently celebrate some aspect of PEI history or culture. To coincide with these exhibitions the Centre publishes catalogues with the help of funding from Canada Council for Arts and Canadian Heritage. Shauna McCabe's Littoral Documents is one such publication and it is a real treat. …
Androgen Substitution with Testosterone Containing Nasal Drops (1980)

Testosterone proprionate in form of eye drops will not be absorbed. A good absorption takes place following the administration of testosterone containing nasal drops in the form of an emulsion of pure testosterone. A quick, significant testosterone increase but of only short duration takes place. Unpleasant side effects were not observed. This treatment may be clinically applicable to male patients in the climacteric period.
Lack of augmenting effect of interferon‐γ on dengue virus multiplication in human peripheral blood monocytes (1995)

The effect of interferon-gamma (IFN-gamma) on dengue virus multiplication in human peripheral blood monocytes was investigated. Enriched monocytes were treated with IFN-gamma and then infected with dengue virus type 2 either directly or in the presence of optimal infection-enhancing levels of antibodies. Pretreatment of monocytes from dengue-immune donors with 100 IU/ml of IFN-gamma caused 12- to 97-fold and 13- to 137-fold reduction of virus yields at 24 hr after infection in the absence and presence of an anti-flavivirus monoclonal antibody, respectively. IFN-gamma also diminished virus yields when infection of monocytes from a donor who lacked anti-dengue antibody was enhanced 40-fold. The percentage of infected monocytes in IFN-gamma-pretreated cultures was similarly reduced. Dominance of the antiviral effect of IFN-gamma in monocytes is in contrast to an augmenting effect previously observed in the promonocytic cell line U937.