gebhart/patrepeval huggingface dataset:
Spatiotemporal analysis of the late ERP responses to deviant stimuli (2001)

We used a novel application of principal components analysis (spatiotemporal PCA) to decompose the event-related brain potentials (ERPs) obtained with a dense electrode array, with the purpose of elucidating the late ERP components elicited by deviant stimuli under "attend" and "ignore" conditions. First, a "spatial" PCA was performed to identify a set of scalp distributions (spatial factors or "virtual electrodes") that accounted for the spatial variance in the data set. The data were expressed as spatial factor scores or "virtual ERPs" measured at each of the virtual electrodes. These virtual ERPs were submitted to a "temporal" PCA, yielding a set of temporal factors or "virtual epochs." Statistical analyses of the temporal factor scores found that (1) attended deviant stimuli elicited the P300 and Novelty P3 components, the latter being largest for highly salient nontargets: (2) "ignored" deviants elicited a small Novelty P3, and depending on the primary task, a small P300: and (3) the classical Slow Wave consisted of separate frontal-negative and posterior-positive components.
A Solid-Phase Synthetic Route to Unnatural Amino Acids with Diverse Side-Chain Substitutions (2002)

Reacting imine derivatives of resin-bound amino acids with alpha,omega-dihaloalkanes provides highly versatile intermediates to racemic alpha,alpha-disubstituted amino acids with a wide variety of side-chain functionality. Two strategies were developed to convert the intermediate omega-chloro or omega-bromo derivatives to the desired products. Together, they allow the creation of amino acids with diverse functionalities (omega-chlorides, nitriles, azides, acetates, thioacetates, thioethers, secondary and tertiary aliphatic amines, and anilines) placed at varying chain lengths (2-5) from the alpha-center of the amino acid.
RAGE and Modulation of Ischemic Injury in the Diabetic Myocardium (2008)

These findings demonstrate novel and key roles for RAGE in I/R injury in the diabetic heart.
T and B cell responses to myelin-oligodendrocyte glycoprotein in multiple sclerosis (1991)

The pathogenesis of multiple sclerosis (MS) is believed to involve an autoimmune component directed against the myelin sheath. One potential target Ag for such autoimmune attack is the myelin-oligodendrocyte glycoprotein (MOG) because an anti-MOG mAb has profound influence on the course of experimental autoimmune encephalomyelitis, which to some extent represents an experimental model of MS. Using single cell assays, we have evaluated T and B cell reactivities to MOG in MS patients and controls. T cell reactivity was estimated by counting the number of cells that secreted IFN-gamma in response to MOG, whereas B cell reactivity was estimated by enumerating cells secreting antibodies that bound to MOG. MOG reactive T cells were detected in the peripheral blood of the majority of the 16 MS patients examined (mean 1/7299 mononuclear cells), but infrequently and at lower numbers in samples from neurologic controls. MOG-reactive T cells were more frequent among MS patients' cerebrospinal fluid (CSF) mononuclear cells (mean 1/450 cells). The T cell response to MOG was evidently MHC class II restricted, because Fab fragments of a rabbit polyclonal anti HLA-DR antibodies abrogated the Ag-induced increase in number of cells that secreted IFN-gamma, as analyzed on CSF and PBMC from three patients with MS. Anti-MOG IgG antibody-secreting cells were detected in blood in 8 of 16 MS patients (mean 1/25,641 cells), but they were also strongly accumulated in CSF, being detected in 8 of 10 MS patients examined (mean 1/265 cells), while rarely found in controls. The findings imply that MOG may represent a pathogenetically important target Ag in MS.
A System for Site-Specific Genetic Manipulation of the Relapsing Fever SpirocheteBorrelia hermsii (2008)

The lack of a system for genetic manipulation has hindered studies on the molecular pathogenesis of relapsing fever Borrelia. The focus of this chapter is to describe selectable markers, manipulation strategies, and methods to electro-transform and clone wild-type infectious Borrelia hermsii. Preliminary studies suggest that the variable tick protein (Vtp) of B. hermsii is involved in tick-to-mammal transmission. To address this hypothesis, we have developed a system for genetic manipulation and have constructed clones of a Vtp mutant and an isogenic reconstituted strain. The methods described here are applicable for the inactivation of other loci in B. hermsii and should be adaptable for other species of relapsing fever spirochetes.
Soluble gp350/220 and deletion mutant glycoproteins block Epstein-Barr virus adsorption to lymphocytes (1988)

The Epstein-Barr virus (EBV) major outer envelope glycoprotein complex, gp350/220, was known to be a ligand for CR2, a B-lymphocyte plasma membrane protein. By Scatchard analysis, soluble EBV gp350/220 binds with high affinity (KD, 1.2 x 10(-8) M) to approximately the same number of B-lymphocyte surface sites as do CR2-specific monoclonal antibodies. Soluble gp350, gp220, or an amino-terminal, 576-amino-acid gp220 derivative binds similarly to B-lymphocyte receptors. Soluble gp350/220, gp220, or even a 470-amino-acid, amino-terminal gp220 derivative blocks EBV adsorption or infection. These experiments demonstrate that (i) gp350/220 is the predominant or exclusive EBV ligand for B lymphocytes; (ii) ligand-receptor blockade can prevent lymphocyte infection by EBV; and (iii) the amino-terminal, 470-amino-acid domain of gp350/220 contains the key ligand domain(s). Consistent with the ligand domain(s) being in the amino-terminal half of gp220 are the findings that the gp350/220-specific, EBV-neutralizing monoclonal antibody 72A1 blocks EBV adsorption by recognizing an epitope in the amino-terminal 470 (probably within the amino-terminal 162) amino acids and a deletion of amino-terminal amino acids 28 and 29 from gp350/220 inactivates ligand activity.
Improving Enrichment of Circulating Fetal DNA for Genetic Testing: Size Fractionation Followed by Whole Gene Amplification (2009)

Combination of electrophoresis for size separation and WGA led to enriched fetal DNA from plasma. This novel combination of strategies is more likely to permit universal clinical applications of cell-free fetal DNA.
The cyclic GMP‐AMP synthetase–STING signaling pathway is required for both the innate immune response against HBV and the suppression of HBV assembly (2015)

During viral replication, the innate immune response is induced through the recognition of viral replication intermediates by host factor(s). One of these host factors, cyclic GMP-AMP synthetase (cGAS), was recently reported to be involved in the recognition of viral DNA derived from DNA viruses. However, it is uncertain whether cGAS is involved in the recognition of hepatitis B virus (HBV), which is a hepatotropic DNA virus. In the present study, we demonstrated that HBV genome-derived double-stranded DNA induced the innate immune response through cGAS and its adaptor protein, stimulator of interferon genes (STING), in human hepatoma Li23 cells expressing high levels of cGAS. In addition, we demonstrated that HBV infection induced ISG56 through the cGAS-STING signaling pathway. This signaling pathway also showed an antiviral response towards HBV through the suppression of viral assembly. From these results, we conclude that the cGAS-STING signaling pathway is required for not only the innate immune response against HBV but also the suppression of HBV assembly. The cGAS-STING signaling pathway may thus be a novel target for anti-HBV strategies.
THE CHEMICAL COMPOSITION OF ADIPOSE TISSUE OF MAN AND MICE (1962)

The chemical composition of human and mouse adipose tissue taken from fat and thin individuals has been determined. The tissues were obtained from the epididymal fat pads of fat, lean and normal strains of mice and from sixty‐one human subjects undergoing various abdominal operations. In both the mice and the humans, the adipose tissue from obese individuals contained slightly more fat and less protein and water than that from lean individuals. However, the differences were small and it is concluded that obese individuals contain, in their total adipose tissue, much more non‐fatty cellular material than do the lean.
Analysis of segregation distortion and association of the bovine FGF2 with fertilization rate and early embryonic survival (2009)

Fibroblast growth factor 2 (FGF2) plays an important role in fertility and early embryo development. The objectives of this study were to test the association of FGF2 polymorphisms with fertilization success in cattle using an in vitro fertilization experimental system and to investigate the mechanisms leading to the presence of rare alleles of FGF2 in the Holstein population. A total of 7502 fertilizations were performed and a total of 5049 embryos were produced to collect fertilization and embryo survival records. A total of 444 ovaries, from which oocytes were aspirated and fertilized, were genotyped for two single nucleotide polymorphisms (SNPs) previously identified in FGF2 (g.23G>T and g.11646A>G). Frequency of the TT genotype of the g.23G>T SNP was low in the ovary population (5.4%) and in a different Holstein cattle population (6.6%) examined in this study. Single SNP analysis showed that both SNPs were associated with early embryonic survival rate. Two-way interaction analysis revealed significant association of epistatic interaction between the SNPs with fertilization rate. To test whether or not low frequency of allele T for the g.23G>T SNP in the population is a result of a fertilization failure of T oocytes, semen from six GG bulls was used to fertilize a total of 458 oocytes obtained from 19 GT ovaries. A significant segregation distortion was observed for 169 embryos genotyped for the g.23G>T SNP. We conclude that oocytes carrying the T allele show a reduced fertilization rate and that segregation distortion leads to rarity of the TT genotype in the population.
Elevated interleukin-10 levels correlated with disease activity in systemic lupus erythematosus. (1998)

Serum levels of IL-10 are elevated in SLE patients and increased IL-10 correlates well with SLE disease activity.
Release from G1 growth arrest by transforming growth factor beta 1 requires cellular ras activity. (1993)

Transforming growth factor beta 1 (TGF beta 1) is a potent inhibitor of epithelial cell growth, although the mechanism of growth inhibition remains unknown. We report here a critical relationship between cellular p21ras activity and TGF beta 1 action. Microinjection of oncogenic Ha-ras protein into TGF beta 1-arrested mink lung epithelial cells overcomes TGF beta 1 growth inhibition and allows progression into S phase. Cells released from TGF beta 1 inhibition following microinjection with anti-p21ras antibody, on the other hand, remain TGF beta 1-arrested and do not enter S phase, indicating a requirement for p21ras activity. These biological data are substantiated biochemically in that TGF beta 1 is shown to decrease the activation state of endogenous p21ras, as measured by the level of GTP-bound p21ras. In addition, the phosphorylation and kinase activity of mitogen-activated protein kinase, which depends upon cellular ras activity, is elevated in cells which have been released from growth arrest by TGF beta 1. Together these data demonstrate the involvement of p21ras activity in TGF beta 1-induced growth inhibition and suggest that the inhibitor controls proliferation by modulating the activity of p21ras.
A Simple and Sensitive “Dipstick” Test in Serum Based on Lateral Flow Separation of Aptamer‐Linked Nanostructures (2006)

A quick plunge: By using lateral flow devices as a platform to separate aptamer-assembled nanoparticle (NP) aggregates, highly sensitive and selective colorimetric sensors were constructed that mimic litmus paper tests. Detection of cocaine in serum was also realized.
Mass spectrometric identification of ligands selected from combinatorial libraries using gel filtration (1997)

There is a constant search for a successful analytical methodology to provide high throughput screening of combinatorial libraries against biological targets for identification of active ligands. Solid-phase screening assays offer faster isolation and identification of active analytes compared to the solution-based iterative methods. On the other hand, shift of combinatorial research to the creation of soluble non-peptide libraries, and limitations associated with the heterogeneous assays, creates a demand for a breakthrough technology for rapid and efficient screening of combinatorial libraries in solution. We demonstrated the efficient and rapid approach for selecting active ligands from a combinatorial mixture with subsequent identification of compounds by mass spectrometry. The procedure involves the use of a biological target molecule to physically isolate the active component in a mixture on a size exclusion medium. Then the ligands are identified using a combined liquid chromatography/capillary electrophoresis/mass spectrometry system. As a model system we used serum albumin and small molecules with different affinities to the protein. © 1997 John Wiley & Sons, Ltd.
Unexplained lymphadenopathy in homosexual men. A longitudinal study (1985)

In January 1982, the Centers for Disease Control began a prospective study of unexplained generalized lymphadenopathy syndrome in 78 homosexual or bisexual men. As of Aug 1, 1984, the median durations of lymphadenopathy and enrollment were 29.5 months and 20 months, respectively. Antibodies to human T-cell lymphotropic virus type III/ lymphadenopathy-associated virus were present in 75 (96%) of the study patients. Five (6%) of the patients were diagnosed as having the acquired immunodeficiency syndrome five to 25 months after the onset of lymphadenopathy. At the time of their initial visit, these five patients had lower T-helper cell counts, hematocrits, lymphocyte counts, and pokeweed mitogen stimulation ratios and were more likely to report severe symptoms than patients who did not develop the acquired immunodeficiency syndrome. During 318 follow-up visits, except for the development of the acquired immunodeficiency syndrome in five patients, there has been little change in the initial laboratory and clinical measures of this cohort. Within the follow-up period of this study, the features of lymphadenopathy syndrome have been unremitting for the majority of patients. (<i>JAMA</i>1985;254:930-935)
Electrothermal Atomic Absorption Spectrometric Diagnosis of Familial Hypercholesterolemia (2000)

We have developed a new nonradioactive assay to identify human low-density lipoprotein receptor defects. It is based on the incubation of cultured cells with colloidal gold-LDL conjugates and quantitation of the gold associated with the cells by electrothermal atomic absorption spectrometry. After an oxidative treatment with nitric and hydrochloric acids, the biological matrix interferes neither with the gold recovery nor with the gold measurements, which are linear, at least from 0.15 to 3 ng of gold. When cells expressing a functional LDL receptor are incubated with increasing amounts of colloidal-gold LDL conjugates, the obtained saturation curve parallels that described when [125I]LDL is used as ligand. Moreover, this new assay allows us to clearly distinguish among fibroblasts from normal subjects or from heterozygous or homozygous patients of familial hypercholesterolemia, a very common autosomal disease. The assay is easy to perform, is sensitive, and avoids the use of radioactive compounds. Therefore, it could be successfully employed in the clinical diagnosis of this disease. Furthermore, since the methodology developed here can be applied to quantify the association of other gold-conjugated ligands to cells, it could have a widespread use in a variety of clinical and basic research studies.
Stability of HAMLET—A kinetically trapped α‐lactalbumin oleic acid complex (2005)

The stability toward thermal and urea denaturation was measured for HAMLET (human alpha-lactalbumin made lethal to tumor cells) and alpha-lactalbumin, using circular dichroism and fluorescence spectroscopy as well as differential scanning calorimetry. Under all conditions examined, HAMLET appears to have the same or lower stability than alpha-lactalbumin. The largest difference is seen for thermal denaturation of the calcium free (apo) forms, where the temperature at the transition midpoint is 15 degrees C lower for apo HAMLET than for apo alpha-lactalbumin. The difference becomes progressively smaller as the calcium concentration increases. Denaturation of HAMLET was found to be irreversible. Samples of HAMLET that have been renatured after denaturation have lost the specific biological activity toward tumor cells. Three lines of evidence indicate that HAMLET is a kinetic trap: (1) It has lower stability than alpha-lactalbumin, although it is a complex of alpha-lactalbumin and oleic acid; (2) its denaturation is irreversible and HAMLET is lost after denaturation; (3) formation of HAMLET requires a specific conversion protocol.
Thermal Atomic Layer Deposition of Continuous and Highly Conducting Gold Thin Films (2017)

Five Au(III) compounds were synthesized and evaluated for atomic layer deposition of Au thin films. One of the compounds, Me2Au(S2CNEt2), showed optimal thermal characteristics while being volatile and thermally stable. In the growth experiments, this compound was applied with O3 at temperatures of 120–250 °C. Self-limiting growth was confirmed at 180 °C with a rate of 0.9 Å/cycle. The deposited Au thin films were uniform, polycrystalline, continuous, and conductive. Typical resistivity values of 40 nm thick films were 4–16 μΩ cm, which are low for chemically deposited thin films. The chemical composition of a Au thin film deposited at 180 °C was analyzed by time-of-flight elastic recoil detection analysis, proving the film was pure with small amounts of impurities. The detected impurities were O (2.9 atom %), H (0.9 atom %), C (0.2 atom %), and N (0.2 atom %).
The Relationships of Animal Age and Caloric Intake to Cellular Replication In Vivo and In Vitro: A Review (1999)

This brief review examines aging at the cellular level as expressed by cell replication rates in vivo, clone size limits in vitro, and cell function in several tissues and organs. Studies are presented in which in vivo and in vitro cell replication measurements were made for several cell types and organs in relation to animal age, diet, life span, and specific age-related pathologies. Among the events examined that affect cell replication and cell survival in vitro and in vivo over a lifetime are oxidative damage, telomere shortening, and hormone and hormone receptor level changes. Long-term caloric restriction (CR) is favorable or protective for all of these events when measured in later life and comparisons are made to ad libitum (AL)-fed animals, and it is accompanied by more youthful rates of cell replication. It is proposed that in vivo and in vitro measures of cellular replication constitute biomarkers of aging when applied to comparisons of CR and AL diet rodents, where they correlate with the delay of disease and extension of life span. Longitudinal studies are needed to confirm this. The occurrence of certain age-related pathophysiologic states, such as immune (T cell) insufficiency, cataract, and senile osteopenia/osteoporosis, are accompanied by major diminishments of replication rates, numbers, and functions of the essential cell types in the organs and tissues involved. However, direct evidence is lacking that diminished cell replication in specific organs contributes to the limitation of life span.
MAGMA-SMC: The Molecular Cloud Survey of the SMC (2012)

Abstract We present a brief summary and description of the upcoming 12 CO(1-0) Magellanic Mopra Assesment (MAGMA) SMC survey data release. The MAGMA-SMC survey has sampled 100% of the known CO in the SMC (at ∼33″ resolution; 12 pc at D = 60 kpc). Having explored 522 × 10 3 square parsecs throughout the SMC with 69 5′ × 5′ fields, to a sensitivity of ∼150 mK, we apply the cloudprops (Rosolowsky &amp; Leroy 2006) cloud-search algorithm optimized for low S/N data, to detect more than 30 CO clouds with virial masses between 10 3 –10 4 M ⊙ , mean radii ∼5 pc and 0.3–0.9 km s −1 velocity width. Typical brightness temperatures are ∼1 K T mb . All detected molecular regions are associated with at least one 24 μm compact emission source. Smoothing rarely increases the total detected CO flux, implying the CO emission is typically confined to small spatial scales. As recent dust maps of the SMC imply extended H 2 mass, the apparent compact nature of the CO population indicates some departures from the canonical Galactic X CO -factor in the low-metallicity and relatively un-evolved ISM of the SMC.
Complement C3b/C3d and Cell Surface Polyanions Are Recognized by Overlapping Binding Sites on the Most Carboxyl-Terminal Domain of Complement Factor H (2002)

Factor H (FH) is a potent suppressor of the alternative pathway of C in plasma and when bound to sialic acid- or glycosaminoglycan-rich surfaces. Of the three interaction sites on FH for C3b, one interacts with the C3d part of C3b. In this study, we generated recombinant constructs of FH and FH-related proteins (FHR) to define the sites required for binding to C3d. In FH, the C3d-binding site was localized by surface plasmon resonance analysis to the most C-terminal short consensus repeat domain (SCR) 20. To identify amino acids of FH involved in binding to C3d and heparin, we compared the sequences of FH and FHRs and constructed a homology-based molecular model of SCR19-20 of FH. Subsequently, we created an SCR15-20 mutant with substitutions in five amino acids that were predicted to be involved in the binding interactions. These mutations reduced binding of the SCR15-20 construct to both C3b/C3d and heparin. Binding of the wild-type SCR15-20, but not the residual binding of the mutated SCR15-20, to C3d was inhibited by heparin. This indicates that the heparin- and C3d-binding sites are overlapping. Our results suggest that a region in the most C-terminal domain of FH is involved in target recognition by binding to C3b and surface polyanions. Mutations in this region, as recently reported in patients with familial hemolytic uremic syndrome, may lead to indiscriminatory C attack against self cells.
Lin28b Reprograms Adult Bone Marrow Hematopoietic Progenitors to Mediate Fetal-Like Lymphopoiesis (2012)

The immune system develops in waves during ontogeny; it is initially populated by cells generated from fetal hematopoietic stem cells (HSCs) and later by cells derived from adult HSCs. Remarkably, the genetic programs that control these two distinct stem cell fates remain poorly understood. We report that Lin28b is specifically expressed in mouse and human fetal liver and thymus, but not in adult bone marrow or thymus. We demonstrate that ectopic expression of Lin28 reprograms hematopoietic stem/progenitor cells (HSPCs) from adult bone marrow, which endows them with the ability to mediate multilineage reconstitution that resembles fetal lymphopoiesis, including increased development of B-1a, marginal zone B, gamma/delta (γδ) T cells, and natural killer T (NKT) cells.