gebhart/patrepeval huggingface dataset:
The Histone Methyltransferase SETDB1 and the DNA Methyltransferase DNMT3A Interact Directly and Localize to Promoters Silenced in Cancer Cells (2006)

DNA CpG methylation can cooperate with histone H3 lysine 9 (H3-K9) methylation in heterochromatin formation and gene silencing. Trimethylation of H3-K9 by the recently identified euchromatic histone methyltransferase SETDB1/ESET may be responsible for transcriptional repression of certain promoters. Here, we show that SETDB1 associates with endogenous DNA methyltransferase activity. SETDB1 interacts with the de novo DNA methyltransferases DNMT3A and DNMT3B but not with the maintenance methyltransferase DNMT1. The interaction of SETDB1 with DNMT3A was further characterized and confirmed by in vivo and in vitro interaction studies. A direct interaction of the two proteins occurs through the N terminus of SETDB1 and the plant homeodomain of DNMT3A. Co-expression of SETDB1 and DNMT3A was essential for repression of reporter gene expression in a Gal4-based tethering assay and resulted in their recruitment to the artificial promoter. We further demonstrate that the CpG-methylated promoters of the endogenous p53BP2 gene in HeLa cells and the RASSF1A gene in MDA-MB-231 cells are simultaneously occupied by both SETDB1 and DNMT3A proteins, which provides evidence for SETDB1 being at least partly responsible for H3-K9 trimethylation at the promoter of RASSF1A, a gene frequently silenced in human cancers. In summary, our data demonstrate the direct physical interaction and functional connection between the H3-K9 trimethylase SETDB1 and the DNA methyltransferase DNMT3A and thus contribute to a better understanding of the complexity of the self-reinforcing heterochromatin machinery operating at silenced promoters.
Multiparametric Monitoring of Tumor Response to Chemotherapy by Noninvasive Imaging (2009)

With the emerging concept of individualized cancer therapy, it becomes crucial to develop methods for the noninvasive assessment of treatment outcome. With this in mind, we designed a novel approach for the comprehensive evaluation of response to chemotherapy with the established agent doxorubicin in a preclinical breast cancer model. This approach delivers information not only about change in tumor size but also about target antigen expression. Our strategy relies on a tumor-specific contrast agent (MN-EPPT) targeting the underglycosylated MUC-1 (uMUC-1) tumor antigen, found on more than 90% of breast cancers and predictive of chemotherapeutic response. MN-EPPT consists of superparamagnetic iron oxide nanoparticles (MN) for magnetic resonance imaging, modified with Cy5.5 dye (for near-IR fluorescence optical imaging), and conjugated to peptides (EPPT), specifically recognizing uMUC-1. In vivo, treatment of mice bearing orthotopic human breast carcinomas with doxorubicin led to a reduction in tumor mass and resulted in down-regulation of uMUC-1. The tumor-specific accumulation of MN-EPPT allowed the assessment of change in tumor volume by noninvasive imaging. Furthermore, in mice injected with MN-EPPT, tumor delta-T2 was significantly reduced after treatment with doxorubicin, indicating a lower accumulation of MN-EPPT and reflecting the reduced expression of uMUC-1. With these studies, we have shown the utility of magnetic resonance imaging for the multiparametric characterization of breast tumor response to chemotherapy. This approach has the potential of significantly advancing our ability to better direct the development of molecularly targeted individualized therapy protocols because it permits the monitoring of therapy on a molecular scale.
A server array approach for video-on-demand service on local area networks (2002)

Most video-on-demand (VOD) systems use a single, powerful server to deliver video streams to users. We consider a novel server array approach for delivering video services on networks. Such an approach has the benefits of (l) greater system capacity, as individual server has individual disk and network channel, (2) scalability, as more clients can be supported by adding more servers without data duplication, and (3) fault tolerance, as server-level fault-tolerant and fault-recovery schemes can be devised. We describe our experiences and results in the implementation of a server-array-based VOD system. Our system now has four P5-90 servers serving 40 PC-486 stations using a 10 Mbps Ethernet switch. The system can deliver 40 simultaneous and independent 1.2 Mbps, 30 fps, full TV size, MPEG-1 video streams. Our results demonstrate that with careful protocol design, Ethernet can deliver continuous video and audio services.
Studies on the inhibition of pancreatic and microbial lipases by soybean proteins. (1984)

A protein, molecular weight 70,000 that inhibits pancreatic lipase has been isolated from soybean seeds. Inhibition is not reversed by colipase unless bile salts are added to the assay system. Inhibitory properties of the purified protein are very similar to those of serum albumin or alpha-lactoglobulin. It has been confirmed that, during intestinal lipolysis of dietary fats, bile salts play an essential role for the activation of the lipase-colipase system in the presence of inhibitory proteins. The purified soybean lipase inhibitory protein was shown to be highly surface-active and able to penetrate monomolecular films of various glycerides and phospholipids at high surface pressure. Inhibition of pancreatic lipase by proteins is related to their capacity to interact with lipids and to modify the quality of the substrate-water interface. The protein isolated from soybeans inhibits pancreatic and Rh. delemar lipase in contrast to the Rh. arrhizus enzyme.
Growth factor receptor expression during in vitro differentiation of partially purified populations containing murine stem cells (1997)

We have investigated, by semiquantitative RT-PCR, the kinetics of activation of hematopoietic receptors and differentiation markers in partially purified murine hematopoietic stem cells (HSC) induced to differentiate in serum-free culture with combinations of growth factor (GF). The combinations of GF used sustained either multilineage [stem cell factor (SCF) + interleukin 3 (IL-3)], or erythroid [SCF + IL-3 + erythropoietin (Epo)] or myeloid [SCF + IL-3 + granulocyte colony-stimulating factor (G-CSF)] differentiation. The GF receptor genes investigated were the α and β subunits of the IL-3 and granulocyte-macrophage colony-stimulating factor (GM-CSF) receptor, the erythropoietin receptor, the G-CSF receptor, and c-Fms, the receptor for macrophage colony-stimulating factor (M-CSF). The expression of Gata1 and α- and β-globin was investigated at the same time as a marker of erythroid differentiation. HSC were purified according to standard protocols, which include partitioning of lineage-negative bone marrow cells with the mitochondrial dye Rhodamine 123 (Rho) into Rho-dull (≥17% of which reconstitute long-term hematopoiesis in recipient mice) and into Rho-bright (which are as capable as Rho-dull of multilineage differentiation but do not permanently reconstitute the host). The following pattern of expression was observed: the α subunit of the IL-3 receptor clearly was expressed in both Rho-bright and Rho-dull cells at the outset, and its expression did not change over time in culture. The β subunits of the IL-3 and GM-CSF receptor, the α subunit of the GM-CSF receptor, the Epo and G-CSF receptors and Fms barely were expressed in purified Rho-bright and Rho-dull cells, but their expression increased in cells cultured both in erythroid and in myeloid GF combinations. Gata1 was expressed maximally in Rho-bright cells but was below the level of detection in Rho-dull cells. Rho-dull cells expressed Gata1 when cultured both in erythroid and in myeloid GF combinations. In contrast, α- and β-globin, which also were not expressed in the purified cells, were induced only in cells stimulated with Epo. These results indicate that the genes for all the GF receptors investigated (with the exception of the α subunit of the IL-3 receptor) are expressed at low levels, if any, in purified Rho-bright or Rho-dull cells, but are expressed in their progeny cultured either in erythroid or myeloid GF combinations. The expression of the Epo receptor,in particular, is activated both in erythroid (α- and β-globin positive) and in myeloid (α- and β-globin negative) cells. Therefore, activation of the expression of the Epo receptor gene and activation of the erythroid differentiation program are two independent events in normal hematopoiesis. J. Cell. Physiol. 171:343–356, 1997. © 1997 Wiley-Liss, Inc.
Face-TLD: Tracking-Learning-Detection applied to faces (2010)

A novel system for long-term tracking of a human face in unconstrained videos is built on Tracking-Learning-Detection (TLD) approach. The system extends TLD with the concept of a generic detector and a validator which is designed for real-time face tracking resistent to occlusions and appearance changes. The off-line trained detector localizes frontal faces and the online trained validator decides which faces correspond to the tracked subject. Several strategies for building the validator during tracking are quantitatively evaluated. The system is validated on a sitcom episode (23 min.) and a surveillance (8 min.) video. In both cases the system detects-tracks the face and automatically learns a multi-view model from a single frontal example and an unlabeled video.
Interpretation of Mueller matrices based on polar decomposition (1996)

We present an algorithm that decomposes a Mueller matrix into a sequence of three matrix factors: a diattenuator, followed by a retarder, then followed by a depolarizer. Those factors are unique except for singular Mueller matrices. Based on this decomposition, the diattenuation and the retardance of a Mueller matrix can be defined and computed. Thus this algorithm is useful for performing data reduction upon experimentally determined Mueller matrices.
Classification of joint pathology using an acoustical analysis of knee joint sound (2006)

The purpose of this study is to evaluate and classify arthritic pathology using the acoustical analysis of knee sound. Six normal subjects and 11 patients with knee problem were enrolled and patients were divided into the 1st patient group needed an orthopeadic surgery because of the ruptured wounds of meniscus or ACL (anterior cruciate ligament) and 2nd patient group diagnosed as osteoarthritis. In sitting and standing position, subjects flexed and extended the knee joint, the sounds and angle of knee joint were collected. The results showed that the values of fundamental frequency, jitter and shimmer of osteoarthritis patient group were larger than values of normal group and the values of orthopaedic patient group were smaller than values of normal group. These results suggest that an analysis of knee joint sound might assist non-invasive diagnosis of an articular pathology.
Constraining Large Scale Structure Theories with the Cosmic Background Radiation (1998)

We review the relevant 10+ parameters associated with inflation and matter content; the relation between LSS and primary and secondary CMB anisotropy probes; COBE constraints on energy injection; current anisotropy band-powers which strongly support the gravitational instability theory and suggest the universe could not have reionized too early. We use Bayesian analysis methods to determine what current CMB and CMB+LSS data imply for inflation-based Gaussian fluctuations in tilted $Λ$CDM, $Λ$hCDM and oCDM model sequences with age 11-15 Gyr, consisting of mixtures of baryons, cold (and possibly hot) dark matter, vacuum energy, and curvature energy in open cosmologies. For example, we find the slope of the initial spectrum is within about 5% of the (preferred) scale invariant form when just the CMB data is used, and for $Λ$CDM when LSS data is combined with CMB; with both, a nonzero value of $Ω_Λ$ is strongly preferred ($\approx 2/3$ for a 13 Gyr sequence, similar to the value from SNIa). The $o$CDM sequence prefers $Ω_{tot}&lt;1 $, but is overall much less likely than the flat $Ω_Λ\ne 0$ sequence with CMB+LSS. We also review the rosy forecasts of angular power spectra and parameter estimates from future balloon and satellite experiments when foreground and systematic effects are ignored.
Noncovalent scFv multimers of tumor‐targeting anti‐Lewisy hu3S193 humanized antibody (2003)

Single-chain variable fragments (scFvs) of anti-Lewis(y) hu3S193 humanized antibody were constructed by joining the V(H) and V(L) domains with either +2 residues, +1 residue, or by directly linking the domains. In addition two constructs were synthesized in which one or two C-terminal residues of the V(H) domain were removed (-1 residue, -2 residue) and then joined directly to the V(L) domain. An scFv construct in the reverse orientation with the V(L) joined directly to the V(H) domain was also synthesized. Upon transformation into Escherichia coli all scFv constructs expressed active protein. Binding activity, multimeric status, and multivalent properties were assessed by flow cytometry, size exclusion chromatography, and biosensor analysis. The results for hu3S193 scFvs are consistent with the paradigm that scFvs with a linker of +3 residues or more associate to form a non-covalent dimer, and those with a shorter linker or directly linked associate predominantly to form a non-covalent trimer and tetramer that are in equilibrium. While the association of V domains to form either a dimer or trimer/tetramer is governed by the length of the linker, the stability of the trimer/tetramer in the equilibrium mixture is dependent on the affinity of the interaction of the individual V domains to associate to form the larger Fv module.
Improving Primary Frequency Response to Support Networked Microgrid Operations (2018)

Individual microgrids have proven their ability to provide uninterrupted power to critical end-use loads during severe events. Building on the performance of individual microgrids during extreme events, there has been an increasing interest in the operations of network microgrids. By networking microgrids during extreme events, it is possible to share resources, increase the duration for which they can operate islanded, improve efficiency, and increase the resiliency of critical end-use loads. While there are benefits to networking the operations of resiliency-based microgrids, the switching operations that they require introduce transients, which can result in a loss of dynamic stability. The issue of dynamic stability is especially acute in microgrids with high penetrations of inverter-connected generation, and correspondingly low system inertia. While the low inertia of these microgrids can be increased by over-sizing the rotating generators, the increased capital and operating costs can become a barrier to deployment. This paper will present a method of augmenting primary frequency controls to support the switching transients necessary for the operation of networked microgrids, without the need to over-size rotating machines.
Wavelength conversion in WDM networking (1998)

Wavelength conversion has been proposed for use in wavelength-division multiplexed networks to improve efficiency. This study highlights systems challenges and performance issues which need to be addressed in order to incorporate wavelength conversion effectively. A review/survey of the enabling technologies, design methods, and analytical models used in wavelength-convertible networks is provided.
Cardiomyocyte Formation by Skeletal Muscle-Derived Multi-Myogenic Stem Cells after Transplantation into Infarcted Myocardium (2008)

Skeletal muscle-derived multipotent Sk-34 cells that can give rise to skeletal and smooth muscle cells as reported previously, also give rise to cardiac muscle cells as multi-myogenic stem cells, and thus are a potential source for practical cellular cardiomyoplasty.
FT-INFRARED AND FT-RAMAN SPECTROSCOPY IN BIOMEDICAL RESEARCH (2001)

Click to increase image sizeClick to decrease image size ACKNOWLEDGMENTS The excellent technical assistance of Angelika Brauer in preparing this manuscript is gratefully acknowledged. The assistance of Maren Stämmler and Angelika Brauer in sample preparations, measurements, and evaluations is much appreciated. The technical drawings of Figs. 5A and 5B have been provided by Bruker Optics GmbH, Ettlingen, Germany. The original spectra of Figs. 6 and 19 have been kindly provided by H. Fabian and S. Keller, respectively. Their discussions in producing these figures are acknowledged. Figures 18, 20, and 21 have been adapted from the literature with direct help of the authors (C.P. Schultz, P. Lasch). Their help is gratefully acknowledged.
Pioglitazone (AD-4833) Ameliorates Insulin Resistance in Patients with NIDDM (1997)

We evaluated the effect of pioglitazone, a thiazolidinedione compound, on insulin-stimulated glucose disposal (Rd) and its efficacy on carbohydrate and lipid metabolism in patients with non-insulin-dependent diabetes mellitus (NIDDM). Twenty NIDDM subjects (mean age 58.2+/-9.4 year, body mass index (BMI) 23.9+/-3.4 kg/ m2 (mean+/-S.D.], three with diet alone, 17 with sulfonylureas [SU]) participated in this trial from five diabetes clinics. Euglycemic (5.3 mmol/liter) hyperinsulinemic (insulin infusion rate 9 micromoles x kg[-1] x min[-1]) clamp studies were performed before and after oral administration of pioglitazone (30 mg/day) for 87+/-10 days. The Rd significantly improved from 5.5+/-2.5 to 8.3+/-3.1 mg x kg(-1) x min(-1). Fasting plasma glucose (FPG) level significantly decreased from 11.0+/-2.0 mmol/liter to 8.9+/-1.1 mmol/liter with a significant improvement in the hemoglobin A1c level from 9.2+/-1.8% to 8.3+/-1.5%. Fasting serum insulin and C peptide levels decreased from 83+/-36 pmol/liter and 0.62+/-0.21 nmol/liter to 66+/-29 pmol/liter and 0.58+/-0.25 nmol/liter, respectively. Fasting serum triglyceride and free fatty acids levels significantly decreased with concomitant increase of fasting serum HDL-cholesterol levels from 1.2+/-0.2 to 1.5+/-0.3 mmol/liter. The change in Rd between before and after pioglitazone administration correlated with baseline values of FPG (rho=0.633), serum insulin (rho=0.653), BMI (rho=0.456), Rd (rho 0.558) and 1,5-AG (rho=-0.522). These data indicate that pioglitazone enhances the insulin action in NIDDM patients on diet alone or SU, and thereby improves both plasma glucose level and lipid profiles.
Identification of novel mdm2 binding peptides by phage display. (1996)

The oncogene mdm2 and its human homologue hdm2 bind to the tumour suppressor protein p53 and inactivate its function as a transcription factor. This has been implied as a possible mechanism for cancer development in several tumours including human sarcomas. The mdm2-p53 interaction is therefore a much persued target for the development of anti-cancer drugs. In order to find novel high affinity ligands for hdm2 which would interfere with its binding to p53 we screened phage display peptide libraries for mdm2 binding phage. We found a series of 12 and 15mer peptides which interact strongly with hdm2. The peptide sequences show striking homology with the previously established mdm2 binding site on p53, confirming that the peptide defined 18TFSDLW23 region is crucial for the interaction but that contact between the two molecules extends to position L26 on p53. Free synthetic peptides derived from the phage selected sequences proved to be up to 100 times stronger inhibitors of the p53-mdm2 interaction than the p53 derived wt-peptide in several ELISA-assays. This illustrates the potency of phage display libraries in the search for new peptide based lead structures designed to mimic or inhibit therapeutically important protein-protein interactions.
Prostate stem cell antigen is overexpressed in human transitional cell carcinoma. (2001)

Prostate stem cell antigen (PSCA), a homologue of the Ly-6/Thy-1 family of cell surface antigens, is expressed by a majority of human prostate cancers and is a promising target for prostate cancer immunotherapy. In addition to its expression in normal and malignant prostate, we recently reported that PSCA is expressed at low levels in the transitional epithelium of normal bladder. In the present study, we compared the expression of PSCA in normal and malignant urothelial tissues to assess its potential as an immunotherapeutic target in transitional cell carcinoma (TCC). Immunohistochemical analysis of PSCA protein expression was performed on tissue sections from 32 normal bladder specimens, as well as 11 cases of low-grade transitional cell dysplasia, 21 cases of carcinoma in situ (CIS), 38 superficial transitional cell tumors (STCC, stages T(a)-T(1)), 65 muscle-invasive TCCs (ITCCs, stages T(2)-T(4)), and 7 bladder cancer metastases. The level of PSCA protein expression was scored semiquantitatively by assessing both the intensity and frequency (i.e., percentage of positive tumor cells) of staining. We also examined PSCA mRNA expression in a representative sample of normal and malignant human transitional cell tissues. In normal bladder, PSCA immunostaining was weak and confined almost exclusively to the superficial umbrella cell layer. Staining in CIS and STCC was more intense and uniform than that seen in normal bladder epithelium (P < 0.001), with staining detected in 21 (100%) of 21 cases of CIS and 37 (97%) of 38 superficial tumors. PSCA protein was also detected in 42 (65%) of 65 of muscle-invasive and 4 (57%) of 7 metastatic cancers, with the highest levels of PSCA expression (i.e., moderate-strong staining in >50% of tumor cells) seen in 32% of invasive and 43% of metastatic samples. Higher levels of PSCA expression correlated with increasing tumor grade for both STCCs and ITCCs (P < 0.001). Northern blot analysis confirmed the immunohistochemical data, showing a dramatic increase in PSCA mRNA expression in two of five muscle-invasive transitional cell tumors when compared with normal samples. Confocal microscopy demonstrated that PSCA expression in TCC is confined to the cell surface. These data demonstrate that PSCA is overexpressed in a majority of human TCCs, particularly CIS and superficial tumors, and may be a useful target for bladder cancer diagnosis and therapy.
Phase II trial of recombinant interferon-alpha2b in patients with advanced intractable multidrug-resistant pulmonary tuberculosis: long-term follow-up. (1999)

The results of this trial suggest that r-IFN-alpha2b should be evaluated further in multidrug-resistant tuberculosis in prospective controlled trials.
RIBONUCLEIC ACID-INDUCED CHANGES IN MAMMALIAN CELLS (1961)

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans the biological, physical, and social sciences.