gebhart/patrepeval huggingface dataset:
Fabrication of Alumina Nanotubes and Nanowires by Etching Porous Alumina Membranes (2002)

Porous alumina membranes are commercially available and have been widely used in recent nanoscale research, for example, as templates in nanowire fabrication through electrodeposition. In this report, we present a new use for porous alumina membranes in the fabrication of alumina nanotubes/nanowires desired in electrochemical devices and catalytic applications. A high yield of alumina nanotubes/nanowires is obtained by etching porous alumina membranes in an aqueous sodium hydroxide solution. We studied the effects of etching time and solution concentration and characterized the alumina nanotubes/nanowires using a scanning electron microscope (SEM). A discussion of the possible mechanism for the formation of nanotubes/nanowires is given. Our results also imply that in nanowire fabrication through the template approach where alumina membranes are removed with sodium hydroxide solution to release the nanowires special attention is needed in characterizing the nanowires with the SEM because alumina nanotubes/nanowires can be easily mistaken for electrodeposited nanowires.
Automatic caption localization in compressed video (2000)

We present a method to automatically localize captions in JPEG compressed images and the I-frames of MPEG compressed videos. Caption text regions are segmented from background images using their distinguishing texture characteristics. Unlike previously published methods which fully decompress the video sequence before extracting the text regions, this method locates candidate caption text regions directly in the DCT compressed domain using the intensity variation information encoded in the DCT domain. Therefore, only a very small amount of decoding is required. The proposed algorithm takes about 0.006 second to process a 240/spl times/350 image and achieves a recall rate of 99.17 percent while falsely accepting about 1.87 percent nontext DCT blocks on a variety of MPEG compressed videos containing more than 2,300 I-frames.
Heat Shock Protein 60 Is Released in Immune-Mediated Glomerulonephritis and Aggravates Disease (2004)

Heat shock proteins (Hsp) are ubiquitous intracellular proteins that can be released in various forms of cellular stress. Some Hsp, such as Hsp60, have been shown to stimulate directly T cell-mediated immune responses in vitro. Here, it is demonstrated that Hsp60 is released from the kidneys and excreted into the urine of mice with nephrotoxic nephritis (NTN), a model of rapidly progressive glomerulonephritis. For examining the functional relevance of Hsp60 release, this protein was injected into mice with subnephritogenic NTN, in which only transient proteinuria and minimal organ damage occur that do not progress to terminal kidney failure. Injection of Hsp60 strikingly aggravated disease, as evidenced by global glomerular necrosis, tubulointerstitial damage, and complete anuria after 10 to 12 d. This effect was mediated neither by endotoxin contaminations of Hsp60 nor by autologous antibodies. It was strictly T cell dependent but not associated with a systemic Th1/Th2 shift. Thus, Hsp60 is an endogenous mediator stimulating immune effector mechanisms that contribute to the progression of NTN. These findings demonstrate in vivo that Hsp60 fulfills criteria of immunologic danger signals and suggest that such signals may be involved in immune-mediated kidney disease.
Stabilization by heparin of acidic fibroblast growth factor mitogenicity for human endothelial cells in vitro (1989)

The effects of heparin and other glycosaminoglycans (GAGs) on the mitogenicity and stability of acidic fibroblast growth factor (aFGF) were studied. The mitogenic activity of aFGF was assayed utilizing cultured adult human endothelial cells (AHECs) isolated from iliac arteries and veins as target cells. In most experiments, aFGF purified from bovine brain was employed; in some experiments recombinant bovine aFGF was used and qualitatively similar results were obtained. In the presence of heparin, bovine aFGF at doses between 0.5 and 1.0 ng/ml (30-60 pM) elicited half the maximum AHEC growth over a 4-day period depending on the cell line tested; in the absence of heparin, significant growth was not observed at aFGF concentrations less than 10-20 ng/ml. This effect of heparin was dose-dependent over the range 0.1-10 micrograms/ml (half-maximum dose, 2 micrograms/ml). The mitogenic activity of bovine aFGF for AHECs decreased by 50% after preincubation in culture medium without cells at 37 degrees C for 2 1/2 to 3 hours. In contrast, the mitogenic activity of bovine aFGF preincubated in the presence of heparin-containing culture medium without cells was dramatically stabilized (half-life 24-29 hours). These effects also were observed in serum-free medium. Several GAGs structurally related to heparin such as chondroitin-4-sulfate, chondroitin-6-sulfate, dermatan sulfate, and hyaluronic acid neither potentiated nor stabilized aFGF mitogenic activity. However, heparan sulfate from bovine lung was found to be nearly as active as heparin in both these effects. These data suggest that the binding and stabilization of mitogens by extracellular and tissue-associated heparan sulfates might play important roles in the regulation of AHEC growth.
Constrained segment shapes in direct‐aperture optimization for step‐and‐shoot IMRT (2006)

Previous studies have shown that, by optimizing segment shapes and weights directly, without explicitly optimizing fluence profiles, effective IMRT plans can be generated with fewer segments. This study proposes a method of direct-aperture optimization with aperture shape constraints, which is designed to provide segmental IMRT plans using a minimum of simple, regular segments. The method uses a cubic function to create smoothly curving multileaf collimator shapes. Constraints on segment dimension and equivalent square are applied, and each segment can be constrained to lie within the previous one, for easy generation of fluence profiles with a single maximum. To simply optimize the segment shapes and reject any shapes which violate the constraints is too inefficient, so an innovative method of feedback optimization is used to ensure in advance that viable aperture shapes are generated. The algorithm is demonstrated using a simple cylindrical phantom consisting of a hemi-annular planning target volume and a central cylindrical organ-at-risk. A simple IMRT rectum case is presented, where segments are used to replace a wedge. More complex cases of prostate and seminal vesicles and prostate and pelvic nodes are also shown. The algorithm produces effective plans in each case with three to five segments per beam. For the simple plans, the constraint that each segment should be contained within the previous one adds additional simplicity to the plan, for a small reduction in plan quality. This study confirms that direct-aperture optimization gives efficient solutions to the segmental IMRT inverse problem and provides a method for generating simple apertures. By using such a method, the workload of IMRT verification may be reduced and simplified, as verification of fluence profiles from individual beams may be eliminated.
Evidence for High-Capacity Bidirectional Glucose Transport across the Endoplasmic Reticulum Membrane by Genetically Encoded Fluorescence Resonance Energy Transfer Nanosensors (2005)

Glucose release from hepatocytes is important for maintenance of blood glucose levels. Glucose-6-phosphate phosphatase, catalyzing the final metabolic step of gluconeogenesis, faces the endoplasmic reticulum (ER) lumen. Thus, glucose produced in the ER has to be either exported from the ER into the cytosol before release into circulation or exported directly by a vesicular pathway. To measure ER transport of glucose, fluorescence resonance energy transfer-based nanosensors were targeted to the cytosol or the ER lumen of HepG2 cells. During perfusion with 5 mM glucose, cytosolic levels were maintained at approximately 80% of the external supply, indicating that plasma membrane transport exceeded the rate of glucose phosphorylation. Glucose levels and kinetics inside the ER were indistinguishable from cytosolic levels, suggesting rapid bidirectional glucose transport across the ER membrane. A dynamic model incorporating rapid bidirectional ER transport yields a very good fit with the observed kinetics. Plasma membrane and ER membrane glucose transport differed regarding sensitivity to cytochalasin B and showed different relative kinetics for galactose uptake and release, suggesting catalysis by distinct activities at the two membranes. The presence of a high-capacity glucose transport system on the ER membrane is consistent with the hypothesis that glucose export from hepatocytes occurs via the cytosol by a yet-to-be-identified set of proteins.
Lens Radial Distortion Calibration Using Homography of Central Points (2007)

We present a novel method for radial lens distortion calibration which results in high accuracy of compensation. It is based on single image of planar chessboard pattern and uses the extracted distorted grid of points. Due to homographic approach, no special alignment of the camera with regard to the calibration object is required. Undistorted grid is determined from the central points of the image and used to find the radial distortion model using linear least square method (LSM). The model is used for dense compensation by bilinear interpolation or for sparse compensation by Newton iterative scheme.
A Printed Leaky-Wave Antenna Based on a Sinusoidally-Modulated Reactance Surface (2011)

A simple procedure for designing a sinusoidally-modulated reactance surface (SMRS) that radiates at an arbitrary off-broadside angle is outlined. The procedure allows for nearly independent control of the leakage and phase constants along the surface. Printing an array of metallic strips over a grounded dielectric substrate is discussed as a way to practically implement the theoretical SMRS. A method of mapping the gaps between metallic strips to a desired surface impedance is presented as an efficient alternative to mapping methods used in the past. A printed leaky-wave antenna with a sinusoidally-modulated surface reactance is designed using the procedure mentioned above. The TM-polarized antenna radiates at 30° from broadside at 10 GHz, and exhibits an experimental gain of 18.4 dB. Theoretical, simulated, and experimental results are presented.
Disappearance Rates of Endogenous Luteinizing Hormone and Chorionic Gonadotropin in Man (1968)

Assessment of the rates of disappearance of endogenous LH and HCG from serum following complete surgical hypophysectomy and removal of the placenta was made. The hormone levels were measured by a specific radioimmunoassay. The disappearance rates for both LH and HCG appear to follow a double exponential curve although there may be a possible additional exponential. The initial disappearance involves a fast process (t½ about 21 min for LH, t½ about 11 hr for HCG) followed by a slower process of disappearance (t½ about 235 min for LH, t½ about 23 hr for HCG), which probably reflects the distribution of these hormones in at least 2 compartments.
Heterogeneity of guanylyl cyclase C expressed by human colorectal cancer cell lines in vitro. (1998)

In humans, guanylyl cyclase C (GCC) is expressed by mucosal cells lining the intestine, from the duodenum to the rectum, but not by extraintestinal tissues. Expression of GCC persists after mucosal cells undergo neoplastic transformation, and this protein has been identified in all primary and metastatic colorectal tumors examined to date, suggesting that GCC may be a highly specific biomarker for colorectal cancer. The utility of GCC as a diagnostic biomarker and therapeutic target is predicated, in part, on defining the variability of its expression in colorectal cancer cells. Similarly, the utility of this biomarker to define tumor burden in diagnosing, staging, and postoperative surveillance of patients is predicated on quantifying GCC expression in cancer cells in tissues and blood. The present studies examined the heterogeneity of GCC expression in eight human colorectal carcinoma cell lines in vitro representing the full spectrum of cytological differentiation. Quantification of GCC expression by ligand binding and stimulation of cGMP accumulation demonstrated that functional GCC expression is heterogeneous in different colorectal cancer cell lines. Qualitative reverse transcription (RT)-PCR demonstrated that all colorectal cancer cells examined expressed GCC mRNA. However, GCC expression varied 100-fold in different colorectal cancer cell lines, determined by a novel quantitative RT-PCR assay. Functional and molecular expressions of GCC were unrelated to the differentiation state of cancer cells. These studies suggest that GCC is heterogeneously expressed by colorectal cancer cells in vitro and suggest a role for quantitative RT-PCR analysis in the development of diagnostic tests using GCC as a biomarker for metastatic colorectal cancer.
Cell Cycle- and Age-Dependent Transcriptional Regulation of Human Thymidine Kinase Gene The Role of NF-Y in the CBP/tk Binding Complex (1996)

Expression of thymidine kinase gene in normal human diploid cells is both cell cycle- and age-dependent and appears to be transcriptionally regulated. Strong DNA protein binding with a 28-bp fragment (-91/-64) that contains the distal inverted CCAAT box is observed in serum-stimulated young (low population doubling level) IMR-90 cells but not in senescent cells. This cell cycle- and age-dependent binding factor was termed CBP/ tk, indicating CCAAT binding protein for the thymidine kinase gene. Based on immunoshift assay and purification, it has been suggested that CBP/tk is equivalent to NF-Y, previously identified as the binding protein for the Y box within E alpha gene promoter. In this study, we examined the mRNA level and protein amount of NF-Y, proteins in young and old IMR-90 cells during serum stimulation by Northern and Western blot blot analyses. In addition, we compared (1) the turnover rate of NF-Y in IMR-90 cells with that of CBP/tk binding activity and (2) the levels of NF-Y and CBP/tk in normal and cancer cells. Both NF-YA and NF-YB were constitutively expressed at mRNA level in IMR-90 cells. However, expression of NF-YA, and to a lesser degree, NF-YB, at the protein level were clearly age-dependent. The half-life of NF-YA and NF-YB were, respectively, 4- and > 10-fold longer than that of CBP/tk binding activity in IMR-90 cells. In addition, we found that the amount of NF-Y did not correlate with the overexpression of CBP/tk binding activity in HeLa cells. Taken together, our results suggested that although CBP/tk may contain NF-YA or related proteins, NF-A and NF-YB alone may not account for all the characteristics of CBP/tk observed in normal and transformed human cells.
A role for BLyS in the activation of innate immune cells (2006)

B-lymphocyte stimulator (BLyS) is a member of the tumor necrosis factor (TNF) ligand superfamily. Although BLyS costimulates adaptive immune cells, the ability of BLyS to stimulate innate immune cells has not been described. Here, we show that BLyS strongly induces human monocyte survival, and activation as measured by proinflammatory cytokine secretion and up-regulation of costimulatory molecule expression. In addition, monocytes cultured with BLyS differentiated into macrophage-like cells. Regarding BLyS receptor(s) expression, freshly isolated monocytes bound low levels of exogenous BLyS and expressed primarily intracellular TACI, and cell surface TACI levels increased following monocyte activation. Of interest, bone marrow monocytes from some multiple myeloma patients expressed significant levels of cell surface TACI at isolation. Our findings indicate that BLyS plays a role in activating innate immune cells. Moreover, this study may explain more clearly why high BLyS production is often correlated with certain inflammatory autoimmune diseases and B-lymphocyte malignancies.
Suppression of in vitro proliferative scar fibroblast contraction by interferon alfa‐2b (1993)

Increased fibroblast activity and collagen production have been observed frequently in proliferative scars. Previous studies have demonstrated that interferons suppress collagen production by means of normal, keloid, and hypertrophic scar-derived fibroblasts. The fibroblast-populated collagen lattice is an in vitro model used to study fibroblast function. We used fibroblast-populated collagen lattices to evaluate the effect of interferon on fibroblasts harvested from normal human skin, human keloid, and hypertrophic scar tissues. Human recombinant interferon alfa-2b (1000 IU/ml) was added to the culture media. The collagen gel, prepared from rat tail tendon bundles, was overlaid with 5 x 10(4) fibroblast cells. Keloid fibroblast-populated collagen lattices showed the highest contraction. Contraction in all the groups appeared suppressed by interferon alfa-2b during the first 72 hours of study (p < 0.05). The reduction in fibroblast-populated collagen lattice contraction by interferon alfa-2b was similar among the groups. The contractile properties of fibroblasts taken from normal human skin, keloids, and hypertrophic scars in this in vitro study were suppressed by interferon alfa-2b. This suggested that interferon alfa-2b may be beneficial for the treatment of proliferative scars.
Oxidized low density lipoprotein‐induced transdifferentiation of bone marrow‐derived smooth muscle‐like cells into foam‐like cells in vitro (2009)

Oxidized-low density lipoprotein (ox-LDL) is believed to contribute to atherogenesis in part by being taken up into smooth muscle cells (SMC) via specific scavenger receptors; however, it is not clear whether ox-LDL receptor(s) are expressed in bone marrow-derived smooth muscle-like cells (SMLCs) and whether they play a role in the process of SMLC development. Therefore, we examined the ox-LDL-induced transdifferentiation of SMLCs that is mediated by lectin-like ox-LDL receptor-1 (LOX-1). Smooth muscle progenitor cells (SMPCs) from bone marrow mesenchymal stem cells (BMSCs) were isolated using a tissue-specific promoter sorting method with a mouse SM22_ promoter (_480 bp)/green fluorescent protein recombinant plasmid. The SMPCs were myocardin+CD105+KDR+CD45(-)CD34(-), but did not express SMC-specific markers alpha-smooth muscle actin (alpha-SMA), SM22, smooth muscle myosin heavy chain (SM-MHC) and smoothelin. After long-term culture with platelet-derived growth factor-BB (PDGF-BB), SMPCs expressed alpha-SMA, SM22 and SM-MHC and differentiated into SMLCs. When SMLCs were incubated with different concentrations of ox-LDL, LOX-1 expression on the surface of SMLCs gradually increased with the increase of the ox-LDL concentration, but myocardin and SMC-specific marker genes decreased, accordingly. Furthermore, receptor-mediated endocytosis was enhanced and lipid droplets accumulated in the cytoplasm of SMLCs. A subpopulation of myocardin+CD105+KDR+CD45(-)CD34(-) SMPCs exist in BMSCs that can differentiate into SMLCs under induction with PDGF-BB. Moreover, LOX-1 contributes to the ox-LDL-induced transdifferentiation of bone marrow-derived SMLCs into foam-like cells.
Early Use of Recombinant Factor VIIa Improves Mean Arterial Pressure and May Potentially Decrease Mortality in Experimental Hemorrhagic Shock: A Pilot Study (2002)

Intravenous administration of rFVIIa early after induction of hemorrhage shortens prothrombin time and improves mean arterial pressure. A trend toward improved survival was observed.
Self-supervised Learning of Motion Capture (2017)

Current state-of-the-art solutions for motion capture from a single camera are optimization driven: they optimize the parameters of a 3D human model so that its re-projection matches measurements in the video (e.g. person segmentation, optical flow, keypoint detections etc.). Optimization models are susceptible to local minima. This has been the bottleneck that forced using clean green-screen like backgrounds at capture time, manual initialization, or switching to multiple cameras as input resource. In this work, we propose a learning based motion capture model for single camera input. Instead of optimizing mesh and skeleton parameters directly, our model optimizes neural network weights that predict 3D shape and skeleton configurations given a monocular RGB video. Our model is trained using a combination of strong supervision from synthetic data, and self-supervision from differentiable rendering of (a) skeletal keypoints, (b) dense 3D mesh motion, and (c) human-background segmentation, in an end-to-end framework. Empirically we show our model combines the best of both worlds of supervised learning and test-time optimization: supervised learning initializes the model parameters in the right regime, ensuring good pose and surface initialization at test time, without manual effort. Self-supervision by back-propagating through differentiable rendering allows (unsupervised) adaptation of the model to the test data, and offers much tighter fit than a pretrained fixed model. We show that the proposed model improves with experience and converges to low-error solutions where previous optimization methods fail.
Plasma membrane recovery kinetics of a microfluidic intracellular delivery platform (2014)

Intracellular delivery of materials is a challenge in research and therapeutic applications. Physical methods of plasma membrane disruption have recently emerged as an approach to facilitate the delivery of a variety of macromolecules to a range of cell types. We use the microfluidic CellSqueeze delivery platform to examine the kinetics of plasma membrane recovery after disruption and its dependence on the calcium content of the surrounding buffer (recovery time ∼ 5 min without calcium vs. ∼ 30 s with calcium). Moreover, we illustrate that manipulation of the membrane repair kinetics can yield up to 5× improvement in delivery efficiency without significantly impacting cell viability. Membrane repair characteristics initially observed in HeLa cells are shown to translate to primary naïve murine T cells. Subsequent manipulation of membrane repair kinetics also enables the delivery of larger materials, such as antibodies, to these difficult to manipulate cells. This work provides insight into the membrane repair process in response to mechanical delivery and could potentially enable the development of improved delivery methods.
Molecular detection of telomerase-positive circulating epithelial cells in metastatic breast cancer patients. (1999)

The detection of circulating tumor cells and micrometastases may have important therapeutic and prognostic implications. Telomerase is a hallmark of cancer and is absent from normal epithelial cells. The aim of this study was to use telomerase activity as a molecular marker for the detection of cancer cells in blood of patients with breast cancer. Blood samples were collected from 25 women with stage IV breast cancer and 9 healthy volunteers. Peripheral blood mononuclear cells were isolated by using Ficoll/Hypaque. Immunomagnetic beads coated with an epithelial-specific antibody (BerEP4) were used to harvest epithelial cells from peripheral blood mononuclear cells. Telomerase activity was detected in harvested epithelial cells (HECs) using two different telomerase-PCR-ELISA methods. HECs from blood samples of 21 of 25 (84%) patients with breast cancer were telomerase positive. Telomerase activity was undetectable in HECs from the nine healthy volunteers, demonstrating the specificity of the association between telomerase activity in HECs and stage IV breast cancer. Thus, determination of telomerase activity in HECs appears to be a sensitive, specific, and noninvasive approach for detecting circulating epithelial cancer cells in patients with metastatic breast cancer. This method could be of great value in monitoring the cancer cell proliferation during chemotherapy. This study should be now extended to patients with early-stage breast cancer to investigate the role of telomerase expression by HECs and to evaluate its prognostic value.