gebhart/patrepeval huggingface dataset:
Sampling Theorem and Aliasing in Biomedical Signal Processing (2006)

Abstract Despite digital techniques for data acquisition and processing being widely used in biomedical research for quite some time, inappropriate signal conditioning and digitization are still potential pitfalls threatening both the reliability of the experiments and the proper interpretation of the acquired data. The aim of this chapter is to review: (1) the Sampling (Nyquist) Theorem; (2) the concept of aliasing; (3) the importance of antialiasing low‐pass filtering for eliminating the effect of aliasing and appropriately determining the sampling frequency; (4) the advantages of properly chosen filter cut‐off frequency and slope for determining the minimal required sampling frequency; and (5) the impact of incorrectly selected sampling frequency on the interpretation of biomedical data. In a case study, a model of electrogastrographic (EGG) recording is mixed with a model of electrocardiographic (EKG) artifact in an overall white noise environment. The resulting composite signal is low‐pass filtered and then digitized with a sampling frequency of 1 Hz. The cut‐off frequency of the first‐order low‐pass filter is altered from 0.5 Hz to 0.1 Hz. Amplitude frequency spectra of the digitized recordings are investigated to illustrate the effect of aliasing. An example with a real human electrogastrogram, in which an EKG artifact is present, illustrates the simulation results. When a first‐order antialiasing filter is used, at least a five‐fold difference between the filter cut‐off frequency and the sampling frequency is recommended for compliance with the Sampling Theorem. Increasing the order of the antialiasing filter can reduce the required sampling frequency, but can also make the entire instrumentation system underdamped, thus injecting oscillatory artifacts every time abrupt or sudden changes in the external conditions during the recording occur.
Abstracts (1999)

We immunohistochcmically and morphometrically examined the expression of gap junction protein connexin (Cx) in normal and crushinjured rat sciatic nerves using confocal laser scanning microscopy. Cx26 was localized in the perineurium and Cx43 was present in the
Low-complexity intrauterine pressure monitoring by Teager energy estimation (2013)

Monitoring the progression of maternal uterine activity provides important prognostic information during pregnancy and parturition. Currently used methods, however, are unsuitable for long-term observation of uterine activity. The abdominally measured electrohysterogram (EHG) provides a non-invasive alternative to the existing methods for long-term ambulatory uterine contraction monitoring. A new EHG signal analysis method for intrauterine pressure (IUP) estimation based on the Teager energy estimate is proposed. The new method is compared to existing methods from the literature in terms of estimation accuracy and computational complexity. An accurate IUP estimate, with a complexity up to 40 times lower than that of algorithms from the literature is obtained. Therefore, the proposed method offers a valuable new option for long-term uterine monitoring.
Noninvasive imaging of islet grafts using positron-emission tomography (2006)

Islet transplantation offers a potential therapy to restore glucose homeostasis in type 1 diabetes patients. However, islet transplantation is not routinely successful because most islet recipients gradually lose graft function. Furthermore, serological markers of islet function are insensitive to islet loss until the latter stages of islet graft rejection. A noninvasive method of monitoring islet grafts would aid in the assessment of islet graft survival and the evaluation of interventions designed to prolong graft survival. Here, we show that recombinant adenovirus can engineer isolated islets to express a positron-emission tomography (PET) reporter gene and that these islets can be repeatedly imaged by using microPET after transplantation into mice. The magnitude of signal from engineered islets implanted into the axillary cavity was directly related to the implanted islet mass. PET signals attenuated over the following weeks because of the transient nature of adenovirus-mediated gene expression. Because the liver is the preferred site for islet implantation in humans, we also tested whether islets could be imaged after transfusion into the mouse liver. Control studies revealed that both intrahepatic islet transplantation and hyperglycemia altered the biodistribution kinetics of the PET probe systemically. Although transplanted islets were dispersed throughout the liver, clear signals from the liver region of mice receiving PET reporter-expressing islets were detectable for several weeks. Viral transduction, PET reporter expression, and repeated microPET imaging had no apparent deleterious effects on islet function after implantation. These studies lay a foundation for noninvasive quantitative assessments of islet graft survival using PET.
Measurement of viscoelastic properties of homogeneous soft solid using transient elastography: An inverse problem approach (2004)

Two main questions are at the center of this paper. The first one concerns the choice of a rheological model in the frequency range of transient elastography, sonoelasticity or NMR elastography for soft solids (20-1000 Hz). Transient elastography experiments based on plane shear waves that propagate in an Agar-gelatin phantom or in bovine muscles enable one to quantify their viscoelastic properties. The comparison of these experimental results to the prediction of the two simplest rheological models indicate clearly that Voigt's model is the better. The second question studied in the paper deals with the feasibility of quantitative viscosity mapping using inverse problem algorithm. In the ideal situation where plane shear waves propagate in a sample, a simple inverse problem based on the Helmholtz equation correctly retrieves both elasticity and viscosity. In a more realistic situation with nonplane shear waves, this simple approach fails. Nevertheless, it is shown that quantitative viscosity mapping is still possible if one uses an appropriate inverse problem that fully takes into account diffraction in solids.
A submillimeter resolution fluorescence molecular imaging system for small animal imaging (2003)

Most current imaging systems developed for tomographic investigations of intact tissues using diffuse photons suffer from a limited number of sources and detectors. In this paper we describe the construction and evaluation of a large dataset, low noise tomographic system for fluorescence imaging in small animals. The system consists of a parallel plate-imaging chamber and a lens coupled CCD camera, which enables conventional planar imaging as well as fluorescence tomography. The planar imaging data are used to guide the acquisition of a Fluorescence Molecular Tomography (FMT) dataset containing more than 106 measurements, and to superimpose anatomical features with tomographic results for improved visual representation. Experimental measurements exhibited good agreement with the diffusion theory models used to predict light propagation within the chamber. Tests of the instrument's capacity to quantitatively reconstruct fluorochrome distributions in three dimensions showed less than 5% errors between actual fluorochrome concentrations and FMT findings, and suggested a detection threshold of approximately 100 femptomoles for small localized objects. Experiments to assess the instrument's spatial resolution demonstrated the ability of the system to resolve objects placed at clear distances of less than 1 mm. This is a significant resolution increase over previously developed systems for animal imaging, and is primarily due to the large dataset employed and the use of inversion methods. Finally, the in vivo imaging capacity is showcased. It is expected that the large dataset collected can enable superior imaging of molecular probes in vivo and improve quantification of fluorescence signatures.
Ultrafast carbon nanotubes optical properties for high-bit-rate telecommunications applications (2010)

International audience
Raw data for "Low loss silicon waveguides and grating couplersfabricated using anisotropic wet etching technique" (2016)

This dataset contains the raw data used for the figures in the manuscript titled "Low loss silicon waveguides and grating couplers fabricated using anisotropic wet etching technique"
1407: Measuring Anti-Amacr Humoral Response as a Serum Assay to Distinguish Aggressive from Indolent Prostate Cancer (2005)

You have accessJournal of UrologyPodium, Tuesday, May 24, 2005, 3:30 - 5:30 pm1 Apr 20051407: Measuring Anti-Amacr Humoral Response as a Serum Assay to Distinguish Aggressive from Indolent Prostate Cancer Timothy J. Bradford, Martin G. Sanda, Bharathi Laxman, Arun Sreekumar, John T. Wei, Mark A. Rubin, Debashis Ghosh, and Arul M. Chinnaiyan Timothy J. BradfordTimothy J. Bradford More articles by this author , Martin G. SandaMartin G. Sanda More articles by this author , Bharathi LaxmanBharathi Laxman More articles by this author , Arun SreekumarArun Sreekumar More articles by this author , John T. WeiJohn T. Wei More articles by this author , Mark A. RubinMark A. Rubin More articles by this author , Debashis GhoshDebashis Ghosh More articles by this author , and Arul M. ChinnaiyanArul M. Chinnaiyan More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(18)35541-1AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "1407: Measuring Anti-Amacr Humoral Response as a Serum Assay to Distinguish Aggressive from Indolent Prostate Cancer." The Journal of Urology, 173(4S), pp. 381–382 © 2016 by American Urological AssociationFiguresReferencesRelatedDetails Volume 173Issue 4SApril 2005Page: 381-382 Advertisement Copyright & Permissions© 2016 by American Urological AssociationMetricsAuthor Information Timothy J. Bradford More articles by this author Martin G. Sanda More articles by this author Bharathi Laxman More articles by this author Arun Sreekumar More articles by this author John T. Wei More articles by this author Mark A. Rubin More articles by this author Debashis Ghosh More articles by this author Arul M. Chinnaiyan More articles by this author Expand All Advertisement PDF DownloadLoading ...
Enhancement of Cellular Immune Response in HIV-1 Seropositive Individuals: A DNA-Based Trial (1999)

A DNA-based vaccine containing HIV-1 Env and Rev genes was tested for safety and host immune response in 15 HIV-infected asymptomatic patients with CD4-positive lymphocyte counts >/=500/microl of blood and receiving no antiviral therapy. Successive groups of patients received three doses of vaccine at 30, 100, or 300 microg at 10-week intervals in a dose-escalation trial. Some changes were noted in cytotoxic T-lymphocyte activity against gp160-bearing targets. Importantly, enhanced specific lymphocyte proliferative activity against HIV-1 envelope was observed in multiple patients. Three of three patients in the 300-microg dose group also developed increased MIP-1alpha levels which were detectable in their serum. Interestingly patients in the lowest dose group showed no overall changes in the immune parameters measured. The majority of patients who exhibited increases in any immune parameters were contained within the 300 microg, which was the highest dose group. These studies support further investigation of this technology for the production of antigen-specific immune responses in humans.
Absorption process for producing oxygen and nitrogen and solution therefor (2023)

Process for the separation and purification of oxygen and nitrogen is disclosed which utilizes solutions of oxygen carriers to selectively absorb oxygen from a gaseous stream, leaving nitrogen as a byproduct. In the process, an oxygen carrier capable of reversibly binding molecular oxygen is dissolved in a solvent solution, which absorbs oxygen from an oxygen-containing gaseous feed stream such as atmospheric air and desorbs oxygen to a gaseous product stream. The feed stream is maintained at a sufficiently high oxygen pressure to keep the oxygen carrier in its oxygenated form during absorption, while the product stream is maintained at a sufficiently low oxygen pressure to keep the carrier in its deoxygenated form during desorption. In an alternate mode of operation, the carrier solution is maintained at a sufficiently low temperature and high oxygen pressure to keep the oxygen carrier in its oxygenated form during absorption, and at a sufficiently high temperature to keep the carrier in its deoxygenated form during desorption. Under such conditions, exceptionally high oxygen concentrations on the order of 95% to 99% are obtained, as well as a long carrier lifetime in excess of 3 months, making the process commercially feasible.
Thermal Stress Comparison of Annular-Trench-Isolated (ATI) TSV with Cu and Solder Core (2019)

In order to reduce the thermal stress in the Si substrate, we proposed a novel Through Silicon Via (TSV) structure as annular-trench-isolated (ATI) TSV. The origin of thermal stress is the mismatch in the Coefficient of Thermal Expansion (CTE) of different materials. Therefore, the core material affects the thermal behavior of ATI TSV. In this paper, we continued the study by investigating the thermal stress of ATI TSV with different core materials as Cu and Solder. A numerical model of ATI TSV was established based on the fabricated samples with different core material. The thermal stress with different metal core materials was simulated and analyzed by varying the temperature from 25 °C to 125 °C and -55 °C. The simulation results showed a similar stress distribution for ATI TSVs with two core materials. And the thermal stress variation profiles near the device area were also analyzed. Although the ATI TSV with Solder core showed lower stress in the core area, and higher stress in the Si ring layer, the stress outside Si ring is at the same level for ATI TSV with two core materials. The Si ring with high Young's modulus and low CTE value blocked the effect of the different core material of ATI TSV on thermal stress inside the Si ring and maintained the stress in Si substrate at the same level.
Verkalkungen nach Tylektomie und Bestrahlung wegen Mammakarzinom (1985)

In several institutions lumpectomy combined with radiation treatment is being investigated as an alternative method in the primary management of breast cancer (1-5). In 8 of 53 patients, who had undergone this treatment, new calcifications developed after therapy. In 2 of the 53 patients postoperatively persisting calcifications were encountered. The authors report about their preliminary experience in the diagnosis of calcifications after this therapy.
An improved fuzzy c-means algorithm for brain MRI image segmentation (2016)

Segmentation of brain magnetic resonance imaging (MRI) data plays an important role in the computer-aided diagnosis and neuroscience research. Fuzzy c-means (FCM) clustering algorithm is one of the most usually used techniques for brain MRI image segmentation because of its fuzzy nature. However, the conventional FCM method fails to carry out segmentation well enough due to intensity inhomogeneity in MRI data. To overcome this issue, we propose an improved algorithm based on FCM clustering for segmentation of brain MRI data. Specifically, we modify the conventional FCM algorithm to allow for intensity inhomogeneity by introducing the regularization of the neighborhood influence and bias field. Results show that our proposed algorithm obtains reasonable segmentation of white matter (WM), gray matter (GM), and cerebrospinal fluid (CSF) from MRI data, which is superior to the expectation-maximization (EM) and conventional FCM methods.
Quantifying receptor density in vivo using a dual probe approach with fluorescence molecular imaging (2011)

Molecular imaging technologies are advancing rapidly and optical techniques in particular are set to play a large role in preclinical pharmaceutical testing. These approaches, however, are generally unable to quantify the level of expression of imaging probe reporters. In this study a novel method of quantification is presented using dual-probe fluorescence imaging, where an endothelial growth factor receptor (EGFR) fluorescent probe was paired with a non-targeted probe before being injected, and tracer kinetic compartmental modeling was used to determine EGFR expression in a region of interest from the uptake curves of the two drugs in that region. The approach was tested out in a simulation experiment and then applied in an <i>in vivo</i> study in one mouse to investigate EGFR expression in various tissue types (pancreas, pancreas tumor, and leg). The binding potentials (a unitless correlate of target availability) of EGFR expression in the various tissue types were 8.57, 25.64, and 0.11 for the pancreas, pancreas tumor, respectively. For the pancreas and leg, these results correlate well with expected levels of EGFR expression, with the pancreas demonstrating a much higher expression than the skin and also as expected, the tumor expressed much more EGFR than either healthy tissue.
Applications of hybrid system identification in computer vision (2007)

In this expository paper we illustrate the use of filtering and identification-theoretic techniques in a number of problems in computer vision. We first demonstrate how linear system identification techniques combined with distances for linear systems can be used for modeling, synthesis, classification and recognition of dynamic textures and human gaits. We then show how hybrid system identification techniques can be used for segmentation of dynamic textures. We also highlight some open problems in system identification that are motivated by extensions of the research described in this paper.
Preliminary crystallographic investigations of two phycobiliproteins. (1977)

Single crystal x-ray diffraction investigations are in progress on two phycobiliproteins. C-phycocyanin from Anabaena variabilis crystallizes in space group P63 with a = b = 154 A and c = 40 A. The crystallographic asymmetric unit is (alphabeta)2 with a total molecular mass of 7.0-10(4) daltons. B-phycoerythrin from Porphyridium cruentum crystallizes in space group R3 with a = b = 189 A and c = 60 A. This molecule has the unusual molecular stoichiometry (alphabeta)6gamma and the crystallographic asymmetric unit is (alphabeta)2gamma1/3. This requires that the gamma chain undergo a perfect 3-fold disordering about the crystallographic 3 axis, i.e. the gamma chain must occupy three symmetry-equivalent positions, each with an occupancy of one-third.
E3 ubiquitin ligase Mindbomb 1 facilitates nuclear delivery of adenovirus genomes (2020)

The journey from plasma membrane to nuclear pore is a critical step in the lifecycle of DNA viruses, many of which must successfully deposit their genomes into the nucleus for replication. Viral capsids navigate this vast distance through the coordinated hijacking of a number of cellular host factors, many of which remain unknown. We performed a gene-trap screen in haploid cells to identify host factors for adenovirus (AdV), a DNA virus that can cause severe respiratory illness in immune-compromised individuals. This work identified Mindbomb 1 (MIB1), an E3 ubiquitin ligase involved in neurodevelopment, as critical for AdV infectivity. In the absence of MIB1, we observed that viral capsids successfully traffic to the proximity of the nucleus but ultimately fail to deposit their genomes within. The capacity of MIB1 to promote AdV infection was dependent on its ubiquitination activity, suggesting that MIB1 may mediate proteasomal degradation of one or more negative regulators of AdV infection. Employing complementary proteomic approaches to characterize proteins proximal to MIB1 upon AdV infection and differentially ubiquitinated in the presence or absence of MIB1, we observed an intersection between MIB1 and ribonucleoproteins (RNPs) largely unexplored in mammalian cells. This work uncovers yet another way that viruses utilize host cell machinery for their own replication, highlighting a potential target for therapeutic interventions that counter AdV infection.
The specific binding of estrogens and androgens to the nuclear matrix of sex hormone responsive tissues. (1980)

Specific sex steroid hormone binding sites have been identified in a discrete nuclear subfraction that is chromatin-depleted and salt-insoluble. This structure, referred to as the nuclear matrix, contains a residual pore complex-lamina, remnants of an internal network, and a residual nucleolus. The nuclear matrix of an estrogen-responsive tissue (chicken liver) and of an androgen target tissue (rat ventral prostate) contains binding sites for estradiol and dihydrotestosterone, respectively. The binding of steroids to these sites is saturable, high affinity (Kd approximately 10(-9) M), steroid-specific (liver binds estrogens, prostate binds androgens), and heat- and pronase-sensitive. The levels of these matrix-associated steroid binding sites change in response to manipulation of the hormonal status of the animal. Thus, the liver nuclear matrix of laying hens contains a significant number of estradiol binding sites, whereas that of untreated chicks or roosters contains very few sites. Treatment of chicks or roosters with a dose of estrogen that stimulates the liver to synthesize vitellogenin leads to a marked increase in the number of estradiol binding sites associated with the liver nuclear matrix. In the rat ventral prostate, the nuclear matrix-associated binding sites for dihydrotestosterone that are present in intact adults essentially disappear within 24 h after castration. Androgen replacement therapy restores, within 1 h, the number of matrix binding sites for dihydrotestosterone to normal levels. Inhibitors of proteolysis (phenylmethylsulfonyl fluoride) are essential for the protection of these androgen binding sites. Conditions that lead to the solubilization of the internal network material of the nuclear matrix also result in the extraction of 70 to 85% of the specific dihydrotestosterone binding sites from the matrix; a limited number of binding sites still remain associated with the peripheral lamina.
Reply to Fiscella: The phases of biomedical research should be studied to optimize health outcomes (2015)

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.
Integrated-Phased-Array-Based Visible-Light Near-Eye Holographic Projector (2019)

An integrated-phased-array-based visible-light holographic projector is proposed as a scalable solution towards the next generation of augmented-reality head-mounted displays. A passive pixel-based architecture is developed and projection of a wire-frame cube is experimentally demonstrated.
ChemInform Abstract: A New Method for the Preparation of Ifosfamide and Cyclophosphamide. (1997)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.