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Dataset results
23 results for “active probing”
Parker Solar Probe Filtered Ion Scale Wave Activity for Encounters 8 to 16
<p>The following datasets are the result of filtering algorithm applied to a wave analysis of Parker Solar Probe data from Encounters 8 to 16. The wave analysis was conducted by Kristoff Paulson using a Short-Time Fourier Transform (STFT) approach based on polarization techniques derived by Means, 1972 (DOI: <a href="http://doi.org/10.1029/JA077i028p05551">10.1029/JA077i028p055511135</a>). Included is a jupyter notebook containing the filtering algorithm, the results of the filtering, and a demonstration of how to best open the files. The dataset for each encounter contains 9 columns that correspond with:</p> <ol> <li>Date in CDF epoch</li> <li>Left-handed (LH) Integrated Wave Power (nT^2) where integration is over frequency space (0-32 Hz) of filtered activity</li> <li>Right-handed (RH) Integrated Wave Power (nT^2)</li> <li>LH median ellipticity where median is over frequency space</li> <li>RH median ellipticity</li> <li>LH median coherency</li> <li>RH median coherency</li> <li>LH median wave normal angle (deg)</li> <li>RH median wave normal angle (deg)</li> </ol> <p>In all cases, ellipticity is measured in the Parker Solar Probe spacecraft frame. Ellipticity measures the ellipticity of the polarization ellipse and takes on values between -1 and 1. Values of 1 correspond with RH circular polarization and -1 with LH circular polarization. Coherency takes on values between 0 and 1. It measures how interrelated fluctuations are where 0 represents noise and 1 represents coherent fluctuations. The wave normal angle is the angle between the wave vector, k, and the local mean magnetic field, B. Since there are inherent ambiguities in the direction of the wave vector for single spacecraft measurements, the wave normal angle is calculated such that it takes on angles from 0 to 90 degrees. The filtering algorithm selects activity in which coherency is above 0.8, absolute value of ellipticity is above 0.5, and wave normal angle is below 45 degrees such that coherent, circularly polarized, near parallel propagating wave activity on ion scales is selected. <strong>If wave power for a given time has value of 0.0, then no fluctuations in the magnetic field data passed the required filters at that time.</strong></p> <p>:</p>
Use of A Molecular Switch Probe to Activate or Inhibit GIRK1 Heteromers In Silico Reveals a Novel Gating Mechanism
<p>GIRK channel structure models (PDB structure files) used for Molecular Dynamics simulations.</p>
Lipid-polymer nanoparticles to probe the native-like environment of intra-membrane rhomboid protease GlpG and its activity
<p><span>Polymers can facilitate detergent-free extraction of membrane proteins into nanodiscs (e.g., SMALPs, DIBMALPs), incorporating both integral membrane proteins as well as co-extracted native membrane lipids. Lipid-only SMALPs and DIBMALPs have been shown to possess a unique property; the ability to exchange lipids through ‘collisional lipid mixing’<em>.</em> Here we expand upon this mixing to include protein-containing DIBMALPs, using the rhomboid protease GlpG. Through lipidomic analysis before and after incubation with DMPC or POPC DIBMALPs, we show that lipids are rapidly exchanged between protein and lipid-only DIBMALPs, and can be used to identify bound or associated lipids through ‘washing-in’ exogenous lipids. Additionally, through the requirement of rhomboid proteases to cleave intra-membrane substrates, we show that this mixing can be performed for two protein-containing DIBMALP populations, assessing the native function of intramembrane proteolysis and demonstrating that this mixing has no deleterious effects on protein stability or structure</span></p>
A Miniature Shielded-loop Active H-field Probe Design for Near-field Measurement
<p>In the "A Miniature Shielded-loop Active H-field Probe Design for Near-field Measurement", this includes all the figures.</p>
Data and code from "Full bandwidth electrophysiology of seizures and epileptiform activity enabled by flexible graphene micro-transistor depth neural probes"
<p>Data and python code for reproducing the main results of the paper "Full bandwidth electrophysiology of seizures and epileptiform activity enabled by flexible graphene micro-transistor depth neural probes."</p>
Probing the effect of cadence on the estimates of photospheric energy and helicity injections in eruptive active region NOAA AR 11158 – movies of the data series
<p>This dataset contains movies of all photospheric data series used in the article Lumme et al. (2019) “Probing the effect of cadence on the estimates of photospheric energy and helicity injections in eruptive active region NOAA AR 11158”, submitted. Movies track the evolution of several photospheric quantities in the NOAA active region 11158 from the emergence of the active region well beyond the time of the strongest eruptive activity in the region.</p> <p>The tracked quantities include: magnetic, plasma velocity and electric fields, as well as the vertical component of the Poynting vector and the relative helicity flux density. All quantities are given in several spatial and temporal resolutions: the cadences range from 2.25 minutes to 24 hours, and the spatial resolution is either the maximum resolution of the SDO/HMI instrument (0.03 deg in heliographic coordinates, 364 km on the Sun) or 15 times lower (0.45 deg, 5470 km). Since Lumme et al. (2019) employs three electric field inversion methods, PDFI, raw DAVE4VM and inductive DAVE4VM methods, there are three versions of the electric field maps as well as the derivative quantities Poynting and helicity fluxes for each cadence and spatial resolution.</p> <p>All series, except for the magnetic field and LOS plasma velocity series, are plotted only at the central strong field parts of the active region. The temporal extent of the series used in the paper is Feb 10 14:00 – Feb 17 00:00, 2011. However, some of the movies span only the the most interesting part of the evolution Feb 13 00:00 onward, after which the active region started to exhibit strong flux emergence and energy and helicity fluxes.</p> <p>All movie files in the dataset are given using the following naming convention: “{quantity}_{method}_{cadence}_{res_info}.avi”, where “quantity” specifies the plotted quantity (e.g. horizontal electric field “Eh”), “method” specifies the method used to derive the quantity (e.g., “PDFI” for electric field; if empty, no method is specified), “cadence” specifies the cadence of the data either in minutes or hours (e.g. “2.25_min” or “12_h”), and “res_info” specifies the spatial resolution (if empty then, the data is given in full resolution, otherwise “res_info” is “rebin_15x” corresponding to the 15 lower spatial resolution).</p> <p> Movies of the following data series are included for all cadences and spatial resolutions.:<br> - All three components of the photospheric magnetic field “(Bx,By,Bz)” in a Cartesian basis where the solar surface is approximated flat via Mercator projection, as well as the vertical component of the magnetic field “Bz” and the LOS component of the plasma velocity “Vlos” (i.e. Dopplergram velocity) in the same system (note that the unlike in the usual convention, the LOS plasma velocity is negative for motions away from the observer). These data series are given only for two cadences 2.25- and 12-minutes in full spatial resolution, since rest of the cadences are created by sampling the 2.25-minute data. Data in the 15 times lower spatial resolution are given only at a cadence of 2.025 hours, as it is the highest cadence for which the 15 times lower resolution was used (see Lumme et al., 2019 for details).<br> - Horizontal photospheric plasma velocity "Vh = (Vx,Vy)" estimates derived using two optical flow methods FLCT (Fourier Local Correlation Tracking) and DAVE4VM (Differential Affine Velocity Estimator For Vector Magnetograms) plotted as arrows above the Bz component of the magnetic field.<br> - Horizontal photospheric electric field “Eh = (Ex,Ey)” estimates derived using three methods, PDFI, raw DAVE4VM and the inductive DAVE4VM method, plotted as arrows above the Bz component of the magnetic field.<br> - Vertical component of the Poynting vector “Sz” derived for each electric field estimate.<br> - Photospheric relative helicity flux density (denoted by “dHR/dt”) derived for each electric field estimate.</p> <p>January 16, 2019<br> Erkka Lumme<br> Doctoral student, MSc<br> Department of Physics<br> erkka.lumme@helsinki.fi<br> P.O. Box 68<br> FI-00014 University of Helsinki</p>
Fig. 6. S491A in Probing of the plasticity of the active site in pinene synthase elucidates its potential evolutionary mechanism
Fig. 6. S491A mutation increases the rigidity of the active pocket when it binds the pinyl cation. RMSD values of the active site residues between WT and S491A in complex with the pinyl cation (a), terpinyl cation (b) and thujyl cation (c) are compared.
Fig. 5 in Probing of the plasticity of the active site in pinene synthase elucidates its potential evolutionary mechanism
Fig. 5. The effect of the S491A mutation. Chromatograms in a, b and c show the GC-MS analysis of terpene production for S491A, F482A/S491A, and F482I/S491A, respectively. The x-axis is the retention time and the y-axis is the relative abundance of each species. The numbers in each peak correspond to α-pinene (1), sabinene (2) and limonene (3). d shows the overall activity and the percentage of sabinene within total products produced by F482A, F482A/S491A, F482I and F482I/S491A. The asterisk indicates P <0.05.
Fig. 4 in Probing of the plasticity of the active site in pinene synthase elucidates its potential evolutionary mechanism
Fig. 4. Conformational differences in the pinyl cation in WT and F482Y as demonstrated by molecular dynamics simulation. The structures of WT and F482Y are superimposed. Results after 0, 1 and 2 ns of simulation are shown in a, d and c, respectively. Carbon in WT is colored in yellow and carbon in F482Y is colored in green. Oxygen is colored in red. Nitrogen is colored in blue. (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)
Fig. 2 in Probing of the plasticity of the active site in pinene synthase elucidates its potential evolutionary mechanism
Fig. 2. Converting pinene synthase to sabinene synthase by mutations on 482 position. Chromatograms in a, b, c, d and e show the GC-MS analysis of terpene products for WT, F482A, F482I, F482V and F482T, respectively. The x-axis is the retention time and the y-axis is the relative abundance of each species. The numbers in each peak correspond to α-pinene (1), sabinene (2) and limonene (3).
Fig. 3 in Probing of the plasticity of the active site in pinene synthase elucidates its potential evolutionary mechanism
Fig. 3. Hybrid quadrupole-orbitrap GC-MS/MS. a shows the chromatogram of terpene products of F482L. The elution peak corresponding to sabinene is labeled. The mass spectrum of the product eluted at 9.29 min from a is shown in b. The mass spectrum of the standard sabinene is shown in c.
Fig. 1. a in Probing of the plasticity of the active site in pinene synthase elucidates its potential evolutionary mechanism
Fig. 1. a, The proposed reaction mechanism for the synthesis of limonene, pinene and sabinene. b, The structural model of pinene synthase docked with the terpinyl (left), pinyl (middle) and thujyl (right) cations. Carbocations are colored in magenta (terpinyl), wheat (pinyl) and cyan (thujyl). Other atoms are colored according to their types (red: oxygen; yellow: carbon; blue: nitrogen; orange: phosphorus; green: magnesium). (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)
Fig. 7 in Probing of the plasticity of the active site in pinene synthase elucidates its potential evolutionary mechanism
Fig. 7. The RMSD profiles of the region with high (RMSD H) and low (RMSD L) mobility from the simulation of WT (a), S491A (b) and F482/S491A (c) in complex with the pinyl cation.
A Study to Evaluate the Accuracy of a Subset of the Length-109 Probe Set Panel (a Genetic Test) in Predicting Response to Golimumab in Participants With Moderately to Severely Active Ulcerative Coliti
ClinicalTrials.gov study NCT01988961. IPD Sharing: Not stated. Countries: 12. Publications: 2.
Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo
GEO Series GSE45803. Homo sapiens; Saccharomyces cerevisiae. 25 samples. Type: Other.
Defining precision probes which differentiate between the activity of type I and type II interferons.
GEO Series GSE41291. Homo sapiens. 36 samples. Type: Expression profiling by array.
A database of detected EMIC wave activity using Van Allen Probe B magnetometer data
<p>This is a catalog of EMIC wave activity detected by the Van Allen Probe B satellite, using the high resolution magnetometer dataset. This catalog covers the time period 2013 January 1 to 2019 July 15. </p>
Exploratory Clinical Study of Neutrophil Activation Probe (NAP) for Optical Molecular Imaging in Human Lungs
ClinicalTrials.gov study NCT01532024. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Sensing Using Neutrophil Activation Probe on the Intensive Therapy Unit
ClinicalTrials.gov study NCT02804854. IPD Sharing: Not stated. Countries: 1. Publications: 0.
An Open-label Drug-Drug Interaction Study to Evaluate the Effect of BCX7353 on Cytochrome P450 Enzyme Activity Using Probe Substrates
ClinicalTrials.gov study NCT02819102. IPD Sharing: Not stated. Countries: 1. Publications: 0.
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International Brain Laboratory public data
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OpenNeuro
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