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4,301 results for “alpha”
Alpha-2 Adrenoreceptor Antagonist Yohimbine Potentiates Consolidation of Conditioned Fear (Open Data and Open Materials)
<p><strong>Open Data and Open Materials of: Sperl, M. F. J., Panitz, C., Skoluda, N., Nater, U. M., Pizzagalli, D. A., Hermann, C., & Mueller, E. M. (2022). Alpha-2 adrenoreceptor antagonist yohimbine potentiates consolidation of conditioned fear. <em>International Journal of Neuropsychopharmacology</em>, 25(9), 759–773.</strong></p> <p><em>Background:</em> Hyperconsolidation of aversive associations and poor extinction learning have been hypothesized to be crucial in the acquisition of pathological fear. Previous animal and human research points to the potential role of the catecholaminergic system, particularly noradrenaline and dopamine, in acquiring emotional memories. Here, we investigated in a between-participants design with 3 groups whether the noradrenergic alpha-2 adrenoreceptor antagonist yohimbine and the dopaminergic D2-receptor antagonist sulpiride modulate long-term fear conditioning and extinction in humans.<br><em>Methods:</em> Fifty-five healthy male students were recruited. The final sample consisted of n = 51 participants who were explicitly aware of the contingencies between conditioned stimuli (CS) and unconditioned stimuli after fear acquisition. The participants were then randomly assigned to 1 of the 3 groups and received either yohimbine (10 mg, n = 17), sulpiride (200 mg, n = 16), or placebo (n = 18) between fear acquisition and extinction. Recall of conditioned (non-extinguished CS+ vs CS−) and extinguished fear (extinguished CS+ vs CS−) was assessed 1 day later, and a 64-channel electroencephalogram was recorded.<br><em>Results:</em> The yohimbine group showed increased salivary alpha-amylase activity, confirming a successful manipulation of central noradrenergic release. Elevated fear-conditioned bradycardia and larger differential amplitudes of the N170 and late positive potential components in the event-related brain potential indicated that yohimbine treatment (compared with a placebo and sulpiride) enhanced fear recall during day 2.<br><em>Conclusions:</em> These results suggest that yohimbine potentiates cardiac and central electrophysiological signatures of fear memory consolidation. They thereby elucidate the key role of noradrenaline in strengthening the consolidation of conditioned fear associations, which may be a key mechanism in the etiology of fear-related disorders.</p>
Pressure and chemical substituion in the Kitaev magnet alpha-RuCl3
<p>These dataset is the result of investigation of the effect of pressure and chemical substituion in the Kitaev magnet alpha-RuCl3.<br> <br> These data corresponds to the experimental results discussed in the open access publications: https://doi.org/10.1103/PhysRevB.97.241108 and https://doi.org/10.1103/PhysRevB.99.214410.<br> <br> Every odd column contains temperature values. Every even column contains the physical quantity (magnetization or specific heat depending on the title of the files) measured at the temperature indicated in the previous column under the conditions described in the third line of the column. These conditions can be pressure or composition change as indicated in the title of the file.<br> Physical units used are Kelvin, emu/mol/Oe and J/mol/K for temperature, magnetization and specific heat respectively as indicated in the second line of the table.</p>
Diffraction images used to solve the structures published in the article "Exploration of Strategies for Mechanism-Based Inhibitor Design for Family GH99 endo-alpha-1,2-Mannanases."
<p>Raw diffraction images used for generating the structures published in the article "Exploration of Strategies for Mechanism-Based Inhibitor Design for Family GH99 endo-a-1,2-Mannanases" (available <a href="https://doi.org/10.1002/chem.201800435">here</a>). Full single-crystal datasets are published. The software used for the processing of each dataset is listed in their respective PDB entries.</p> <p> </p> <p>If you find this useful, please contact me at <a href="mailto:lukasz.sobala@hirszfeld.pl">lukasz.sobala@hirszfeld.pl</a>, I am just interested in how these data are used!</p>
Alpha-Galactosaminidase family GH114 protein from Fusarium solani: X-ray diffraction images
<p>This submission includes h5-files with diffraction images recorded using the Dectris EIGER X 16M detector at the DIAMOND beamline I04. The model of the crystal structure and associated information can be found in the Protein Data Bank entry 9EP6. The model has P 31 2 1 symmetry and three molecules per asymmetric unit. This is a case of crystal pathology – partial disorder. There is electron density for the fourth molecule which could be modelled with occupancy 1/2 and would overlap with a symmetry-related molecule.</p>
Supplemental data for characterization of alpha and beta interactions using the HeXe setup [Eur. Phys. J. C 82, 361]
<p>Repository with supplemental data to:<br> <strong>Characterization of alpha and beta interactions in liquid xenon</strong>. Jörg, F., Cichon, D., Eurin, G. <em>et al. Eur. Phys. J. C</em> <strong>82, </strong>361 (2022) <a href="https://doi.org/10.1140/epjc/s10052-022-10259-3">10.1140/epjc/s10052-022-10259-3</a><br> A pre-print of the article is available <em>on arXiv: </em><a href="http://arxiv.org/abs/2109.13735">2109.13735</a></p> <p><strong>Note: </strong>When re-using the data, please make sure to cite the article (and not only the dataset)</p> <p><br> The files contain the measured data points (as well as their statistical and systematic uncertainties) as shown in the publication.<br> All datasets are stored in the .csv format.</p> <ul> <li><strong>20210924_yields_hexe_kr83m.csv</strong><br> This file contains the normalized light and charge yields as a function of the applied field from the measurement with the <sup>83m</sup>Kr source. The data is shown in Figure 16 (dots) of the publication. Furthermore the file contains the LY ratio between the two Isomeric transitions of the <sup>83m</sup>Kr source, shown in Figure 17 of the article.</li> <li><strong>20210924_yields_hexe_rn222.csv</strong><br> This file contains the normalized light and charge yields as a function of the applied field from the measurement with the <sup>222</sup>Rn source. The data is shown in Figure 18 (blue-ish points) of the publication</li> <li><strong>20210924_drift_velocity_hexe_rn222.csv</strong><br> This file contains the measured electron drift velocity in liquid xenon at a temperature of 174.4 K in dependence of the field. The data was acquired using the <sup>222</sup>Rn source. Drift velocity is given in units of mm/µs and the datapoints are shown in Figure 20 (black dots) of the publication </li> <li><strong>20210924_drift_velocity_hexe_kr83m.csv</strong><br> This file contains the measured electron drift velocity in liquid xenon at a temperature of 174.4 K in dependence of the field. The data was acquired using the <sup>83m</sup>Kr source. Drift velocity is given in units of mm/µs and are not displayed in the publications due to visibility reasons.</li> </ul> <p><strong>Minimum working example to plot the drift velocity using the <sup>83m</sup>Kr data:</strong></p> <pre><code class="language-python"> 1 import numpy as np 2 import matplotlib.pyplot as plt 3 4 # load the data set 5 data = np.loadtxt("20220427_drift_velocity_hexe_kr83m.csv", delimiter=",") 6 7 # Plot the systematic uncertainty on the drift field 8 plt.errorbar(data[:,0], data[:,2], xerr=data[:,1], fmt="o", capsize=2, ecolor="darkgray", 9 alpha=0.7, elinewidth=3, color="black") 10 11 # Plot the actual data points 12 plt.errorbar(data[:,0], data[:,2], yerr=data[:,3], fmt="o", color="black") 13 14 # Label the axis and define the range 15 plt.ylabel("Drift Velocity [mm/µs]") 16 plt.xlabel("Drift Field [kV/cm]") 17 plt.xscale("log") 18 plt.xlim(0.006, 2) 19 plt.ylim(0, 2.4) 20 plt.show() </code></pre> <p> </p>
Molecular mechanism for the synchronized electrostatic coacervation and co-aggregation of alpha-synuclein and tau
<p><strong><em>The following metadata refers exclusively to electron paramagnetic resonance (EPR) measurements, which represent the contribution of the PARACAT students to this work</em></strong></p> <ul> <li><strong>Data type</strong>: EPR spectroscopic measurements and simulations</li> <li>Files are in <strong>.DTA, .DSC, .m, .mat, and .xlxs, </strong>formats</li> <li>Information on <strong>origin of the data</strong>: <ul> <li>EPR spectroscopic measurements in <strong>.DTA </strong>and<strong> .DSC</strong> formats</li> <li>EPR spectroscopic simulation and analyses in .<strong>m </strong>and<strong> .mat</strong> format</li> <li>“Ready-to-plot”, processed EPR spectra are in <strong>.xlxs</strong> format.</li> </ul> </li> <li>The data are <strong>generated</strong> by: <ul> <li>CW-EPR measurements were performed with a Bruker ELEXSYS E580 X-band spectrometer equipped with a Bruker ER4118 SPT-N1 resonator operating at a microwave (MW) frequency of ∼9.7 GHz. The temperature was set to 25 °C and controlled by a liquid nitrogen cryostat.</li> </ul> </li> </ul> <p> </p> <ul> <li><strong>If the dataset includes multiple files that relate to each other:</strong> <ul> <li>Files in <strong>PARACAT_WP3_20221219_EPR </strong>folder includes EPR spectroscopic measurements and computer simulations/analyses, original data are in <strong> .DTA/.DSC</strong> formats; files in .<strong>m</strong> format were used to process the data.</li> </ul> </li> </ul> <p>NB. See the “READ ME” text file for more detailed information on files organization.</p> <p> </p> <ul> <li><strong>Information on</strong>: <ul> <li>Abbreviations: <ul> <li><strong>avg</strong> = averaged</li> <li><strong>aS_24</strong> = alpha-synuclein protein with TEMPOL spin label at position 24 of the polypeptidic chain</li> <li><strong>aS_122</strong> = alpha-synuclein protein with TEMPOL spin label at position 122 of the polypeptidic chain</li> <li><strong>pLK</strong> = poly-lysine</li> <li><strong>Tau441</strong> = Tau protein with complete amino-acid sequence</li> <li><strong>Tau_DNt</strong> = truncated Tau protein lacking N-terminal (see paper methods for further details)</li> </ul> </li> <li>Units of measurement: <ul> <li>Temperature: <strong>°</strong><strong>C</strong> (Celsius)</li> <li>Microwave Frequency: <strong>GHz</strong> (Giga-Hertz), <strong>MHz</strong> (Mega-Hertz), <strong>kHz</strong> (kilo-Hertz)</li> <li>Microwave Power: <strong>mW</strong> (milli-Watt)</li> <li>Magnetic Field: <strong>mT</strong> (milli-Tesla)</li> <li>Time: <strong>s</strong> (seconds)</li> <li>Concentration: <strong>μM</strong> (micro-Molar), <strong>% w/v</strong> (percentage weight-volume)</li> </ul> </li> </ul> </li> </ul>
Wood alpha-cellulose stable C and O isotope ratios from New Hampshire and Vermont
To quantify the effects of tree height and canopy position on delta13C and delta18O of wood cellulose, we sampled 399 trees and saplings of eight species at nine forest stands across New Hampshire and Vermont, along with nearby saplings growing in the open. Samples were collected in 2017-18, and we analyzed the combined alpha-cellulose from growth rings formed in 2013-2017 for each tree. Carbon data are published in: Vadeboncoeur, M., K. Jennings, A. Ouimette, and H. Asbjornsen. (2020) Correcting tree-ring d13C time series for tree-size effects in eight temperate tree species. Tree Physiology. https://doi.org/10.1093/treephys/tpz138
Human Dolichyl-Phosphate Alpha-N-Acetyl glucosaminyl transferase (DPAGT1); A Target Enabling Package
<p>The ER integral membrane enzyme dolichyl-phosphate alpha-N-acetyl glucosaminyl phosphotransferase (DPAGT1) catalyses the first step in the synthesis of the oligosaccharide-P-P-dolichol unit which provides the glycans structure for N-glycosylation of proteins. Mutations in DPAGT1 cause two muscle weakness conditions, limb-girdle congenital myasthenic syndrome (CMS) and congenital disorder of glycosylation type 1j (CDG1j). DPAGT1 overexpression has also been implicated in oral cancer. We have produced and solved structures of this integral membrane enzyme, DPAGT1 with the V264G mutation found in a patient with CMS, and complexes with a 50 nM inhibitor, tunicamycin. We have developed enzymatic activity and thermostability assays which have allowed us to assess the activity and stability of DPAGT1 mutants and the effect of small molecules. There are > 20 DPAGT1 associated missense variants in patients with CMS and CDG1j. We have mapped these mutations to the structure, and we will used the assays described here to assess how the activity and stability of DPAGT1 is affected by these missense variants.</p>
Genomes and full-length 16S reference sequences for 27 Alpha- and Gamma-Proteobacterial isolates from Red Sea Acropora corals
<p>Coral-associated bacteria contribute to the biology of their host, but the underlying molecular interactions are largely unknown. To further our functional understanding, we obtained 27 alpha- and gamma-proteobacterial isolates, many of which are Rhodobacteraceae, from three coral species of the genus <em>Acropora </em>and assembled/annotated their genomes as a resource for further functional studies. Our results reveal the immense taxonomic and genetic diversity of common alpha- and gamma-proteobacterial coral-associated bacteria. We hope these data provide a framework to study the function of specific bacteria in the coral holobiont. Isolates are available upon request.</p>
Lyman-alpha forest simulations used for the measurement of the smoothing scale of the intergalactic medium
<p>This repository contains data from the hydrodynamic and dark-matter simulations used in Rorai et al.2017 to measure the pressure smoothing scale of the intergalactic medium (IGM) using the lyman alpha forest from close quasar pairs. </p> <p>The data includes :</p> <p>synthetic spectra (at z~2,2.4,3,3.6) of the transmitted lya flux from a grid of hydrodynamic model of the IGM assuming various thermal and reionization histories;</p> <p>Velocity and density sight lines from a dark matter simulation (at the same redshifts), with different values of the smoothing parameters, which can be used to calculate the lyman alpha flux for the desired values of the thermal parameters (as well as of the mean flux);</p> <p>More information can be found in the README file</p> <p> </p>
Data for "Formation of very large 'blocky alpha' grains in Zircaloy-4" by V. Tong and T.B. Britton published in Acta Materialia (2017)
<p>Data for "Formation of very large ‘blocky alpha’ grains in Zircaloy-4"</p> <p>Vivian S Tong, T Ben Britton<br> Department of Materials, Imperial College London, Prince Consort Road, London, SW7 2AZ, UK</p> <p>For more information please contact: b.britton@imperial.ac.uk (Ben Britton)</p> <p>---</p> <p>Figures_data.xlsx contains the data for line graphs in the following figures on separate labelled sheets:<br> Figure 2(a)<br> Figure 2(b)<br> Figure 4(c)<br> Figure 6.</p> <p>Figures_data.xlsx also contains the HR-EBSD GND density data in Figures 3(b) and 3(d), which have been plotted on a log10 colour scale in the published figure.</p> <p>The EBSD orientation data have been exported as text files (.ctf) directly from Bruker Esprit 2.1 software.</p> <p>Orientations are described using Bruker EBSD software conventions, described in the paper "Tutorial: Crystal orientations and EBSD — Or which way is up?" by Britton et al.(http://dx.doi.org/10.1016/j.matchar.2016.04.008).</p> <p><br> EBSD data is provided for the following figures:<br> Figure 3(a)<br> Figure 3(c)<br> Figure 4(b), Figure 5(c), Figure 7(c) -- these are all the same dataset<br> Figure 5(b)<br> Figure 6 - EBSD maps of these two datsets were not shown, but this is the raw data from which twin fractions were calculated.<br> Figure 7(a)<br> Figure 7(b)</p>
Neither alpha-synuclein-preformed fibrils derived from patients with GBA1 mutations nor the host murine genotype significantly influence seeding efficacy in the mouse olfactory bulb
<p>Data sets for;</p> <p>Neither alpha-synuclein-preformed fibrils derived from patients with <em>GBA1</em> mutations nor the host murine genotype significantly influence seeding efficacy in the mouse olfactory bulb</p>
Alpha-Galactosaminidase family GH191 protein from Environmental sample (99.2% identity to Myxococcus fulvus enzyme): X-ray diffraction images
<p><span>This submission includes a zip archive of diffraction images recorded with the Dectris EIGER X 9M detector at the DIAMOND beamline I04-1. The model of the crystal structure and associated information can be found in the Protein Data Bank entry 9EP5. This is a case of crystal pathology – partial disorder. The model has C 2 2 21 symmetry and two molecules per asymmetric unit with occupancies 1 and 1/3. The molecule with partial occupancy overlaps with a symmetry related molecule.</span></p>
Control T-cell receptor (TCR) alpha and beta chain nucleotide and amino acid sequences from human and mouse
<p>A dataset of pooled T-cell receptor (TCR) sequences for TCR alpha and beta chains of human and mouse.</p> <p>Sequences are obtained from various samples of healthy individuals/mice using our conventional protocols: see for example [Britanova et al "Dynamics of individual T cell repertoires: from cord blood to centenarians" The Journal of Immunology 2016] and [Izraelson et al. "Comparative analysis of murine T‐cell receptor repertoires." Immunology 2018].</p> <p>The sequences are stored as gzipped clonotype tables in VDJtools format, see [https://vdjtools-doc.readthedocs.io/en/master/input.html#vdjtools-format].</p> <p>This control dataset can be used as a proxy for a generative VDJ rearrangement model to estimate the expected frequency distribution of TCRs and check for enrichment of rare TCR clonotypes and groups of similar TCR sequences. For the implementation of the enrichment analysis, please see CalcDegreeStats routine from VDJtools software, see [https://vdjtools-doc.readthedocs.io/en/master/annotate.html#calcdegreestats].</p> <p>Files named "human.tra.strict.txt.gz", etc are pools of random/naive TCR clonotypes containing unique V/J/CDR3 nucleotide sequence combinations observed in data. The pools.zip file is used for TCR motif inference in VDJdb database [https://github.com/antigenomics/vdjdb-motifs], it contains human.tra.aa.txt, etc files that contain random/naive TCR clonotypes grouped by CDR3 amino acid sequence with the most frequent representative V and J.</p>
EBSD Dataset of the Alpha and Beta Phase Orientations for a Hot-Rolled Zr-2.5Nb Alloy
<p>A set of ex-situ electron backscatter diffraction (EBSD) datafiles following rolling of a Zr-2.5Nb alloy at different temperatures (700C, 750C, 775C, 800C, 825C, 850C, 900C) and rolling reductions (50%, 75%, 87.5%). Data for annealing of the material (750C for 2 hours) and following rolling at 800C from a different ‘as-forged’ starting texture is also included. Note, phases in the ctf files marked as Titanium Cubic refer to measurement of the Zirconium Cubic phase. </p> <p>The data in the 'Beta ctf' folder includes a reconstruction of the high temperature beta-phase orientations where possible, reconstructed from the alpha phase orientations using a software based on the Burgers relationship.</p> <p>Please see the accompanying paper for the interpretation of crystallographic texture changes;</p> <p>C.S. Daniel, P.D. Honniball, L. Bradley, M. Preuss, J. Quinta da Fonseca, A detailed study of texture changes during alpha–beta processing of a zirconium alloy, J. Alloys Compd. 804 (2019) 65–83, <a href="https://doi.org/10.1016/j.jallcom.2019.06.338">10.1016/j.jallcom.2019.06.338</a></p>
Dataset for the Casein kinase II subunit alpha antibody screening study
<p><strong>This antibody characterization dataset is related to the F1000 research article openly available at F1000Research.</strong></p> <p><em>This project contains the following underlying data included in a study aiming at characterizing ten antibodies for Casein kinase II subunit alpha protein. The study is available on Zenodo (<a href="https://doi.org/10.5281/zenodo.10818214">https://doi.org/10.5281/zenodo.10818214</a>). </em></p> <p><em>The Dataset is in the format of a zip file. Once downloaded, please expand the zip file to access the folders containing the underlying data for Western blot (Wb), immunoprecipitation (IP) and immunofluorescence (IF).</em></p>
Dautan et al 2024 " Gut-Initiated Alpha Synuclein Fibrils Drive Parkinson's Disease Phenotypes: Temporal Mapping of non-Motor Symptoms and REM Sleep Behavior Disorder"
<p><span>Parkinson’s disease (PD) is characterized by progressive motor as well as less recognized non-motor symptoms that arise often years before motor manifestation, including sleep and gastrointestinal disturbances. Despite the heavy burden on the patient’s quality of life, these non-motor manifestations are poorly understood. To elucidate the temporal dynamics of the disease, we employed a mice model involving injection of alpha-synuclein (αSyn) pre-formed fibrils (PFF) in the duodenum and antrum as a gut-brain model of Parkinsonism. Using anatomical mapping of αSyn PFF propagation and behavioral and physiological characterizations, we unveil a correlation between post-injection time the temporal dynamics of αSyn propagation and non-motor/motor manifestations of the disease. We highlight the concurrent presence of aggregates in key brain regions, expressing acetylcholine or dopamine and their functions in sleep duration, wakefulness, and particularly REM-associated atonia corresponging to REM behavioral disorder-like symptoms. This study presents a novel and in-depth exploration into the multifaceted nature of PD, unraveling the complex connections between α-synucleinopathies, gut-brain connectivity, and the emergence of non-motor phenotypes.</span></p>
CLAMATO2017: IGM Lyman-alpha Forest Tomography Survey Public Data Release of Spectra and Maps
<p><strong>CLAMATO 2017 Data Release 1 </strong></p> <p>Public release: 2017 October 9</p> <p>Uploaded to Zenodo on 2018 June 19th after acceptance for publication in ApJS</p> <p>By Khee-Gan Lee (kglee@lbl.gov) and collaborators</p> <p>Supporting paper: https://arxiv.org/abs/1710.02894</p> <p>These are data products associated with the first data release of the COSMOS Lyman-Alpha Mapping And Tomography Observations (CLAMATO) survey with the Keck-I telescope, which mapped 3D Lyman-alpha forest absorption at 2.05<z<2.55 within the COSMOS field.</p> <p>The following is the summary of the main products:<br> - Source catalog (CL2017_VALUEADDED_RELEASE_20171009.TXT)<br> - Reduced spectra, in /spec_v0/ (blue) and /spec_v0_red (red) sub-directories<br> - Continuum-fitted 2.05<z<2.55 Lyman-alpha forest pixel data (pixel_data.bin)<br> - Wiener-reconstructed 3D absorption map (map_2017_v3.bin)</p> <p>Versions:<br> v0 (not public): Initial rough extraction for 2.15<z<2.55 <br> v1 (not public): Extended redshift range to 2.05<z<2.55 <br> v2 (not public): Caught bug that caused wrong [RA,Dec] for ~4-5 objects<br> v3 (released 2017 Oct 9): Fixed bug that caused wrong aspect ratio in output map<br> v4 (released 2018 Mar 29): Fixed bug that caused negative continua in some spectra</p> <p><br> <strong>Redshift Catalog and Spectra</strong> </p> <p>We provide our redshift catalog and reduced spectra obtained with Keck-I/LRIS</p> <p>The source catalog is provided in the ASCII file CL2017_VALUEADDED_RELEASE_20171009.TXT, with the following columns:</p> <p>- BLUE_SPEC: Blue spectrum filename (in /spec_v0/ sub-directory)<br> - TOMO_ID: CLAMATO ID number<br> - GMAG: g-magnitude (AB) per Capak et al 2007 photometric catalog<br> - CONF: Redshift confidence grade: see https://arxiv.org/abs/1710.02894<br> - ZSPEC: Spectroscopic redshift as determined from CLAMATO spectrum<br> - QSO: QSO flag (1 if QSO, 0 if non-QSO)<br> - RA: R.A. in degrees (J2000)<br> - DEC: Dec in degrees (J2000)<br> - S/N_1: Estimated Lya-forest S/N at 2.05<z<2.15, -9.0 denotes no estimate<br> - S/N_2: Estimated Lya-forest S/N at 2.15<z<2.35, -9.0 denotes no estimate<br> - S/N_2: Estimated Lya-forest S/N at 2.35<z<2.55, -9.0 denotes no estimate<br> - S/N_RED: Estimated S/N over restframe 1250 ang < lambda < 1350 ang, -9.0 denotes no estimate<br> - TOMOFLAG: Flag on whether sightline was used in tomographic map (0 for no, 1 for yes)<br> - EXPTIME: Exposure time on the spectrum, in seconds (aggregate)<br> - RED_SPEC: Red spectrum filename (in /spec_v0_red/ sub-directory), 'NA' if doesn't exist</p> <p>The tarballs spec_v0.tar.gz and spec_v0_red.tar.gz include all the reduced spectra from LRIS-Blue and LRIS-Red, respectively.</p> <p>The individual LRIS spectra are provided in FITS format, with the following HDU Extensions:<br> - HDU0: Object spectral flux density, in units of 10^{-17} ergs/s/cm^2/angstrom<br> - HDU1: Noise standard deviation<br> - HDU2: Pixel Wavelengths in angstroms</p> <p><strong>Pixel Data </strong></p> <p>The binary file PIXEL_DATA_v4.BIN stores the concatenated Lyman-alpha forest pixels at 2.05<z<2.55 that have been extracted from the 1D spectra and continuum-fitted. </p> <p>The first value in the binary is a 32-bit integer specifying the number of pixels (64332), followed by 5 double-precision floating point (64-bit) vectors storing the x, y, z, sigma_f, and delta_f of the pixels.</p> <p>An example python script to read pixel_data is as follows:<br> import numpy as np<br> with open('CLAMATO2017_public/pixel_data_v4.bin','r') as f:<br> npix = np.fromfile(f, dtype=np.int32, count=1)<br> f.seek(4)<br> pixel_data = np.fromfile(f,dtype=np.float64).reshape((npix,5))</p> <p>LIST_TOMO_INPUT_2017.TXT is a summary file of corresponding to PIXEL_DATA.BIN, listing the [x,y,z] position of the sightlines that contributed to the file as well as, in the final two columns, the index range that can be used to grab the relevant pixels from the concatenated pixel list.</p> <p><strong>Tomographic Map</strong></p> <p>The Wiener-reconstructed map of the 2.05<z<2.55 IGM within the CLAMATO field is the result of applying the dachshund algorithm (http://github.com/caseywstark/dachshund) to PIXEL_DATA.BIN, with the configuration file INPUT.CFG . (Caveat: the version of PIXEL_DATA.BIN here is not actually the right version to directly input into the dachshund code: the first integer in this file should not be present for input to dachshund). </p> <p>The reconstructed map is MAP_2017_V4.BIN, which is a 60x48x876 = 2552880 pixel double-precision binary with. The dimension that changes fastest is the z-dimension (876 pixels per dimension), followed by the y-dimension (48 pixels per dimension) and x-dimension (60 per dimension).</p> <p>Each map pixel represents a 0.5Mpc/h comoving voxel of the Ly-alpha forest absorption. See the Appendix of https://arxiv.org/abs/1710.02894 for the conversion factors to assume to switch between pixel/voxel and [RA, Dec, redshift].</p> <p>The file MAP_2017_V4_SM2.0.BIN is the same map, but smoothed with a R=2Mpc/h Gaussian kernel.</p>
Closed-loop auditory stimulation targeting alpha and theta oscillations during REM sleep induces phase-dependent power and frequency changes
<p>This repository contains raw data, sleep scoring, and data to create the figures for the paper:</p> <p><strong>"Closed-loop auditory stimulation targeting alpha and theta oscillations during REM sleep induces phase-dependent power and frequency changes"</strong></p> <p>by Valeria Jaramillo, Henry Hebron, Sara Wong, Giuseppe Atzori, Ullrich Bartsch, Derk-Jan Dijk*, Ines R. Violante* (* contributed equally).</p> <p>Journal article has been published in SLEEP and can be found here: <a href="https://doi.org/10.1093/sleep/zsae193">https://doi.org/10.1093/sleep/zsae193</a></p> <p>Code can be found here: <a href="https://gitlab.surrey.ac.uk/nemo/RSN">https://gitlab.surrey.ac.uk/nemo/RSN</a></p> <p>Please cite as indicated under 'Citation' on this page.</p> <p>More information on the datafiles can be found in the README.</p>
Demo of the alpha version of MEMORISE Document Manager
<p>Video demonstration showing the basic workflow of the MEMORISE Document Manager</p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.