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11,745 results for “Disorder”
Supplementary file 13 for the Cochrane review Psychological therapies for people with borderline personality disorder
<p>A Trial Sequential Analysis figure</p>
Supplementary file 9 for the Cochrane review Psychological therapies for people with borderline personality disorder
<p>A Trial Sequential Analysis figure</p>
Supplementary file 7 for the Cochrane review Psychological therapies for people with borderline personality disorder
<p>A Trial Sequential Analysis figure</p>
Supplementary file 8 for the Cochrane review Psychological therapies for people with borderline personality disorder
<p>A Trial Sequential Analysis figure</p>
Supplementary file 25 for the Cochrane review Psychological therapies for people with borderline personality disorder
<p>A Trial Sequential Analysis figure</p>
Supplementary file 11 for the Cochrane review Psychological therapies for people with borderline personality disorder
<p>A Trial Sequential Analysis figure</p>
A multifaceted hybrid ES-robotic device for gait training in individuals with neurological disorders
<p>Data files acquired during tests and Matlab code necessary for analyzing data and generating the images of the paper </p>
Understanding Disorder in Monolayer Graphene Devices with Gate-Defined Superlattices
Open the record for dataset details and reuse information.
Stability and sensitivity of interacting fermionic superfluids to quenched disorder
<p>This data set contains all values plotted in the publication "<span>Stability and sensitivity of interacting fermionic superfluids to quenched disorde</span>r". </p>
Phosphorylation regulated conformational diversity and topological dynamics of an intrinsically disordered nuclear receptor
<p>Molecular dynamics simulations of AF1c region of human glucocorticoid receptor and its phosphovariants as described in the below paper: </p> <p><strong>Phosphorylation regulated conformational diversity and topological dynamics of an intrinsically disordered nuclear receptor</strong></p> <p>Vasily Akulov, Alba Jiménez Panizo, Eva Estébanez-Perpiñá, John van Noort, Alireza Mashaghi</p> <p> </p> <p>The data related to this project has been deposited in two repositories. This repository contains the first part of the data; the second part can be found at the DOI: 10.5281/zenodo.13822438</p>
A 4,302-patient cohort study of association of rare genetic alterations with endocrine disorders
<p><span>Endocrine pathologies including disorders such as diabetes and dysfunctions of endocrine glands, are frequently associated with genetic predisposition. This study investigated the association of endocrine diseases with genetic variants, copy number variations (CNVs), and mutational load of molecular pathways in 4302 patients with 409 ICD-10 diagnoses who underwent DNA testing using next-generation sequencing at the National Medical Research Center for Endocrinology (Moscow) from November 2017 </span><span>till</span><span> January 2024. We analyzed rare protein-altering genetic variants using three control cohorts (gnomAD3, RUSeq healthy, experimental).<span> </span>We identified 143 associated variants for diabetes mellitus and 188 genetic variants across other 18 different ICD-10 groups of diagnoses, including 25% and 30% of previously undescribed variants, respectively. In addition, we investigated the aggregation of genetic variants across individual genes and their functional ensembles (molecular pathways) and identified 105 and 101 associations with ICD-10 diagnoses, respectively. In addition, we identified 35 pathogenic and 91 likely pathogenic CNVs in 925 patients with whole exome sequencing profiles. Among them, 9 and 44 CNVs, respectively, were not previously described. Totally, we found statistically significant associations between CNVs and endocrine pathologies for 168 genes. These results expand our understanding of endocrine disease mechanisms and may indicate new potential therapeutic targets.</span></p>
Global Trends in research of work-related musculoskeletal disorders among surgeons: Bibliometric analysis and visualization from 1991 to 2024
<p><span><span>This file contains all the information relating to the 184 articles included in the bibliometric analysis.</span></span></p>
Finite Entanglement Scaling of Disorder Parameters at Quantum Criticality
<p>Code for iPEPS simulation of the 2d quantum Ising and Potts models, as well as the 3d classical Ising model. And data for figures in the main text and the appendix.</p>
An integrative characterisation of proline cis and trans conformers in a disordered peptide
<p>These metadynamic molecular dynamics simulations, nuclear magnetic resonance spectroscopy (NMR), and small-angle X-ray scattering (SAXS) data support the findings of the manuscript entitled 'An integrative characterisation of proline cis and trans conformers in a disordered peptide' by Pettitt et al. DOI: <a href="https://doi.org/10.1016/j.bpj.2024.09.028" target="_blank" rel="noopener">10.1016/j.bpj.2024.09.028</a></p> <h1>Metadynamic molecular dynamics simulations</h1> <p>The <code>Metadynamic_simulations_Zenodo.tar.xz</code> directory contains data for an N-terminally acetylated disordered peptide. The peptide is the C-terminal region of open reading frame 6 (ORF6-CTR) from SARS-CoV-2. The data were produced by metadynamics simulations in 3 force fields: AMBER03WS (a03ws), AMBER99SB-disp (a99sb), and CHARMM36m (C36m). We used PLUMED version 2.7.1 and GROMCS 2021.2. All the data and PLUMED input files required to reproduce the simulation results are available on PLUMED-NEST. This data should be used with the code provided on GitHub at <a href="https://github.com/hansenlab-ucl/orf6-ctr_cis_trans_conformers/tree/master/Metadynamic_simulations"><code>https://github.com/hansenlab-ucl/orf6-ctr_cis_trans_conformers/tree/master/Metadynamic_simulations</code></a></p> <p>Once downloaded, this directory should be extracted using the following command:</p> <p>tar -xzvf Metadynamics_simulations_Zenodo.tar.xz</p> <p>The directory should be saved with the name <code>Metadynamic_simulations_Zenodo</code> and placed in the same directory as the GitHub <code>README_metadynamic_simulations.md</code> file.</p> <h2>This dataset contains:</h2> <ul> <li>{system}.pdb - atomic coordinate files for the NAc-ORF6-CTR in the a03ws, a99sb, and C36m force fields.</li> <li>{system}_traj.trr - single concatenanated trajectory files for the a03ws run 1, a03ws run 2, a99sb, and C36m simulations.</li> <li>{system}_weights_corr.dat - weights for each frame in _traj.trr for the a03ws run 1, a03ws run 2, a99sb and C36m simulations. Here, the weights of frames in which the peptide interacts with its periodic image have been set to zero. The cutoff was 0.95 nm for C36m, and 1.2 nm for the other force fields.</li> <li>{system}_weights_saxs_bme.dat - SAXS Bayesian/Maximum Entropy (BME) reweighted weights for each frame in {system}_traj.trr for the a03ws run 1, a03ws run 2, and C36m simulations. Here, the weights of frames in which the peptide interacts with its periodic image have been set to zero. The cutoff was 0.95 nm for C36m, and 1.2 nm for the other force fields.</li> <li>top_frames_{system}.npy - numpy array of frames index for the a03ws run 1, a03ws run 2, a99sb, and C36m simulations. Frames were selected based on weights_corr.dat.</li> <li>top_frames_{system}.trr - trajectory of frames for the a03ws run 1, a03ws run 2, a99sb, and C36m simulations. Frames were selected based on weights_corr.dat</li> <li>top_frames_{system}_rw_cis.npy - numpy array of cis-P57 frames index for the a03ws run 1, a03ws run 2, and C36m simulations. Frames were selected based on _weights_saxs_bme.dat</li> <li>top_frames_{system}_rw_trans.npy - numpy array of trans-P57 frames index for the a03ws run 1, a03ws run 2, and C36m simulations. Frames were selected based on _weights_saxs_bme.dat</li> <li>top_frames_{system}_rw_cis.trr - trajectory of cis-P57 frames for the a03ws run 1, a03ws run 2, and C36m simulations. Frames were selected based on _weights_saxs_bme.dat</li> <li>top_frames_{system}_rw_trans.trr - trajectory of trans-P57 frames for the a03ws run 1, a03ws run 2, and C36m simulations. Frames were selected based on _weights_saxs_bme.dat</li> <li>CS_COLVAR_{system} - experimental and CamShift predicted chemical shifts for all four systems (a03ws run1, run2, a99sb, and C36m) as well as the cis and trans sub-ensembles for a03ws run1, a03ws run2, and C36m</li> </ul> <h1>Nuclear magnetic resonance spectroscopy (NMR) data</h1> <p>The <code>NMR_Zenodo.tar.xz</code> directory contains data for the backbone and sidechain assignment experiments, backbone 15N relaxation rates experiments, and 15N diffusion experiments (.ft2 and .ft3 files). Unless specified otherwise, NMR spectra were collected on uniformly 15N-labelled and 13C, 15N-labelled ORF6-CTR at concentrations of 300 micromolar and on unlabelled NAc-ORF6-CTR at concentations of 400 micromolar. All peptides were prepared in 25 mM HEPES buffer at pH 6.9, 150 mM NaCl, containing 5% D2O, 1 mM sodium azide, and 1 mM EDTA. NMR data were recorded at 288.15 K (15 degrees celsius). Spectra were measured at a static magnetic field strength of 14. T (600 MHz), unless specified otherwise.</p> <p>Once downloaded, this directory should be extracted using the following command:</p> <p><code>tar -xzvf NMR_Zenodo.tar.xz</code></p> <p>Note: this data is not required to run the NMR analysis on GitHub at <a href="https://github.com/hansenlab-ucl/orf6-ctr_cis_trans_conformers/tree/master/NMR"><code>https://github.com/hansenlab-ucl/orf6-ctr_cis_trans_conformers/tree/master/NMR</code></a> but it can be used for you to repeat your own analysis.</p> <p>NMR chemical shifts have been deposited in the Biological Magnetic Resonance Data Bank (BMRB; <a href="../records/13748215/preview/www.bmrb.wisc.edu"><code>www.bmrb.wisc.edu</code></a>) under the following accession codes: <strong>52459</strong> for the ORF6CTR cis-P57 and trans-P57 configurations, and <strong>52460</strong> for the unlabelled NAc-ORF6CTR.</p> <h2>This dataset contains:</h2> <ul> <li>1H-1H-tocsy-nac-orf6-ctr.ft2 - 2D 1H-1H tocsy on the NAc-ORF6-CTR. Standard dipsi2esgpph Bruker pulse sequence, with spectral widths of 14 ppm (direct dimension) and 12 ppm (indirect dimension), and 1,024 x 512 complex points, respectively. 32 scans were recorded, with an inter-scan delay of 1.5 s.</li> <li>1H-1H-tocsy.ft2 - 2D 1H-1H total correlation spectroscopy (TOCSY) on the ORF6-CTR. Same details as above.</li> <li>1H-13C-hsqc-nac-orf6-ctr.ft2 - 2D 1H-13C heteronuclear single quantum coherence (HSQC) spectra on the NAc-ORF6-CTR. Standard hsqcgpph Bruker sequence was employed, with 192 scans, spectral widths of 14 ppm (1H) and 80 ppm for (13C), and 512 x 180 complex points, respectively. The recycle delay was set to 1.5 s, with carriers set to the position of the water peak (1H) and 35 ppm relative to TMS (13C).</li> <li>1H-15N.ft2 - 2D 1H-15N HSQC spectra on the 15N-labelled ORF6-CTR. Spectra were acquired using the hsqcetf3gpsi2 Bruker pulse sequence. Spectral widths were set to 16 ppm (1H) and 20.5 ppm (15N), with 1,536 x 128 complex points acquired, respectively. Carriers were set to the position of the water peak (1H) and 121.5 ppm (15N), with 4 scans and a recycle delay of 1 s.</li> <li>1H-15N-hsqc-310K.ft2 - 2D 1H-15N HSQC spectra on the 15N-labelled ORF6-CTR at 310.15 K (37 degrees celsius). Same details as above.</li> <li>15N-edited-dosy-950MHz.ft2 - Pseudo-3D diffusion pulsed field-gradient spin echo (PFGSE) 1H-15N-Diffusion Ordered Spectroscopy-HSQC (1H-15N-DOSY-HSQC) experiment with a bipolar gradient at a static magnetic field strength of 22.3 T (950 MHz) on the 15N-labelled ORF6-CTR. Six gradient experiments were acquired for each data set, with the gradient strengths augmented linearly through the acquisition from 0.9 to 39.5 G/cm and all other delays and pulses held constant. Gradient pulses (δ) were applied for 3 ms and a diffusion delay (Δ) of 200 ms. 80 scans were acquired per gradient experiment with 1,536 x 176 complex points (1H, 15N), using the same spectral widths and carriers as used before for the 2D 1H-15N HSQC experiment.</li> <li>15N-edited-noesy.ft3 - 15N-edited nuclear Overhauser effect spectroscopy HSQC (15N-NOESY-HSQC) on the ORF6-CTR. Spectra were acquired using the noesyhsqcfpf3gpsi3d Bruker pulse sequence. Spectra were recorded with 8 scans, 2,048 x 24 x 96 complex points (1H, 15N, 1H), and a spectral width of 16 x 20.5 x 16 ppm, respectively. Carriers were set to the water peak (1H) and 121.5 ppm (15N). A recycle delay of 1.5 s and a mixing time of 0.25 s were used</li> <li>15N-edited-tocsy.ft3 - 15N-TOCSY-HSQC on the ORF6-CTR. Spectra were acquired using a pulse sequence based on the original Bruker dipsihsqcf3gpsi3d with a flip-flop spectroscopy (FLOPSY)-16 scheme. Spectra were acquired with 16 scans, 1,024 x 32 x 96 complex points (1H, 15N, 1H), and a spectral width of 16 x 20.5 x 16 ppm, respectively. Carriers were set to the water peak (1H) and 121.5 ppm (15N), with a recycle delay of 1 s. A TOCSY mixing time of 0.1 s was used and an 8 kHz TOCSY spin lock was applied.</li> <li>ccconh.ft3 - CC(CO)NH spectra were acquired on the 13C, 15N-labelled ORF6-CTR. Spectra were acquired using a pulse sequence based on the original Bruker ccconhgp3d.2 with a FLOPSY-16 scheme. Spectra were recorded with 16 scans, 1,024 x 30 x 84 complex points (1H, 15N, 13C), and a spectral width of 14 x 20.5 x 71 ppm, respectively. Carriers were set to the water peak (1H), 121.5 ppm (15N) and 43 ppm (13C). A recycle delay of 1.5 s, along with a TOCSY mixing time of 18 ms were used.</li> <li>con.ft2 - 2D CON spectra were acquired on the 13C, 15N-labelled ORF6-CTR. Spectra were acquired using the c_con_iasq Bruker pulse sequence. Spectral widths were set to 40 ppm in both dimensions, with carriers set to 173 ppm relative to TMS (13C) and 121.5 ppm (15N), and 512 x 128 complex points, respectively. 32 scans and a recycle delay of 2 s were applied.</li> <li>hncacb.ft3 - The 3D HNCACB spectra were acquired on the 13C, 15N-labelled ORF6-CTR using the hncacbgp3d Bruker pulse sequence. Spectra were recorded with 16 scans, 1,024 x 30 x 72 complex points (1H, 15N, 13C), and a spectral width of 14 x 20.5 x 60.2 ppm, respectively. Carriers were set to the water peak (1H), 121.5 ppm (15N), and 43 ppm (13C), with a recycle delay of 1 s.</li> <li>hncaco.ft3 - The 3D HN(CA)CO spectra were acquired using the hncacogpwg3d Bruker pulse sequence on the 13C,15N-labelled ORF6-CTR. Spectra were recorded with 16 scans, 1,024 x 29 x 80 complex points (1H, 15N, 13C), and a spectral width of 14 x 20.5 x 7 ppm, respectively. Carriers were set to the position of the water peak (1H), 121.5 ppm (15N) and 173 ppm relative to TMS (13C), with a recycle delay of 1 s.</li> <li>hnco.ft3 - The 3D HNCO spectra were acquired using the hncogp3d Bruker pulse sequence on the 13C, 15N-labelled ORF6-CTR. The same details were used as for the hncaco.ft3.</li> <li>noe.ft2 - The {1H}-15N hetNOEs were recorded using a pseudo-3D experiment, with and without proton saturation on the 15N-labelled ORF6-CTR. Amide proton magnetisation saturation was accomplished by using a 5 s train of high-power 120° pulses applied at 5 ms intervals. The reference and saturated spectra were alternately recorded. To ensure complete recovery of the initial magnetisation at the start of each increment of the reference experiment, a long recycle delay of 15 s was applied. The spectral widths were 16 ppm (1H) and 20.5 ppm (15N), and 2,048 x 160 (1H, 15N) complex points were recorded at a static magnetic field strength of 14.1 T.</li> <li>noe-800MHz.ft2 - The same details as for noe.ft2, except it was measured at a static magnetic field strength of 18.8 T (800 MHz).</li> <li>r1.ft2 - Rates were measured using established proton-detected pulse sequences based on a gradient-selected, sensitivity-enhanced, refocused 15N sequences on the 15N-labelled ORF6-CTR. Spectra were recorded with 2,048 x 160 complex points and spectral widths as used before in the 2D 1H-15N HSQC experiment. Gradient pulses were used to suppress the water signal and a long recycle delay of 3 s was employed. N-H cross-correlated relaxation pathways were suppressed by hard 180˚ pulses every 20 ms during the relaxation delay. The R1 N-H planes were recorded with 8 relaxation delays ranging from 20 ms to 700 ms.</li> <li>r1-800MHz.ft2 - Same details as for r1.ft2, except the rates were measured at a static magnnetic field strength of 18.8 T (800 MHz).</li> <li>r1rho.ft2 - Similar details to r1.ft2, except cross-correlated relaxation was suppressed by hard 180˚ pulses during the 15N spin-lock. Magnetisation was explicitly aligned with the spin-lock field. N-H planes were recorded using 8 relaxation delays ranging from 2 ms to 140 ms, with a 15N spin-lock field strength of 2 kHz.</li> <li>r1rho_800MHz.ft2 - Same as r1rho.ft2, except the rates were measured at a static magenetic field strength of 18.8 T (800 MHz).</li> <li>rdd.ft2 - Exchange-free 15N transverse relaxation (Rdd) rates were measured using pulse schemes for the four 1H-15N relaxation rates R1ρ(2HzN’z), R1ρ(2H’zNz), R1ρ2(2H’zN’z), and R1(2HzNz) on the 15N-labelled ORF6-CTR. A total of 8 relaxation delays between 2 ms and 26 ms were used for all experiments (same delays used for each rate measurement). A 10 kHz 1H spin lock and a 2 kHz 15N spin lock were applied. Spectral widths were the same as those used before in {1H}-15N hetNOE experiments, with 1,536 x 640 (1H, 15N) complex points.</li> </ul> <h1>Small-angle X-ray scattering (SAXS) data</h1> <p>Experimental and predicted SAXS data for the NAc-ORF6-CTR. Once downloaded, this directory should be extracted using the following command:</p> <p><code>tar -xzvf SAXS_calculations_Zenodo.tar.xz</code></p> <h2>This dataset contains:</h2> <ul> <li>saxs_exp_nac_orf6_ctr.dat - experimental SAXS data collected on Instrument B21 at Diamond Light Source (Didcot, UK). Measurements were recorded on 800 micromolar unlabelled ORF6-CTR at 310.15 K (37 degrees celsius). Data sets of 26 frames with a frame exposure time of 1 s each were acquired.</li> <li>{system}_saxs_calc_nac_orf6_ctr.dat - calculated SAXS data using PEPSI-SAXS for the a03ws run 1, a03ws run 2, and C36m metadynamics simulations. There is one column per experimental average (total = 2570) and a row for each frame in the trajectory, which depends on the number of frames in the a03ws run 1, a03ws run 2, and C36m simulations.</li> </ul> <h2>Jupyter notebooks</h2> <p>All Jupyter notebooks can be accessed from GitHub. Open Jupyter notebooks using <code>jupyter lab</code> in the analysis environment.</p>
Dataset of Psychological Impact of the COVID-19 Pandemic on Families of People with Severe Mental Disorders in Brazil
<p>The objective of the study is to understand how the families of patients with severe mental disorders experienced the beginning of the pandemic in Brazil and how they fared during the period of restricted social contact.</p>
PhasAGE Training School 1 - Phase separation and emergent functions of Intrinsically Disordered Proteins- Lecture
<p>The Training School 1 <strong>“Computational Methods to Study Protein Phase Separation”</strong> is the first edition of a series of PhasAGE training activities.</p> <p>The goal of this course is to provide participants with the basic knowledge to understand the phenomenon of <strong>Phase Separation</strong>, its role in biological processes and diseases. In addition, the course will provide <strong>an overview of the available computational resources</strong> to navigate this knowledge. Participants will have <strong>hands-on training</strong> in tools and resources available for life sciences, to collect information from the literature on biomolecular phase transitions, identify features triggering phase transitions, mutations associated with diseases, known or predicted PTMs and molecular interaction sites.</p>
Primary-level worker interventions for the care of mental disorders and distress in low- and middle-income countries - GRADE evidence profiles
<p>This file includes all GRADE evidence profiles for the following Cochrane review:</p> <p>van Ginneken N, Chin WY, Lim YC, Ussif A, Singh R, Shahmalak U, Purgato M, Rojas-García A, Uphoff E, McMullen S, Foss HS, Thapa Pachya A, Rashidian L, Borghesani A, Henschke N, Chong L-Y, Lewin S. Primary-level worker interventions for the care of mental disorders and distress in low- and middle-income countries. Cochrane Database of Systematic Reviews. In press</p>
Data files for manuscript "Exome first approach to reduce diagnostic costs and time – retrospective analysis of 111 individuals with rare neurodevelopmental disorders"
<p>#2021-07-23<br> #Summary<br> This ZIP-file contains the Excel files used for the clinical and variant analyses for the manuscript "Exome first approach to reduce diagnostic costs and time – retrospective analysis of 111 individuals with rare neurodevelopmental disorders".</p> <p>#Folder structure<br> ./ (parent directory containing this README file and all subfolders)<br> ./Clinical/ (contains an Excel sheets with complete clinical data, costs and criteria)<br> ./Variants/ (contains an Excel sheet with all variant annotation)</p> <p>#Files and checksums<br> 6DB0EF10BE7A7AF5A18E523F33FB662A ./Clinical/FileS2_Clinical.xlsx<br> 0B0C1AFA0751B63A35DC99DB25546A38 ./Variants/FileS3_Variants.xlsx</p>
Raw data for the publication entitled -"Local disorder in calcined kaolinitic clays for pozzolanic early-age reactivity understanding: A Synchrotron Pair Distribution Function study-"
<p>Raw data for the publication entitled -"Local disorder in calcined kaolinitic clays for pozzolanic early-age reactivity understanding: A Synchrotron Pair Distribution Function study-". This includes: raw data for calorimetry, SXRPD,LXRPD,NMR and PSD.</p>
Congenital disorder of glycosylation caused by starting site-specific variant in syntaxin-5
<p>The SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) protein syntaxin-5 (Stx5) is essential for Golgi transport. In humans, the <em>STX5</em> mRNA encodes two protein isoforms, Stx5 Long (Stx5L) from the first starting methionine and Stx5 Short (Stx5S) from an alternative starting methionine at position 55. In this study, we identified a novel human disorder caused by a single missense substitution in the second starting methionine (p.M55V), resulting in complete loss of the short isoform. Patients suffer from an early fatal multisystem disease, including severe liver disease, skeletal abnormalities and abnormal glycosylation. Primary human dermal fibroblasts isolated from these patients showed defective glycosylation, altered Golgi morphology as measured by electron microscopy and mislocalization of glycosyltransferases. Measurements of anterograde trafficking, based on biotin-synchronizable forms of Stx5 (the RUSH system), and of cognate binding SNAREs, based on Förster resonance energy transfer (FRET), revealed that the short isoform of Stx5 is essential for intra-Golgi transport. This is the first time a mutation in an alternative starting codon is linked to human disease, demonstrating that the site of translation initiation is an important new layer of regulating protein trafficking.</p>
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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.