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1,254 results for “alpha-synuclein”
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>
Alpha-synuclein overexpression can drive microbiome dysbiosis in mice
<p>Growing evidence indicates that persons living with Parkinson disease (PD), have a unique composition of indigenous gut microbes. Given the long prodromal or pre-diagnosed period, longitudinal studies of the human and rodent gut microbiome prior to symptomatic onset and for the duration of the disease period are currently lacking. PD is characterized in part by accumulation of the protein α-synuclein (α-syn) into insoluble aggregates, in both the central and enteric nervous systems. As such, a number of experimental rodent and non-human primate models of α-syn overexpression recapitulate some of hallmark pathophysiologies of PD. These animal models provide an opportunity to assess how the gut microbiome changes with age under disease relevant conditions. Here, we used a transgenic mouse strain, the Thy1-hSYN “line 61” mice which over express wild-type human α-syn to test how the gut microbiome composition responds in this model of PD pathology during aging. Using shotgun metagenomics, we find significant, age and genotype dependent bacterial taxa that become altered over age. We reveal that α-syn overexpression can drive alterations to the gut microbiome composition and suggest that it limits the expansion of diversity through age. Given emerging data on potential contributions of the gut microbiome to PD pathologies, our data provide an experimental foundation to understand how the PD-associated microbiome may arise as a trigger or co-pathology to disease.</p>
Pre-processed ex vivo MRI data for manuscript titled "Neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy prior to onset of motor symptoms""
<p>Repository for <em>ex vivo</em> magnetic resonance imaging data from the project titled "Presymptomatic neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy"</p> <p>Contains the pre-processed <em>ex vivo</em> T1-weighted images (Bruker 7T; 70 micron isotropic voxel resolution) for M83 alpha-synuclein A53T hemizygous mice that received either a phosphate buffered saline (PBS) or alpha-synuclein pre-formed fibrils (PFF) injection in the right dorsal striatum. Full subject list can be viewed with the "subject_list.csv" file. More details are available in the manuscript. </p>
Molecular Dynamics Trajectories Exploring the Impact of Phosphorylation on the Physiological Form of Human alpha-Synuclein in Aqueous Solution
<h3>Primary data for the publication "Impact of Phosphorylation on the Physiological Form of Human alpha-Synuclein in Aqueous Solution" by de Bruyn, Dorn, Rossetti, Fernandez, Outeiro, Schulz and Carloni. Submitted to the Journal of Chemical Information and Modeling.</h3> <p>Included are all GROMACS input files, parameterised topologies, starting and final configurations, and trajectories for the lowest temperature replica (at 300 K, lowest of 32 replicas between 300-500 K exchanging according to the REST2 algorithm (Wang et al. 2011)). The data is split into three archives:</p> <ol> <li><strong>all_atom_trajectories.zip</strong> <ul> <li>contains all input files and all atom trajectories including solvent</li> <li>trajectories written at 100 ps intervals</li> </ul> </li> <li><strong>protein+ion_trajectories.zip</strong> <ul> <li>contains configuration/non-parameterised topologies and trajectories excluding solvent, but including ions</li> <li>trajectories written at 10 ps intervals</li> </ul> </li> <li><strong>additional_simulations.zip</strong> <ul> <li>contains the all atom trajectories and input files, and</li> <li>solvent-free trajectories above,</li> <li>for the additional simulations in the Supplemental Information of the article: <ul> <li>includes the DES-Amber-based simulations with 64 replicas between 300-600 K, and</li> <li>a99SB-<em>disp</em>-based simulations</li> </ul> </li> </ul> </li> </ol> <p> </p> <p>Folders are named according to the following top level scheme:</p> <ul> <li><strong>DES-Amber simulations/</strong> Simulations created using the DES-Amber force field (Tucker et al. 2022)</li> <li><strong>a99SB-<em>disp</em> simulations/</strong> SImulations created using the a99SB-<em>disp</em> force field for Intrinsically Disordered Proteins (IDPs) (Robustelli et al. 2018)</li> </ul> <p>Sub-folders follow the following scheme:</p> <ul> <li><strong>AS/</strong> Simulations of the physiological form of <em>wild-type </em>Human α-Synuclein <ul> <li>unphosphorylated</li> </ul> </li> <li><strong>pAS/</strong> Simulations of the physiological form of <em>wild-type </em>Human α-Synuclein <ul> <li>phosphorylated at S129</li> <li>with double negative charge</li> </ul> </li> <li><strong>pASH/</strong> Simulations of the physiological form of <em>wild-type </em>Human α-Synuclein (a99SB-<em>disp</em> simulations only) <ul> <li>phosphorylated at S129</li> <li>with a single negative charge (monoprotonated)</li> </ul> </li> </ul> <p> </p>
Structure of alpha-synuclein fibrils derived from human Lewy body dementia tissue
Open the record for dataset details and reuse information.
Single-cell RNAseq of Day 49 midbrain organoids from healthy and alpha-synuclein triplication iPSC lines
<p>Unbiased single-cell RNAseq of Day 49 midbrain dopaminergic organoids (10x 3' v3) of the Patikas et al. publication.</p> <p> </p> <p>The mono-unt-celltypes.h5ad refers to the object shown at Fig 2A and contains 3 cell lines:</p> <ol> <li>KOLF2 ( Control cell line)</li> <li>SNCA-3x alpha Synuclein triplication Parkinson's Disease patient-derived iPSC line</li> <li>SNCA-corr (SNCA-3x isogenic control with the triplication mutation corrected)</li> </ol> <p>The all-celltypes.h5ad refers to the object shown at Fig 4 onwards and contains the 3 cell lines that are included in model-dataset.h5ad and 7 other single-cell RNAseq samples:</p> <ol> <li>SNCA-3x+KOLF2 (chimera organoid condition of SNCA-3x and KOLF2 of iPSCs grown together in a midbrain organoid)</li> <li>SNCA-corr+KOLF2 (chimera organoid condition of SNCA-corr and KOLF2 of iPSCs grown together in a midbrain organoid)</li> <li>5 paired rotenone conditions. For each condition (KOLF2, SNCA-3x, SNCA-corr, SNCA-3x+KOLF2, SNCA-corr+KOLF2) a paired condition with acute 24h rotenone treatment in an antioxidant-free medium.</li> </ol>
Nanoplastic stimulates the amyloidogenesis of Parkinson's alpha-synuclein NACore
<p>Environmental plastic wastes are potential health hazards due to their prevalence as well as their versatility in initiating physical, chemical, and biological interactions and transformations. Indeed, recent research has implicated the adverse effects of micro- and nano-plastics, including their neurotoxicity, yet how plastic particulates may impact the aggregation pathway and toxicity of amyloid proteins remains unknown. Here we employed electrospray ionization time-of-flight mass spectrometry (ESI-TOF-MS) to reveal the polymorphic oligomerization of NACore, a surrogate of alpha synuclein that is associated with the pathogenesis of Parkinson's disease. Our data indicated that the production rate and population of the NACore oligomers were modulated by their exposure to a polystyrene nanoplastic, and our cellular assays further revealed an elevated NACore toxicity in microglial cells elicited by the nanoplastic. Our simulations confirmed that the nanoplastic-NACore association was promoted by their hydrophobic interactions. These findings were corroborated by an impairment to zebrafish hatching, survival, and development <i>in vivo</i> upon their embryonic exposure to the nanoplastic. Together, this study has uncovered the dynamics and mechanism of amyloidogenesis elevated by a nanoplastic trigger, shedding a new light on the neurological burden of plastic pollution. </p>
Enhanced mTORC1 signaling and protein synthesis in pathologic alpha-synuclein cellular and animal models of Parkinson's disease
<p>Pathologic alpha-synuclein plays an important role in the pathogenesis of alpha-synucleinopathies such as Parkinson's disease (PD). Disruption of proteostasis is thought to be central to pathologic alpha-synuclein (alpha-syn) toxicity; however, the molecular mechanism of this deregulation is poorly understood. Here we report that pathologic alpha-syn activates the mechanistic target of rapamycin (mTOR) complex 1 (mTORC1) leading to enhanced mRNA translation via binding tuberous sclerosis protein (TSC) 2 and destabilizing the TSC1-TSC2 complex. Genetic and pharmacologic inhibition of mTOR and protein synthesis rescue the dopamine neuron loss, behavioral deficits, and aberrant biochemical signaling in the alpha-syn preformed fibril (PFF) and Drosophila alpha-syn transgenic models of pathologic alpha-syn induced degeneration. Our findings establish a potential molecular mechanism by which pathologic alpha-syn activates mTORC1 leading to enhanced protein synthesis and concomitant neurodegeneration in PD.</p>
Mitochondrial oxidant stress promotes alpha-synuclein aggregation and spreading in mice with mutated glucocerebrosidase
<p>These are the data sets and plasmid sequences of the viral vectors used in the study "Mitochondrial oxidant stress promotes alpha-synuclein aggregation and spreading in mice with mutated glucocerebrosidase"</p>
A data repository for the study of Alpha-synuclein aggregates trigger anti-viral immune pathways and RNA editing in human astrocytes
<p><span>This repository contains data associated with the study:</span></p> <p><span><strong>"Alpha-synuclein Aggregates Trigger Anti-Viral Immune Pathways and RNA Editing in Human Astrocytes"</strong></span></p> <p><span>Published as a <strong>bioRxiv preprint</strong>: <a href="https://doi.org/10.1101/2024.02.26.582055"><span>DOI: 10.1101/2024.02.26.582055</span></a></span></p>
Additional data repository for the study of Alpha-synuclein aggregates trigger anti-viral immune pathways and RNA editing in human astrocytes
<p>Zip file 1: astrocytes calcium data measured using Fura 2</p> <p>Zip file2: astrocytes ROS measured using DHE (Dihydroethidium)</p> <p>Zip file 3: astrocytes cell death measured using Sytox green</p>
Time-resolved smPIFE data - alpha-Synuclein dimer
<p>Photon-HDF5 files of time-resolved smPIFE measurements: four different sCy3-labeled aslpha-Synuclein positions, in the presence of varying concentrations of wt-alpha-Synuclein, including Jupyter notebooks summarizing the analysis pipeline of these results.</p>
Alpha-synuclein aggregates are phosphatase resistant
<p>Data and uncut images from manuscript.</p>
OW949 zgIs125[P(dat-1)::alpha-Synuclein::YFP] | 2014-04-24T10:58:42+02:00
<blockquote> <p>This experiment is part of the <em>C.elegans behavioural database</em>. For more information and the complete collection of experiments visit http://movement.openworm.org</p> </blockquote> <ul> <li><b>preview link</b> : https://www.youtube.com/watch?v=BhoR_8TtrO0</li> <li><b>strain</b> : OW949</li> <li><b>timestamp</b> : 2014-04-24T10:58:42+02:00</li> <li><b>strain_description</b> : zgIs125[P(dat-1)::alpha-Synuclein::YFP]</li> <li><b>sex</b> : hermaphrodite</li> <li><b>stage</b> : adult</li> <li><b>ventral_side</b> : anticlockwise</li> <li><b>media</b> : NGM agar low peptone</li> <li><b>arena</b> : <ul> <li><b>style</b> : petri</li> <li><b>size</b> : 35</li> <li><b>orientation</b> : away</li> </ul> </li> <li><b>food</b> : OP50</li> <li><b>who</b> : Celine N. Martineau, Bora Baskaner</li> <li><b>protocol</b> : Method in E. Yemini et al. doi:10.1038/nmeth.2560. Worm transferred to arena 30 minutes before recording starts.</li> <li><b>lab</b> : <ul> <li><b>name</b> : European Research Institute for the Biology of Ageing</li> <li><b>location</b> : The Netherlands</li> </ul> </li> <li><b>software</b> : <ul> <li><b>name</b> : tierpsy (https://github.com/ver228/tierpsy-tracker)</li> <li><b>version</b> : 423b4be3119d36644e9fd44c5d8c216756a55ed6</li> <li><b>featureID</b> : @OMG</li> </ul> </li> <li><b>base_name</b> : 39_R#4_OW949#7_Day10_CCW_2014_04_24__10_58_42___7___9</li> <li><b>days_of_adulthood</b> : 10</li> <li><b>worm_id</b> : 15009</li> <li><b>total time (s)</b> : 898.006</li> <li><b>frames per second</b> : 26.178</li> <li><b>video micrometers per pixel</b> : 4.52876</li> <li><b>number of segmented skeletons</b> : 20746</li> </ul>
OW949 zgIs125[P(dat-1)::alpha-Synuclein::YFP] | 2014-04-22T10:55:30+02:00
<blockquote> <p>This experiment is part of the <em>C.elegans behavioural database</em>. For more information and the complete collection of experiments visit http://movement.openworm.org</p> </blockquote> <ul> <li><b>preview link</b> : https://www.youtube.com/watch?v=H3TFmWL_DGU</li> <li><b>strain</b> : OW949</li> <li><b>timestamp</b> : 2014-04-22T10:55:30+02:00</li> <li><b>strain_description</b> : zgIs125[P(dat-1)::alpha-Synuclein::YFP]</li> <li><b>sex</b> : hermaphrodite</li> <li><b>stage</b> : adult</li> <li><b>ventral_side</b> : anticlockwise</li> <li><b>media</b> : NGM agar low peptone</li> <li><b>arena</b> : <ul> <li><b>style</b> : petri</li> <li><b>size</b> : 35</li> <li><b>orientation</b> : away</li> </ul> </li> <li><b>food</b> : OP50</li> <li><b>who</b> : Celine N. Martineau, Bora Baskaner</li> <li><b>protocol</b> : Method in E. Yemini et al. doi:10.1038/nmeth.2560. Worm transferred to arena 30 minutes before recording starts.</li> <li><b>lab</b> : <ul> <li><b>name</b> : European Research Institute for the Biology of Ageing</li> <li><b>location</b> : The Netherlands</li> </ul> </li> <li><b>software</b> : <ul> <li><b>name</b> : tierpsy (https://github.com/ver228/tierpsy-tracker)</li> <li><b>version</b> : 423b4be3119d36644e9fd44c5d8c216756a55ed6</li> <li><b>featureID</b> : @OMG</li> </ul> </li> <li><b>base_name</b> : 39_R#4_OW949#7_Day8_CCW_2014_04_22__10_55_30___7___10</li> <li><b>days_of_adulthood</b> : 8</li> <li><b>worm_id</b> : 15009</li> <li><b>total time (s)</b> : 898.016</li> <li><b>frames per second</b> : 26.3158</li> <li><b>video micrometers per pixel</b> : 4.52876</li> <li><b>number of segmented skeletons</b> : 20776</li> </ul>
OW949 zgIs125[P(dat-1)::alpha-Synuclein::YFP] | 2014-04-25T10:44:22+02:00
<blockquote> <p>This experiment is part of the <em>C.elegans behavioural database</em>. For more information and the complete collection of experiments visit http://movement.openworm.org</p> </blockquote> <ul> <li><b>preview link</b> : https://www.youtube.com/watch?v=30NytndgSkY</li> <li><b>strain</b> : OW949</li> <li><b>timestamp</b> : 2014-04-25T10:44:22+02:00</li> <li><b>strain_description</b> : zgIs125[P(dat-1)::alpha-Synuclein::YFP]</li> <li><b>sex</b> : hermaphrodite</li> <li><b>stage</b> : adult</li> <li><b>ventral_side</b> : anticlockwise</li> <li><b>media</b> : NGM agar low peptone</li> <li><b>arena</b> : <ul> <li><b>style</b> : petri</li> <li><b>size</b> : 35</li> <li><b>orientation</b> : away</li> </ul> </li> <li><b>food</b> : OP50</li> <li><b>who</b> : Celine N. Martineau, Bora Baskaner</li> <li><b>protocol</b> : Method in E. Yemini et al. doi:10.1038/nmeth.2560. Worm transferred to arena 30 minutes before recording starts.</li> <li><b>lab</b> : <ul> <li><b>name</b> : European Research Institute for the Biology of Ageing</li> <li><b>location</b> : The Netherlands</li> </ul> </li> <li><b>software</b> : <ul> <li><b>name</b> : tierpsy (https://github.com/ver228/tierpsy-tracker)</li> <li><b>version</b> : 423b4be3119d36644e9fd44c5d8c216756a55ed6</li> <li><b>featureID</b> : @OMG</li> </ul> </li> <li><b>base_name</b> : 39_R#4_OW949#7_Day11_CCW_2014_04_25__10_44_22___7___9</li> <li><b>days_of_adulthood</b> : 11</li> <li><b>worm_id</b> : 15009</li> <li><b>total time (s)</b> : 899.098</li> <li><b>frames per second</b> : 26.0417</li> <li><b>video micrometers per pixel</b> : 4.52876</li> <li><b>number of segmented skeletons</b> : 20632</li> </ul>
OW949 zgIs125[P(dat-1)::alpha-Synuclein::YFP] | 2014-04-21T14:27:53+02:00
<blockquote> <p>This experiment is part of the <em>C.elegans behavioural database</em>. For more information and the complete collection of experiments visit http://movement.openworm.org</p> </blockquote> <ul> <li><b>preview link</b> : https://www.youtube.com/watch?v=62dFrSw0IkU</li> <li><b>strain</b> : OW949</li> <li><b>timestamp</b> : 2014-04-21T14:27:53+02:00</li> <li><b>strain_description</b> : zgIs125[P(dat-1)::alpha-Synuclein::YFP]</li> <li><b>sex</b> : hermaphrodite</li> <li><b>stage</b> : adult</li> <li><b>ventral_side</b> : anticlockwise</li> <li><b>media</b> : NGM agar low peptone</li> <li><b>arena</b> : <ul> <li><b>style</b> : petri</li> <li><b>size</b> : 35</li> <li><b>orientation</b> : away</li> </ul> </li> <li><b>food</b> : OP50</li> <li><b>who</b> : Celine N. Martineau, Bora Baskaner</li> <li><b>protocol</b> : Method in E. Yemini et al. doi:10.1038/nmeth.2560. Worm transferred to arena 30 minutes before recording starts.</li> <li><b>lab</b> : <ul> <li><b>name</b> : European Research Institute for the Biology of Ageing</li> <li><b>location</b> : The Netherlands</li> </ul> </li> <li><b>software</b> : <ul> <li><b>name</b> : tierpsy (https://github.com/ver228/tierpsy-tracker)</li> <li><b>version</b> : 423b4be3119d36644e9fd44c5d8c216756a55ed6</li> <li><b>featureID</b> : @OMG</li> </ul> </li> <li><b>base_name</b> : 39_R#4_OW949#7_day7_CCW_2014_04_21__14_27_53___7___10</li> <li><b>days_of_adulthood</b> : 7</li> <li><b>worm_id</b> : 15009</li> <li><b>total time (s)</b> : 899.811</li> <li><b>frames per second</b> : 25.7732</li> <li><b>video micrometers per pixel</b> : 4.52876</li> <li><b>number of segmented skeletons</b> : 20355</li> </ul>
OW949 zgIs125[P(dat-1)::alpha-Synuclein::YFP] | 2014-04-20T16:57:01+02:00
<blockquote> <p>This experiment is part of the <em>C.elegans behavioural database</em>. For more information and the complete collection of experiments visit http://movement.openworm.org</p> </blockquote> <ul> <li><b>preview link</b> : https://www.youtube.com/watch?v=VYNr5L0Sjvk</li> <li><b>strain</b> : OW949</li> <li><b>timestamp</b> : 2014-04-20T16:57:01+02:00</li> <li><b>strain_description</b> : zgIs125[P(dat-1)::alpha-Synuclein::YFP]</li> <li><b>sex</b> : hermaphrodite</li> <li><b>stage</b> : adult</li> <li><b>ventral_side</b> : clockwise</li> <li><b>media</b> : NGM agar low peptone</li> <li><b>arena</b> : <ul> <li><b>style</b> : petri</li> <li><b>size</b> : 35</li> <li><b>orientation</b> : away</li> </ul> </li> <li><b>food</b> : OP50</li> <li><b>who</b> : Celine N. Martineau, Bora Baskaner</li> <li><b>protocol</b> : Method in E. Yemini et al. doi:10.1038/nmeth.2560. Worm transferred to arena 30 minutes before recording starts.</li> <li><b>lab</b> : <ul> <li><b>name</b> : European Research Institute for the Biology of Ageing</li> <li><b>location</b> : The Netherlands</li> </ul> </li> <li><b>software</b> : <ul> <li><b>name</b> : tierpsy (https://github.com/ver228/tierpsy-tracker)</li> <li><b>version</b> : 423b4be3119d36644e9fd44c5d8c216756a55ed6</li> <li><b>featureID</b> : @OMG</li> </ul> </li> <li><b>base_name</b> : 39_R#4_OW949#7_day6_CW_2014_04_20__16_57_01___7___10</li> <li><b>days_of_adulthood</b> : 6</li> <li><b>worm_id</b> : 15009</li> <li><b>total time (s)</b> : 898.617</li> <li><b>frames per second</b> : 26.178</li> <li><b>video micrometers per pixel</b> : 4.52876</li> <li><b>number of segmented skeletons</b> : 20768</li> </ul>
OW949 zgIs125[P(dat-1)::alpha-Synuclein::YFP] | 2014-04-28T12:51:16+02:00
<blockquote> <p>This experiment is part of the <em>C.elegans behavioural database</em>. For more information and the complete collection of experiments visit http://movement.openworm.org</p> </blockquote> <ul> <li><b>preview link</b> : https://www.youtube.com/watch?v=wGmdGahlQis</li> <li><b>strain</b> : OW949</li> <li><b>timestamp</b> : 2014-04-28T12:51:16+02:00</li> <li><b>strain_description</b> : zgIs125[P(dat-1)::alpha-Synuclein::YFP]</li> <li><b>sex</b> : hermaphrodite</li> <li><b>stage</b> : adult</li> <li><b>ventral_side</b> : clockwise</li> <li><b>media</b> : NGM agar low peptone</li> <li><b>arena</b> : <ul> <li><b>style</b> : petri</li> <li><b>size</b> : 35</li> <li><b>orientation</b> : away</li> </ul> </li> <li><b>food</b> : OP50</li> <li><b>who</b> : Celine N. Martineau, Bora Baskaner</li> <li><b>protocol</b> : Method in E. Yemini et al. doi:10.1038/nmeth.2560. Worm transferred to arena 30 minutes before recording starts.</li> <li><b>lab</b> : <ul> <li><b>name</b> : European Research Institute for the Biology of Ageing</li> <li><b>location</b> : The Netherlands</li> </ul> </li> <li><b>software</b> : <ul> <li><b>name</b> : tierpsy (https://github.com/ver228/tierpsy-tracker)</li> <li><b>version</b> : 423b4be3119d36644e9fd44c5d8c216756a55ed6</li> <li><b>featureID</b> : @OMG</li> </ul> </li> <li><b>base_name</b> : 39_R#4_OW949#7_day14_CW_2014_04_28__12_51_16___7___8</li> <li><b>days_of_adulthood</b> : 14</li> <li><b>worm_id</b> : 15009</li> <li><b>total time (s)</b> : 898.474</li> <li><b>frames per second</b> : 26.2467</li> <li><b>video micrometers per pixel</b> : 4.52876</li> <li><b>number of segmented skeletons</b> : 20850</li> </ul>
OW949 zgIs125[P(dat-1)::alpha-Synuclein::YFP] | 2014-04-19T14:11:39+02:00
<blockquote> <p>This experiment is part of the <em>C.elegans behavioural database</em>. For more information and the complete collection of experiments visit http://movement.openworm.org</p> </blockquote> <ul> <li><b>preview link</b> : https://www.youtube.com/watch?v=_I3Eoat-4P4</li> <li><b>strain</b> : OW949</li> <li><b>timestamp</b> : 2014-04-19T14:11:39+02:00</li> <li><b>strain_description</b> : zgIs125[P(dat-1)::alpha-Synuclein::YFP]</li> <li><b>sex</b> : hermaphrodite</li> <li><b>stage</b> : adult</li> <li><b>ventral_side</b> : clockwise</li> <li><b>media</b> : NGM agar low peptone</li> <li><b>arena</b> : <ul> <li><b>style</b> : petri</li> <li><b>size</b> : 35</li> <li><b>orientation</b> : away</li> </ul> </li> <li><b>food</b> : OP50</li> <li><b>who</b> : Celine N. Martineau, Bora Baskaner</li> <li><b>protocol</b> : Method in E. Yemini et al. doi:10.1038/nmeth.2560. Worm transferred to arena 30 minutes before recording starts.</li> <li><b>lab</b> : <ul> <li><b>name</b> : European Research Institute for the Biology of Ageing</li> <li><b>location</b> : The Netherlands</li> </ul> </li> <li><b>software</b> : <ul> <li><b>name</b> : tierpsy (https://github.com/ver228/tierpsy-tracker)</li> <li><b>version</b> : 423b4be3119d36644e9fd44c5d8c216756a55ed6</li> <li><b>featureID</b> : @OMG</li> </ul> </li> <li><b>base_name</b> : 39_R#4_OW949#7_day5_CW_2014_04_19__14_11_39___7___10</li> <li><b>days_of_adulthood</b> : 5</li> <li><b>worm_id</b> : 15009</li> <li><b>total time (s)</b> : 899.659</li> <li><b>frames per second</b> : 25.8398</li> <li><b>video micrometers per pixel</b> : 4.52876</li> <li><b>number of segmented skeletons</b> : 20013</li> </ul>
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.