cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7525055
title: Polymer simulations guide the detection and quantification of chromatin loop extrusion by imaging

description: Dataset description


This dataset contains coordinates of the two anchors of a 150 kb simulated loop (static imaging) and anchor-anchor distances of a 150 kb loop in simulations where the extruder was allowed to unbind from the polymer (dynamic imaging).


Dataset description - Static imaging


This dataset contains coordinates of the two anchors of a 150 kb simulated loop.


The subfolder 'Free' contains coordinates from a polymer not submitted to loop extrusion (1,000 independent simulations). The subfolder 'Loop' contains loop anchor coordinates in a polymer submitted to loop extrusion (4,000 independent simulations). In simulations with extrusion, the polymer chain was simulated such as it went through 3 different states : i) Open state  (absence of loops) ii) Extruding state where the loop size increases with time (anchor-anchor distance decreases) and iii) Closed state corresponding to a stable loop with the two anchors in contact.


 


Structure of data - Static imaging


In each .txt file, the first three columns correspond to the XYZ coordinates of the anchor (in µm), the fourth column indicates the state label (0=Open, 1=Extruding, 2=Closed). Each row corresponds to a simulation timepoint (2991 timepoints in polymers submitted to loop extrusion).


The simulation ID is indicated at the end of each .txt file.


The two anchors of the loop are bead #275 and bead #324.


 


Structure of data - Dynamic imaging


Each .txt file contains the anchor-anchor distance (in µm) as function of time for approximately 10,000 independent simulations. Each column is an independent simulation. Each row is a simulation timepoint (0.3 s / simulation unit). The different .txt files correspond to different localization errors, indicated in µm in XY and Z.


'list_deb_closed_10000.p' is a dictionary whose keys are the simulation ID (corresponding to the columns of the .txt files), and the values are the frame at which extrusion begins.


'list_end_closed_10000.p' is a dictionary whose keys are the simulation ID (corresponding to the columns of the .txt files), and the values are the frame at which extrusion ends.
DOI: 10.15468/dl.hw8wn7
title: Occurrence Download

description: A dataset containing 73 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Iran (Islamic Republic of)",
 "TaxonKey is Citrullus colocynthis"
 ]
}

 The dataset includes 73 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035340-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z3z6xb
title: Occurrence Download

description: A dataset containing 9342 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Machine Observation",
 "Month is one of (April, May, June, July, August, September, October)",
 "OccurrenceStatus is Present",
 "TaxonKey is Pygoscelis adeliae",
 "Year 1988-2025"
 ]
}

 The dataset includes 9342 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035339-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xpdszr
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis altipinnis",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035341-251025141854904/datasets/export for details.
DOI: 10.15468/dl.6jmq3j
title: Occurrence Download

description: A dataset containing 91 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-110.3688 24.89913, -110.2188 24.89913, -110.2188 25.04913, -110.3688 25.04913, -110.3688 24.89913))"
 ]
}

 The dataset includes 91 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035342-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xpvy9a
title: Occurrence Download

description: A dataset containing 178322 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Year is greater than or equal to 1980",
 "TaxonKey is Ailanthus altissima"
 ]
}

 The dataset includes 178322 records from 1164 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035317-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sfn695
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis amabilis",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035343-251025141854904/datasets/export for details.
DOI: 10.15468/dl.kwfvg4
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-110.2188 24.89913, -110.0688 24.89913, -110.0688 25.04913, -110.2188 25.04913, -110.2188 24.89913))"
 ]
}

 The dataset includes 31 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035344-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rxvd4y
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis amoenus",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035345-251025141854904/datasets/export for details.
DOI: 10.15468/dl.vwk6ay
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-110.0688 24.89913, -109.9188 24.89913, -109.9188 25.04913, -110.0688 25.04913, -110.0688 24.89913))"
 ]
}

 The dataset includes 20 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035346-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nywksx
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis ariommus",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035348-251025141854904/datasets/export for details.
DOI: 10.34740/kaggle/dsv/13741913
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.15468/dl.rxajhw
title: Occurrence Download

description: A dataset containing 59 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-109.9188 24.89913, -109.7688 24.89913, -109.7688 25.04913, -109.9188 25.04913, -109.9188 24.89913))"
 ]
}

 The dataset includes 59 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035349-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wgyvdc
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis atherinoides",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035351-251025141854904/datasets/export for details.
DOI: 10.15468/dl.7b7xmh
title: Occurrence Download

description: A dataset containing 114 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-109.7688 24.89913, -109.6188 24.89913, -109.6188 25.04913, -109.7688 25.04913, -109.7688 24.89913))"
 ]
}

 The dataset includes 114 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035353-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h26q4e
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis baileyi",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035354-251025141854904/datasets/export for details.
DOI: 10.15468/dl.5met5q
title: Occurrence Download

description: A dataset containing 233 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-109.6188 24.89913, -109.4688 24.89913, -109.4688 25.04913, -109.6188 25.04913, -109.6188 24.89913))"
 ]
}

 The dataset includes 233 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035356-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kakw33
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis bairdi",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035357-251025141854904/datasets/export for details.
DOI: 10.15468/dl.28xm7f
title: Occurrence Download

description: A dataset containing 67 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-109.4688 24.89913, -109.3188 24.89913, -109.3188 25.04913, -109.4688 25.04913, -109.4688 24.89913))"
 ]
}

 The dataset includes 67 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035358-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9n6kuh
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((84.35277 10.24421,120.64723 10.24421,120.64723 24.75579,84.35277 24.75579,84.35277 10.24421))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Dendrobium palpebrae"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035359-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xfgbdt
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis blennius",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035360-251025141854904/datasets/export for details.
DOI: 10.5281/zenodo.17616539
title: Underwater images collected by a Kite surf in Anakao, Madagascar - 2022-11-11

description: This dataset was collected by a Kite surf in Anakao, Madagascar - 2022-11-11. 

            Underwater or aerial images collected by scientists or citizens can have a wide variety of use for science, management, or conservation.
            These images can be annotated and shared to train IA models which can in turn predict the objects on the images.
            We provide a set of tools (hardware and software) to collect marine data, predict species or habitat, and provide maps.

            This dataset is part of larger collection referencing numerous underwater and aerial images Seatizen Altas. 
            Methods, tools and scientific objectives are also described in a dedicated data paper.

            
                
                                       
                
                
 GPS information: 

                No GPS.
            
                    
                

                
            

            
 Generic folder structure 
            
            YYYYMMDD_COUNTRYCODE-optionalplace_device_session-number 
            ├── DCIM :  folder to store videos and photos depending on the media collected. 
            ├── GPS :  folder to store any positioning related file. If any kind of correction is possible on files (e.g. Post-Processed Kinematic thanks to rinex data) then the distinction between device data and base data is made. If, on the other hand, only device position data are present and the files cannot be corrected by post-processing techniques (e.g. gpx files), then the distinction between base and device is not made and the files are placed directly at the root of the GPS folder. 
            │   ├── BASE :  files coming from rtk station or any static positioning instrument. 
            │   └── DEVICE : files coming from the device. 
            ├── METADATA : folder with general information files about the session. 
            ├── PROCESSED_DATA : contain all the folders needed to store the results of the data processing of the current session. 
            │   ├── BATHY :  output folder for bathymetry raw data extracted from mission logs. 
            │   ├── FRAMES :  output folder for georeferenced frames extracted from DCIM videos. 
            │   ├── IA :  destination folder for image recognition predictions. 
            │   └── PHOTOGRAMMETRY :  destination folder for reconstructed models in photogrammetry. 
            └── SENSORS : folder to store files coming from other sources (bathymetry data from the echosounder, log file from the autopilot,  mission plan etc.).       
            

            
 Software 
            All the raw data was processed using our worflow. All predictions were generated by our inference pipeline. You can find all the necessary scripts to download this data in this repository. Enjoy your data with SeatizenDOI!
DOI: 10.5281/zenodo.17616141
title: Underwater images collected by a Kite surf in Anakao, Madagascar - 2022-11-11

description: This dataset was collected by a Kite surf in Anakao, Madagascar - 2022-11-11. 

            Underwater or aerial images collected by scientists or citizens can have a wide variety of use for science, management, or conservation.
            These images can be annotated and shared to train IA models which can in turn predict the objects on the images.
            We provide a set of tools (hardware and software) to collect marine data, predict species or habitat, and provide maps.

            This dataset is part of larger collection referencing numerous underwater and aerial images Seatizen Altas. 
            Methods, tools and scientific objectives are also described in a dedicated data paper.

            
                
                                       
                
                
 GPS information: 

                No GPS.
            
                    
                

                
            

            
 Generic folder structure 
            
            YYYYMMDD_COUNTRYCODE-optionalplace_device_session-number 
            ├── DCIM :  folder to store videos and photos depending on the media collected. 
            ├── GPS :  folder to store any positioning related file. If any kind of correction is possible on files (e.g. Post-Processed Kinematic thanks to rinex data) then the distinction between device data and base data is made. If, on the other hand, only device position data are present and the files cannot be corrected by post-processing techniques (e.g. gpx files), then the distinction between base and device is not made and the files are placed directly at the root of the GPS folder. 
            │   ├── BASE :  files coming from rtk station or any static positioning instrument. 
            │   └── DEVICE : files coming from the device. 
            ├── METADATA : folder with general information files about the session. 
            ├── PROCESSED_DATA : contain all the folders needed to store the results of the data processing of the current session. 
            │   ├── BATHY :  output folder for bathymetry raw data extracted from mission logs. 
            │   ├── FRAMES :  output folder for georeferenced frames extracted from DCIM videos. 
            │   ├── IA :  destination folder for image recognition predictions. 
            │   └── PHOTOGRAMMETRY :  destination folder for reconstructed models in photogrammetry. 
            └── SENSORS : folder to store files coming from other sources (bathymetry data from the echosounder, log file from the autopilot,  mission plan etc.).       
            

            
 Software 
            All the raw data was processed using our worflow. All predictions were generated by our inference pipeline. You can find all the necessary scripts to download this data in this repository. Enjoy your data with SeatizenDOI!
DOI: 10.15468/dl.hv6h8v
title: Occurrence Download

description: A dataset containing 2834 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is one of (Museum of Comparative Zoology, Harvard University, Denver Museum of Nature & Science - Arachnology, International Barcode of Life project (iBOL), Illinois Natural History Survey Insect Collection, Centre for Biodiversity Genomics - Canadian Specimens, Ohio State University Spider Collection, New Mexico State Collection of Arthropods, Museum of Southwestern Biology, Division of Arthropods)",
 "Geometry POLYGON((-155.04283 12.47859,-42.49465 12.47859,-42.49465 57.47859,-155.04283 57.47859,-155.04283 12.47859))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Phidippus"
 ]
}

 The dataset includes 2834 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035361-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tky36f
title: Occurrence Download

description: A dataset containing 40 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-109.3188 24.89913, -109.1688 24.89913, -109.1688 25.04913, -109.3188 25.04913, -109.3188 24.89913))"
 ]
}

 The dataset includes 40 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035362-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vxdpqd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notropis boops",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035363-251025141854904/datasets/export for details.
DOI: 10.15468/dl.gh5stb
title: Occurrence Download

description: A dataset listing the 3 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Thelebolus microsporus"
 ]
}

 The dataset's 3 records were derived from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035355-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/6xfvmnnm29
title: Relatividade Ondulatória + §37 +§38 212Pg

description: Undulating Relativity
DOI: 10.17632/6xfvmnnm29.1
title: Relatividade Ondulatória + §37 +§38 212Pg

description: Undulating Relativity
DOI: 10.15468/dl.x3br6y
title: Occurrence Download

description: A dataset containing 2362 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Panicum maximum Nees, 1841"
 ]
}

 The dataset includes 2362 records from 107 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012310-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15565825
title: Submitted Galaxy Scores to the Gravitational Wave Treasure Map for event MS250531t Preliminary

description: Attached in a .json file is the ranked galaxy information within the contour region of the EM counterpart search associated with the gravitational wave event MS250531t Preliminary. A reference to these calculations can be found here: https://ui.adsabs.harvard.edu/abs/2017ApJ...848L..33A/abstract
DOI: 10.5281/zenodo.15565826
title: Submitted Galaxy Scores to the Gravitational Wave Treasure Map for event MS250531t Preliminary

description: Attached in a .json file is the ranked galaxy information within the contour region of the EM counterpart search associated with the gravitational wave event MS250531t Preliminary. A reference to these calculations can be found here: https://ui.adsabs.harvard.edu/abs/2017ApJ...848L..33A/abstract
DOI: 10.15468/dl.qba78f
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Platytroctes apus Günther, 1878",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((26.9648 1.8496,17.9648 1.8496,17.9648 -7.1504,26.9648 -7.1504,26.9648 1.8496))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012311-250525065834625/datasets/export for details.
DOI: 10.15468/dl.pmt3kr
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Herpetology Collection - Instituto Nacional de Pesquisas da Amazônia",
 "TaxonKey is Thamnodynastes Wagler, 1830"
 ]
}

 The dataset includes 16 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012314-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2c53qq
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Platytroctes apus Günther, 1878",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((26.9648 28.8496,17.9648 28.8496,17.9648 19.8496,26.9648 19.8496,26.9648 28.8496))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012315-250525065834625/datasets/export for details.